Soil metagenomics: can we access the diversity?

Delmont, T., Cecillon, S., Clark, I. M., Simonet, P., Hirsch, P. R. and Vogel, T. 2010. Soil metagenomics: can we access the diversity? Abstracts 13th International Symposium on Microbial Ecology, Seattle, 22-27 August 2010 .

Related outputs

Identification and genomic analysis of a thermophilic bacterial strain that reduces ammonia loss from composting

A - Papers appearing in refereed journals

Chen, X., Feng, R., Du, Q., Mauchline, T. H., Clark, I. M., Lu, Y. and Liu, L. 2024. Identification and genomic analysis of a thermophilic bacterial strain that reduces ammonia loss from composting. Microbiology Spectrum. 0, pp. e00763-24. https://doi.org/10.1128/spectrum.00763-24

Geographic bioprospection of maize rhizoplane-associated bacteria for consortia construction and impact on plant growth and nutrient uptake under low P availability

A - Papers appearing in refereed journals

Nkir, D., Aallam, Y., Ibnyasser, A., Haddine, M., Benbrik, B., Barakat, A., Reid, T. E., Lund, G., Mauchline, T. H., Clark, I. M., Bargaz, A. and Rchiad, Z. 2024. Geographic bioprospection of maize rhizoplane-associated bacteria for consortia construction and impact on plant growth and nutrient uptake under low P availability. Environmental and Experimental Botany. 226 (October), p. 105939. https://doi.org/10.1016/j.envexpbot.2024.105939

Diversity and multifunctional potential for plant growth promotion in bacteria from soil and the rhizosphere

A - Papers appearing in refereed journals

Oliveira, L. M. D., Kavamura, V. N., Clark, I. M., Mauchline, T. H. and Souza, J. T. D. 2024. Diversity and multifunctional potential for plant growth promotion in bacteria from soil and the rhizosphere. Soil Use and Management. 40 (2), p. e13082. https://doi.org/10.1111/sum.13082

Data for: Agricultural intensification reduces selection of putative plant growth-promoting rhizobacteria in wheat

N - Datasets

Reid, T., Kavamura, V. N., Torres-Ballesteros, A., Smith, M., Abadie, M., Pawlett, M., Clark, I. M., Harris, J. A. and Mauchline, T. H. 2024. Data for: Agricultural intensification reduces selection of putative plant growth-promoting rhizobacteria in wheat. https://doi.org/10.23637/rothamsted.98zz7

The potato rhizosphere microbiota correlated to the yield of three different regions in Korea

A - Papers appearing in refereed journals

Bak, G., Lee, K. K., Clark, I. M., Mauchline, T. H., Kavamura, V. N., Lund, G., Jee, S., Lee, J., Kim, H. and Lee, Y. 2024. The potato rhizosphere microbiota correlated to the yield of three different regions in Korea. Scientific Reports. 14, p. 4536. https://doi.org/10.1038/s41598-024-55263-7

Agricultural intensification reduces selection of putative plant growth-promoting rhizobacteria in wheat

A - Papers appearing in refereed journals

Reid, T., Kavamura, V. N., Torres-Ballesteros, A., Smith, M. E., Abadie, M., Pawlett, M., Clark, I. M., Harris, J. A. and Mauchline, T. H. 2024. Agricultural intensification reduces selection of putative plant growth-promoting rhizobacteria in wheat. The ISME Journal. 18 (1), p. wrae131. https://doi.org/10.1093/ismejo/wrae131

Microbial Catabolic Activity: Methods, Pertinence, and Potential Interest for Improving Microbial Inoculant Efficiency

A - Papers appearing in refereed journals

Ndour, P. M. S., Bargaz, A., Rchiad, Z., Pawlett, M., Clark, I. M., Mauchline, T. H., Harris, J. and Lyamlouli, K. 2023. Microbial Catabolic Activity: Methods, Pertinence, and Potential Interest for Improving Microbial Inoculant Efficiency. Microbial Ecology. 86, pp. 2211-2230. https://doi.org/10.1007/s00248-023-02250-6

The UK Crop Microbiome Cryobank – Advancing Microbiome Research for Sustainable Agriculture

Conference keynote

Taketani, R. G., Ryan, M. J., Mauchline, T. H., Malone, J., Jones, S., Thompson, C., Bonnin, J. M., Stewart, H., Yau, P., Clark, I. M. and Holden, N. 2023. The UK Crop Microbiome Cryobank – Advancing Microbiome Research for Sustainable Agriculture.

A new Rothamsted long-term field experiment for the twenty-first century: principles and practice

A - Papers appearing in refereed journals

Li, X., Storkey, J., Mead, A., Shield, I. F., Clark, I. M., Ostler, R., Roberts, B. and Dobermann, A. 2023. A new Rothamsted long-term field experiment for the twenty-first century: principles and practice. Agronomy for Sustainable Development - ASD. 43 (5), p. 60. https://doi.org/10.1007/s13593-023-00914-8

Arable soil nitrogen dynamics reflect organic inputs via the extended composite phenotype

A - Papers appearing in refereed journals

Neal, A. L., Barrat, H., Bacq-Lebreuil, A., Qin, Y., Zhang, X., Takahashi, T., Rubio, V., Hughes, D. J., Clark, I. M., Cardenas, L. M., Gardiner, L., Krishna, R., Glendining, M. J., Ritz, K., Mooney, S. and Crawford, J. W. 2023. Arable soil nitrogen dynamics reflect organic inputs via the extended composite phenotype. Nature Food. 4, pp. 51-60. https://doi.org/10.1038/s43016-022-00671-z

The impact of drought length and intensity on N cycling gene abundance, transcription and the size of an N2O hot moment from a temperate grassland soil

A - Papers appearing in refereed journals

Barrat, H., Clark, I. M., Evans, J., Chadwick, D. R. and Cardenas, L. M. 2022. The impact of drought length and intensity on N cycling gene abundance, transcription and the size of an N2O hot moment from a temperate grassland soil. Soil Biology and Biochemistry. 168 (May), p. 108606. https://doi.org/10.1016/j.soilbio.2022.108606

Genetic diversity in nitrogen fertilizer responses and N gas emission in modern wheat

A - Papers appearing in refereed journals

Oszvald, M., Hassall, K. L., Hughes, D. J., Torres-Ballesteros, A., Clark, I. M., Riche, A. B. and Heuer, S. 2022. Genetic diversity in nitrogen fertilizer responses and N gas emission in modern wheat. Frontiers in Plant Science. 13, p. 816475. https://doi.org/10.3389/fpls.2022.816475

N2O hot moments were not driven by changes in nitrogen and carbon substrates or changes in N cycling functional genes

A - Papers appearing in refereed journals

Barrat, H., Charteris, A., Le Cocq, K., Abadie, M., Clark, I. M., Chadwick, D. R. and Cardenas, L. M. 2022. N2O hot moments were not driven by changes in nitrogen and carbon substrates or changes in N cycling functional genes. European Journal of Soil Science. 73 (1), p. e13190. https://doi.org/10.1111/ejss.13190

Land management legacy affects abundance and function of the acdS gene in wheat root associated pseudomonads

A - Papers appearing in refereed journals

Ruscoe, H., Taketani, R., Clark, I. M., Lund, G., Hughes, D. J., Dodd, I., Hirsch, P. R. and Mauchline, T. H. 2021. Land management legacy affects abundance and function of the acdS gene in wheat root associated pseudomonads. Frontiers in Microbiology. 12, p. 611339. https://doi.org/10.3389/fmicb.2021.611339

Theory of microbial coexistence in promoting soil–plant ecosystem health

A - Papers appearing in refereed journals

Zhang, N., Nunan, N., Hirsch, P. R., Sun, B., Zhou, J. and Liang, Y. 2021. Theory of microbial coexistence in promoting soil–plant ecosystem health. Biology And Fertility Of Soils. 57, p. 897–911. https://doi.org/10.1007/s00374-021-01586-w

Metagenomic approaches reveal differences in genetic diversity and relative abundance of nitrifying bacteria and archaea in contrasting soils

A - Papers appearing in refereed journals

Clark, I. M., Hughes, D. J., Fu, Q., Abadie, M. and Hirsch, P. R. 2021. Metagenomic approaches reveal differences in genetic diversity and relative abundance of nitrifying bacteria and archaea in contrasting soils . Scientific Reports. 11, p. 15905. https://doi.org/10.1038/s41598-021-95100-9

Relative contributions of bacteria and fungi to nitrous oxide emissions following nitrate application in soils representing different land uses

A - Papers appearing in refereed journals

Castellano-Hinojosa, A., Le Cocq, K., Charteris, A., Abadie, M., Chadwick, D. R., Clark, I. M., Bedmar, E. J. and Cardenas, L. M. 2021. Relative contributions of bacteria and fungi to nitrous oxide emissions following nitrate application in soils representing different land uses. International Biodeterioration & Biodegradation. 159, p. 105199. https://doi.org/10.1016/j.ibiod.2021.105199

Inorganic Chemical Fertilizer Application to Wheat Reduces the Abundance of Putative Plant Growth-Promoting Rhizobacteria

A - Papers appearing in refereed journals

Reid, T. E., Kavamura, V. N., Abadie, M., Torres-Ballesteros, A., Pawlett, M., Clark, I. M., Harris, J. and Mauchline, T. H. 2021. Inorganic Chemical Fertilizer Application to Wheat Reduces the Abundance of Putative Plant Growth-Promoting Rhizobacteria. Frontiers in Microbiology. 12 (article), p. 642587. https://doi.org/10.3389/fmicb.2021.642587

Microbiome Aggregated Traits and Assembly are More Sensitive to Soil Management than Diversity

A - Papers appearing in refereed journals

Neal, A. L., Hughes, D. J., Clark, I. M., Jansson, J. K. and Hirsch, P. R. 2021. Microbiome Aggregated Traits and Assembly are More Sensitive to Soil Management than Diversity. mSystems. 6 (3), pp. e01056-20. https://doi.org/10.1128/mSystems.01056-20

Century long fertilization reduces stochasticity controlling grassland microbial community succession

A - Papers appearing in refereed journals

Liang, Y., Ning, D., Lu, Z., Zhang, N., Hale, L., Wu, L., Clark, I. M., McGrath, S. P., Storkey, J., Hirsch, P. R., Sun ,B. and Zhou, J. 2020. Century long fertilization reduces stochasticity controlling grassland microbial community succession. Soil Biology and Biochemistry. 151 (Dec), p. 108023. https://doi.org/10.1016/j.soilbio.2020.108023

The impact of drought and rewetting on N2O emissions from soil in temperate and Mediterranean climates

A - Papers appearing in refereed journals

Barrat, H., Evans, J., Chadwick, D. R., Clark, I. M., Le Cocq, K. and Cardenas, L. M. 2020. The impact of drought and rewetting on N2O emissions from soil in temperate and Mediterranean climates. European Journal of Soil Science. https://doi.org/10.1111/ejss.13015

Edaphic factors and plants influence denitrification in soils from a long-term arable experiment

A - Papers appearing in refereed journals

Clark, I. M., Fu, Q., Abadie, M., Dixon, E. R., Blaud, A. and Hirsch, P. R. 2020. Edaphic factors and plants influence denitrification in soils from a long-term arable experiment. Scientific Reports. 10 (Article), p. 16053. https://doi.org/10.1038/s41598-020-72679-z

Significant structural evolution of a long-term fallow soil in response to agricultural management practices requires at least 10 years after conversion

A - Papers appearing in refereed journals

Bacq-Labreuil, A., Neal, A. L., Crawford, J. W., Mooney, S. J., Akkari, E., Zhang, X., Clark, I. M. and Ritz, K. 2020. Significant structural evolution of a long-term fallow soil in response to agricultural management practices requires at least 10 years after conversion. European Journal of Soil Science. https://doi.org/10.1111/ejss.13037

Bacterial and archaeal taxa are reliable indicators of soil restoration across distributed calcareous grasslands

A - Papers appearing in refereed journals

Armbruster, M., Goodall, T., Hirsch, P. R., Ostle, N., Puissant, J., Fagan, K. C., Pywell, R. F. and Griffiths, R. I. 2020. Bacterial and archaeal taxa are reliable indicators of soil restoration across distributed calcareous grasslands . European Journal of Soil Science. https://doi.org/10.1111/ejss.12977

Wheat dwarfing influences selection of the rhizosphere microbiome

A - Papers appearing in refereed journals

Kavamura, V. N., Robinson, R. J., Hughes, D., Clark, I. M., Rossmann, M., De Melo, I.S., Hirsch, P. R., Mendes, R. and Mauchline, T. H. 2020. Wheat dwarfing influences selection of the rhizosphere microbiome. Scientific Reports. 10, p. 1452. https://doi.org/10.1038/s41598-020-58402-y

Development of a defined compost system for the study of plant-microbe interactions

A - Papers appearing in refereed journals

Masters-Clark, E., Hirsch, P. R., Clark, I. M., Paradelo, M. and Mauchline, T. H. 2020. Development of a defined compost system for the study of plant-microbe interactions. Scientific Reports. 10, p. 7521. https://doi.org/10.1038/s41598-020-64249-0

Soil as an Extended Composite Phenotype of the Microbial Metagenome

A - Papers appearing in refereed journals

Neal, A. L., Bacq-Labreuil, A., Zhang, X., Clark, I. M., Coleman, K., Mooney, S. J., Ritz, K. and Crawford, J. W. 2020. Soil as an Extended Composite Phenotype of the Microbial Metagenome. Scientific Reports. 10, p. 10649. https://doi.org/10.1038/s41598-020-67631-0

The pH optimum of soil exoenzymes adapt to long term changes in soil pH

A - Papers appearing in refereed journals

Puissant, J., Briony, J., Goodall, T., Mang, D., Blaud, A., Gweon, H. S., Malik, A., Jones, D. L., Clark, I. M., Hirsch, P. R. and Griffiths, R. 2019. The pH optimum of soil exoenzymes adapt to long term changes in soil pH. Soil Biology and Biochemistry. 138, p. 107601. https://doi.org/10.1016/j.soilbio.2019.107601

Effects of urease and nitrification inhibitors on soil N, nitrifier abundance and activity in a sandy loam soil

A - Papers appearing in refereed journals

Fu, Q., Abadie, M., Blaud, A., Carswell, A. M., Misselbrook, T. H., Clark, I. M. and Hirsch, P. R. 2019. Effects of urease and nitrification inhibitors on soil N, nitrifier abundance and activity in a sandy loam soil . Biology And Fertility Of Soils. pp. 1-10. https://doi.org/10.1007/s00374-019-01411-5

Land management and microbial seed load effect on rhizosphere and endosphere bacterial community assembly in wheat

A - Papers appearing in refereed journals

Kavamura, V. N., Robinson, R. J., Hayat, R., Clark, I. M., Hughes, D. J., Rossmann, M., Hirsch, P. R., Mendes, R. and Mauchline, T. H. 2019. Land management and microbial seed load effect on rhizosphere and endosphere bacterial community assembly in wheat. Frontiers in Microbiology. 10 (2625). https://doi.org/10.3389/fmicb.2019.02625

Plant–microbe networks in soil are weakened by century‐long use of inorganic fertilizers

A - Papers appearing in refereed journals

Huang, R., McGrath, S. P., Hirsch, P. R., Clark, I. M., Storkey, J., Wu, L., Zhou, J. and Liang, Y. 2019. Plant–microbe networks in soil are weakened by century‐long use of inorganic fertilizers. Microbial Biotechnology. 12 (6), pp. 1464-1475. https://doi.org/10.1111/1751-7915.13487

Microorganisms Cycling Soil Nutrients

B - Book chapters etc edited externally

Hirsch, P. R. 2019. Microorganisms Cycling Soil Nutrients. in: Modern Soil Microbiology Florida CRC Press. pp. 179-192

Rothamsted Long-term experiments : guide to the classical and other long-term experiments, datasets and sample archive

E - Books edited/written by staff member, alone/with others

Macdonald, A. J., Poulton, P. R., Clark, I. M., Scott, T., Glendining, M. J., Perryman, S. A. M., Storkey, J., Bell, J. R., Shield, I. F., Mcmillan, V. E. and Hawkins, J. M. B. Macdonald, A. J. (ed.) 2018. Rothamsted Long-term experiments : guide to the classical and other long-term experiments, datasets and sample archive. Rothamsted Research, Harpenden.

The short-term effects of nitrification inhibitors on the abundance and expression of ammonia and nitrite oxidizers in a long-term field experiment comparing land management

A - Papers appearing in refereed journals

Fu, Q., Clark, I. M., Zhu, J., Hu, H. Q. and Hirsch, P. R. 2018. The short-term effects of nitrification inhibitors on the abundance and expression of ammonia and nitrite oxidizers in a long-term field experiment comparing land management. Biology And Fertility Of Soils. 54 (1), pp. 163-172. https://doi.org/10.1007/s00374-017-1249-2

Old meets new: most probable number validation of metagenomic and metatranscriptomic datasets in soil

A - Papers appearing in refereed journals

Mauchline, T. H., Hayat, R., Clark, I. M. and Hirsch, P. R. 2018. Old meets new: most probable number validation of metagenomic and metatranscriptomic datasets in soil. Letters in Applied Microbiology. 66 (1), pp. 14-18. https://doi.org/10.1111/lam.12821

Soil microorganisms: role in soil health

B - Book chapters etc edited externally

Hirsch, P. R. 2018. Soil microorganisms: role in soil health. in: Reicosky, D. (ed.) Managing Soil Health for Sustainable Agriculture. Volume 1: Fundamentals Cambridge, UK Burleigh Dodds. pp. 169-196

Land use driven change in soil pH affects microbial carbon cycling processes

A - Papers appearing in refereed journals

Malik, A.A., Puissant, J., Buckeridge, K.M., Goodall, T., Jehmlich, N., Chowdhury, S., Gweon, H.S., Peyton, J.M, Masson, K.E., van Agtmaal, M., Blaud, A., Clark, I. M., Whitaker, J., Pywell, R.F., Ostle, N., Gleixner, G. and Griffiths, R.I. 2018. Land use driven change in soil pH affects microbial carbon cycling processes. Nature Communications. 9 (3591). https://doi.org/10.1038/s41467-018-05980-1

Inorganic Nitrogen Application Affects Both Taxonomical and Predicted Functional Structure of Wheat Rhizosphere Bacterial Communities

A - Papers appearing in refereed journals

Nessner-Kavamura-Noguchi, V., Hayat, R., Clark, I. M., Rossmann, M., Mendes, R., Hirsch, P. R. and Mauchline, T. H. 2018. Inorganic Nitrogen Application Affects Both Taxonomical and Predicted Functional Structure of Wheat Rhizosphere Bacterial Communities. Frontiers in Microbiology. 9, p. 1074. https://doi.org/10.3389/fmicb.2018.01074

Spatial zoning of microbial functions and plant-soil nitrogen dynamics across a riparian area in an extensively grazed livestock system

A - Papers appearing in refereed journals

De Sosa, L. L., Glanville, C. C., Marshall, M. R., Williams, A. P., Abadie, M., Clark, I. M., Blaud, A. and Jones, D. L. 2018. Spatial zoning of microbial functions and plant-soil nitrogen dynamics across a riparian area in an extensively grazed livestock system. Soil Biology and Biochemistry. 120, pp. 153-164. https://doi.org/10.1016/j.soilbio.2018.02.004

Phylogenetic distribution, biogeography and the effects of land management upon bacterial non-specific Acid phosphatase Gene diversity and abundance

A - Papers appearing in refereed journals

Neal, A. L., Blackwell, M. S. A., Akkari, E., Clark, I. M., Hirsch, P. R. and Guyomar, C. 2018. Phylogenetic distribution, biogeography and the effects of land management upon bacterial non-specific Acid phosphatase Gene diversity and abundance. Plant and Soil. 427, pp. 175-189. https://doi.org/10.1007/s11104-017-3301-2

Is there sufficient Ensifer and Rhizobium species diversity in UK farmland soils to support red clover (Trifolium pratense), white clover (T. repens), lucerne (Medicago sativa) and black medic (M. lupulina)?

A - Papers appearing in refereed journals

Roberts, R., Jackson, R. W., Mauchline, T. H., Hirsch, P. R., Shaw, L. J., Doring, T. F. and Jones, H. E. 2017. Is there sufficient Ensifer and Rhizobium species diversity in UK farmland soils to support red clover (Trifolium pratense), white clover (T. repens), lucerne (Medicago sativa) and black medic (M. lupulina)? Applied Soil Ecology. 120, pp. 35-43. https://doi.org/10.1016/j.apsoil.2017.06.030

Effect of microbial activity on penetrometer resistance and elastic modulus of soil at different temperatures

A - Papers appearing in refereed journals

Gao, W., Muñoz-Romero, V., Ren, T., Ashton, R. W., Morin, M., Clark, I. M., Powlson, D. S. and Whalley, W. R. 2017. Effect of microbial activity on penetrometer resistance and elastic modulus of soil at different temperatures. European Journal of Soil Science. 68 (4), pp. 412-419. https://doi.org/10.1111/ejss.12440

Exploitation of endophytes for sustainable agricultural intensification Exploitation of endophytes

A - Papers appearing in refereed journals

Le Cocq, K., Gurr, S. J., Hirsch, P. R. and Mauchline, T. H. 2017. Exploitation of endophytes for sustainable agricultural intensification Exploitation of endophytes. Molecular Plant Pathology. 18 (3), pp. 469-473. https://doi.org/10.1111/mpp.12483

Soil resilience and recovery: rapid community responses to management changes

A - Papers appearing in refereed journals

Hirsch, P. R., Jhurreea, D., Williams, J. K., Murray, P. J., Scott, T., Misselbrook, T. H., Goulding, K. W. T. and Clark, I. M. 2017. Soil resilience and recovery: rapid community responses to management changes. Plant and Soil. 412 (1-2), pp. 283-297. https://doi.org/10.1007/s11104-016-3068-x

Land-use influences phosphatase gene microdiversity in soils

A - Papers appearing in refereed journals

Neal, A. L., Rossmann, M., Brearley, C., Akkari, E., Guyomar, C., Clark, I. M., Allen, E. and Hirsch, P. R. 2017. Land-use influences phosphatase gene microdiversity in soils. Environmental Microbiology. 19 (7), p. 2740–2753. https://doi.org/10.1111/1462-2920.13778

Long-Term Impact of Field Applications of Sewage Sludge on Soil Antibiotic Resistome

A - Papers appearing in refereed journals

Xie, W-Y., McGrath, S. P., Su, J. Q., Hirsch, P. R., Clark, I. M., Shen, Q., Zhu, Y-G. and Zhao, F-J. 2016. Long-Term Impact of Field Applications of Sewage Sludge on Soil Antibiotic Resistome. Environmental Science & Technology. 50 (23), pp. 12602-12611. https://doi.org/10.1021/acs.est.6b02138

Responses of microbial community from tropical pristine coastal soil to crude oil contamination

A - Papers appearing in refereed journals

Morais, D., Pylro, V., Clark, I. M., Hirsch, P. R. and Totola, M. R. 2016. Responses of microbial community from tropical pristine coastal soil to crude oil contamination. PeerJ. 4. https://doi.org/10.7717/peerj.1733

Misguided phylogenetic comparisons using DGGE excised bands may contaminate public sequence databases

A - Papers appearing in refereed journals

Pylro, V. S., Morais, D. K., Kalks, K. H. M., Roesch, L. F. W., Hirsch, P. R., Totola, M. R. and Yotoko, K. 2016. Misguided phylogenetic comparisons using DGGE excised bands may contaminate public sequence databases. Journal of Microbiological Methods. 126, pp. 18-23. https://doi.org/10.1016/j.mimet.2016.04.012

Endophytic bacterial community composition in wheat (Triticum aestivum) is determined by plant tissue type, developmental stage and soil nutrient availability

A - Papers appearing in refereed journals

Robinson, R. J., Fraaije, B. A., Clark, I. M., Jackson, R. W., Hirsch, P. R. and Mauchline, T. H. 2016. Endophytic bacterial community composition in wheat (Triticum aestivum) is determined by plant tissue type, developmental stage and soil nutrient availability. Plant and Soil. 405 (1-2), pp. 381-396. https://doi.org/10.1007/s11104-015-2495-4

Pseudomonas spp. diversity is negatively associated with suppression of the wheat take-all pathogen

A - Papers appearing in refereed journals

Mehrabi, Z., Mcmillan, V. E., Clark, I. M., Canning, G., Hammond-Kosack, K. E., Preston, G., Hirsch, P. R. and Mauchline, T. H. 2016. Pseudomonas spp. diversity is negatively associated with suppression of the wheat take-all pathogen. Scientific Reports. 6. https://doi.org/10.1038/srep29905

The unique contribution of Rothamsted to ecological research at large temporal scales

B - Book chapters etc edited externally

Storkey, J., Macdonald, A. J., Bell, J. R., Clark, I. M., Gregory, A. S., Hawkins, N. J., Hirsch, P. R., Todman, L. C. and Whitmore, A. P. 2016. The unique contribution of Rothamsted to ecological research at large temporal scales. in: Dumbrell, A. J., Kordas, R. L. and Woodward, G. (ed.) Advances in Ecological Research 55: Large-Scale Ecology: Model Systems to Global Perspectives Academic Press, Oxford. pp. 3-42

Wheat seed embryo excision enables the creation of axenic seedlings and Koch's postulates testing of putative bacterial endophytes

A - Papers appearing in refereed journals

Robinson, R. J., Fraaije, B. A., Clark, I. M., Jackson, R. W., Hirsch, P. R. and Mauchline, T. H. 2016. Wheat seed embryo excision enables the creation of axenic seedlings and Koch's postulates testing of putative bacterial endophytes. Scientific Reports. 6, p. 25581. https://doi.org/10.1038/srep25581

Novel European free-living, non-diazotrophic Bradyrhizobium isolates from contrasting soils that lack nodulation and nitrogen fixation genes - a genome comparison

A - Papers appearing in refereed journals

Jones, F. P., Clark, I. M., King, R., Shaw, L. J., Woodward, M. J. and Hirsch, P. R. 2016. Novel European free-living, non-diazotrophic Bradyrhizobium isolates from contrasting soils that lack nodulation and nitrogen fixation genes - a genome comparison. Scientific Reports. 6, p. 25858. https://doi.org/10.1038/srep25858

Metatranscriptomic census of active protists in soils

A - Papers appearing in refereed journals

Geisen, S., Tveit, A. T., Clark, I. M., Richter, A., Svenning, M. M., Bonkowski, M. and Urich, T. 2015. Metatranscriptomic census of active protists in soils. The ISME Journal. 9, pp. 2178-2190. https://doi.org/10.1038/ismej.2015.30

Soil pH determines microbial diversity and composition in the Park Grass Experiment

A - Papers appearing in refereed journals

Zhalnina, K., Dias, R., De Quadros, P. D., Davis-Richardson, A., Camargo, F. A. O., Clark, I. M., McGrath, S. P., Hirsch, P. R. and Triplett, E. W. 2015. Soil pH determines microbial diversity and composition in the Park Grass Experiment. Microbial Ecology. 69, pp. 395-406. https://doi.org/10.1007/s00248-014-0530-2

An analysis of Pseudomonas genomic diversity in take-all infected wheat fields reveals the lasting impact of wheat cultivars on the soil microbiota

A - Papers appearing in refereed journals

Mauchline, T. H., Chedom-Fotso, D., Chandra, G., Samuels, T., Greenaway, N., Backhaus, A., Mcmillan, V. E., Canning, G., Powers, S. J., Hammond-Kosack, K. E., Hirsch, P. R., Clark, I. M., Mehrabi, Z., Roworth, J., Burnell, J. and Malone, J. G. 2015. An analysis of Pseudomonas genomic diversity in take-all infected wheat fields reveals the lasting impact of wheat cultivars on the soil microbiota. Environmental Microbiology. 17 (11), pp. 4764-4778. https://doi.org/10.1111/1462-2920.13038

Over 150 years of long-term fertilization alters spatial scaling of microbial biodiversity

A - Papers appearing in refereed journals

Liang, Y., Wu, Liyou, Clark, I. M., Xue, K., Yang, Y., Van Nostrand, J. D., Deng, Y., He, Z., McGrath, S. P., Storkey, J., Hirsch, P. R., Sun, B. and Zhou, J. 2015. Over 150 years of long-term fertilization alters spatial scaling of microbial biodiversity. mBio. 6, pp. e00240-15. https://doi.org/10.1128/mBio.00240-15

The importance of the microbial N cycle in soil for crop plant nutrition

B - Book chapters etc edited externally

Hirsch, P. R. and Mauchline, T. H. 2015. The importance of the microbial N cycle in soil for crop plant nutrition. in: Sariaslani, S. and Gadd, G. M. (ed.) Advances in Applied Microbiology Vol.93 Elsevier.

Engineering soil organic matter quality: Biodiesel Co-Product (BCP) stimulates exudation of nitrogenous microbial biopolymers

A - Papers appearing in refereed journals

Redmile-Gordon, M. A., Evershed, R. P., Kuhl, A., Armenise, E., White, Robin P., Hirsch, P. R., Goulding, K. W. T. and Brookes, P. C. 2015. Engineering soil organic matter quality: Biodiesel Co-Product (BCP) stimulates exudation of nitrogenous microbial biopolymers. Geoderma. 259-260, pp. 205-212. https://doi.org/10.1016/j.geoderma.2015.06.006

Soil organic matter and the extracellular microbial matrix show contrasting responses to C and N availability

A - Papers appearing in refereed journals

Redmile-Gordon, M. A., Evershed, R. P., Hirsch, P. R., White, Robin P. and Goulding, K. W. T. 2015. Soil organic matter and the extracellular microbial matrix show contrasting responses to C and N availability. Soil Biology and Biochemistry. 88, pp. 257-267. https://doi.org/10.1016/j.soilbio.2015.05.025

The Rothamsted Long-term Experiments

A - Papers appearing in refereed journals

Macdonald, A. J., Powlson, D. S., Poulton, P. R., Watts, C. W., Clark, I. M., Storkey, J., Hawkins, N. J., Glendining, M. J., Goulding, K. W. T. and McGrath, S. P. 2015. The Rothamsted Long-term Experiments. Aspects of Applied Biology. 128.

Effects of the nitrification inhibitor 3,4-dimethylpyrazole phosphate (DMPP) on abundance and activity of ammonia oxidizers in soil

A - Papers appearing in refereed journals

Florio, A., Clark, I., Hirsch, P. R., Jhurreea, D. and Benedetti, A. 2014. Effects of the nitrification inhibitor 3,4-dimethylpyrazole phosphate (DMPP) on abundance and activity of ammonia oxidizers in soil. Biology And Fertility Of Soils. 50 (5), pp. 795-807. https://doi.org/10.1007/s00374-014-0897-8

The founding charter of the Genomic Observatories Network

A - Papers appearing in refereed journals

Davies, N., Field, D., Amaral-Zettler, L., Clark, M. S., Deck, J., Drummond, A., Faith, D. P., Geller, J., Gilbert, J., Glockner, F. O., Hirsch, P. R., Leong, J-A., Meyer, C., Obst, M., Planes, S., Scholin, C., Vogler, A. P., Gates, R. D., Toonen, R., Berteaux-Lecellier, V., Barbier, M., Barker, K., Bertilsson, S., Bicak, M., Bietz, M. J., Bobe, J., Bodrossy, L., Borja, A., Coddington, J., Fuhrman, J., Gerdts, G., Gillespie, R., Goodwin, K., Hanson, P. C., Hero, J-M., Hoekman, D., Jansson, J., Jeanthon, C., Kao, R., Klindworth, A., Knight, R., Kottmann, R., Koo, M. S., Kotoulas, G., Lowe, Andrew J., Marteinsson, V. T., Meyer, F., Morrison, N., Myrold, D. D., Pafilis, E., Parker, S., Parnell, J. J., Polymenakou, P. N., Ratnasingham, S., Roderick, G. K., Rodriguez-Ezpeleta, N., Schonrogge, K., Simon, N., Valette-Silver, N. J., Springer, Y. P., Stone, G. N., Stones-Havas, S., Sansone, S-A., Thibault, K. M., Wecker, P., Wichels, A., Wooley, J. C., Yahara, T. and Zingone, A. 2014. The founding charter of the Genomic Observatories Network. GigaScience. 3 (1), pp. 1-5. https://doi.org/10.1186/2047-217X-3-2

Attraction and preference of bacteriophagous and plant-parasitic nematodes towards different types of soil bacteria

A - Papers appearing in refereed journals

Tahseen, Q. and Clark, I. M. 2014. Attraction and preference of bacteriophagous and plant-parasitic nematodes towards different types of soil bacteria. Journal Of Natural History. 48, pp. 1485-1502. https://doi.org/10.1080/00222933.2013.873088

The impact of tissue type, growth stage and fertilizers on the community structure of cultured bacterial wheat endophytes in the Broadbalk experiment

C2 - Non-edited contributions to conferences

Robinson, R. R., Fraaije, B. A., Clark, I. M., Jackson, R. W., Hirsch, P. R. and Mauchline, T. H. 2014. The impact of tissue type, growth stage and fertilizers on the community structure of cultured bacterial wheat endophytes in the Broadbalk experiment. American Phytopathological Society (APS).

Brazilian Microbiome Project: revealing the unexplored microbial diversity - challenges and prospects

A - Papers appearing in refereed journals

Pylro, V. S., Roesch, L. F. W., Ortega, J. M., Do Amaral, A. M., Totola, M. R., Hirsch, P. R., Rosado, A. S., Goes-Neto, A., Da Costa Da Silva, A. L., Rosa, C. A., Morais, D. K., Andreote, F. D., Duarte, G. F., De Melo, I. S., Seldin, L., Lambais, M. R., Hungria, M., Peixoto, R. S., Kruger, R. H., Tsai, S. M. and Azevedo, V. 2014. Brazilian Microbiome Project: revealing the unexplored microbial diversity - challenges and prospects. Microbial Ecology. 67, pp. 237-241. https://doi.org/10.1007/s00248-013-0302-4

Data analysis for 16S microbial profiling from different benchtop sequencing platforms

A - Papers appearing in refereed journals

Pylro, V. S., Roesch, L. F. W., Morais, D. K., Clark, I. M., Hirsch, P. R. and Totola, M. R. 2014. Data analysis for 16S microbial profiling from different benchtop sequencing platforms. Journal of Microbiological Methods. 107 (December), pp. 30-37. https://doi.org/10.1016/j.mimet.2014.08.018

A combined cryo-scanning electron microscopy/cryoplaning approach to study the infection of Meloidogyne incognita eggs by Pochonia chlamydosporia

A - Papers appearing in refereed journals

Manzanilla-Lopez, R. H., Devonshire, J., Ward, E. and Hirsch, P. R. 2014. A combined cryo-scanning electron microscopy/cryoplaning approach to study the infection of Meloidogyne incognita eggs by Pochonia chlamydosporia. Nematology. 16, pp. 1059-1067. https://doi.org/10.1163/15685411-00002830

Assessment of core and accessory genetic variation in Rhizobium leguminosarum symbiovar trifolii strains from diverse locations and host plants using PCR-based methods

A - Papers appearing in refereed journals

Mauchline, T. H., Hayat, R., Roberts, R., Powers, S. J. and Hirsch, P. R. 2014. Assessment of core and accessory genetic variation in Rhizobium leguminosarum symbiovar trifolii strains from diverse locations and host plants using PCR-based methods. Letters in Applied Microbiology. 59 (2), pp. 238-246. https://doi.org/10.1111/lam.12270

Measuring the soil-microbial interface: extraction of extracellular polymeric substances (EPS) from soil biofilms

A - Papers appearing in refereed journals

Redmile-Gordon, M. A., Brookes, P. C., Evershed, R. P., Goulding, K. W. T. and Hirsch, P. R. 2014. Measuring the soil-microbial interface: extraction of extracellular polymeric substances (EPS) from soil biofilms. Soil Biology and Biochemistry. 72 (May), pp. 163-171. https://doi.org/10.1016/j.soilbio.2014.01.025

Biodiesel co-product (BCP) decreases soil nitrogen (N) losses to groundwater

A - Papers appearing in refereed journals

Redmile-Gordon, M. A., Armenise, E., Hirsch, P. R. and Brookes, P. C. 2014. Biodiesel co-product (BCP) decreases soil nitrogen (N) losses to groundwater. Water Air And Soil Pollution. 225, p. 1831. https://doi.org/10.1007/s11270-013-1831-7

Bacterial endophytes in wheat (Triticum aestivum): isolation, characterisation and bio-prospecting

C2 - Non-edited contributions to conferences

Robinson, R., Mauchline, T. H., Hirsch, P. R., Jackson, R., Frost, H. and Fraaije, B. A. 2013. Bacterial endophytes in wheat (Triticum aestivum): isolation, characterisation and bio-prospecting. Schneider, C. (ed.) Abstracts 5th International Symposium on Plant Protection and Plant Health in Europe: Endophytes for Plant Protection: the State of the Art, Berlin, 26-29 May 2013 . DPG, Braunschweig. pp. 4-6

A comparison of two colorimetric assays, based upon Lowry and Bradford techniques, to estimate total protein in soil extracts

A - Papers appearing in refereed journals

Redmile-Gordon, M. A., Armenise, E., White, Robin P., Hirsch, P. R. and Goulding, K. W. T. 2013. A comparison of two colorimetric assays, based upon Lowry and Bradford techniques, to estimate total protein in soil extracts. Soil Biology and Biochemistry. 67, pp. 166-173. https://doi.org/10.1016/j.soilbio.2013.08.017

Potential mineralization and nitrification in volcanic grassland soils in Chile

A - Papers appearing in refereed journals

Cardenas, L. M., Hatch, D. J., Scholefield, D., Jhurreea, D., Clark, I. M., Hirsch, P. R., Salazar, F., Rao-Ravella, S. and Alfaro, M. 2013. Potential mineralization and nitrification in volcanic grassland soils in Chile. Soil Science and Plant Nutrition. 59, pp. 380-391. https://doi.org/10.1080/00380768.2013.789395

Culture-independent molecular approaches to microbial ecology in soil and rhizosphere

B - Book chapters etc edited externally

Hirsch, P. R., Mauchline, T. H. and Clark, I. M. 2013. Culture-independent molecular approaches to microbial ecology in soil and rhizosphere. in: Debruijn, F. J. (ed.) Molecular microbial ecology of the rhizosphere, Volume 1 John Wiley & Sons Hoboken, N.J.. pp. 45-55

Do root exudates exert more influence on rhizosphere bacterial community structure than other rhizodeposits?

B - Book chapters etc edited externally

Hirsch, P. R., Miller, A. J. and Dennis, P. G. 2013. Do root exudates exert more influence on rhizosphere bacterial community structure than other rhizodeposits? in: Debruijn, F. J. (ed.) Molecular microbial ecology of the rhizosphere, Volume 1 John Wiley & Sons Hoboken, N.J.. pp. 229-242

Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments

A - Papers appearing in refereed journals

Zhalnina, K., De Quadros, P. D., Gano, K. A., Davis-Richardson, A., Fagen, J. R., Brown, C. T., Giongo, A., Drew, J. C., Sayavedra-Soto, L. A., Arp, D. J., Camargo, F. A. O., Daroub, S. H., Clark, I. M., McGrath, S. P., Hirsch, P. R. and Triplett, E. W. 2013. Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments. Frontiers in Microbiology. 4, p. 104. https://doi.org/10.3389/fmicb.2013.00104

Pochonia chlamydosporia: advances and challenges to improve its performance as a biological control agent of sedentary endo-parasitic nematodes

A - Papers appearing in refereed journals

Manzanilla-Lopez, R. H., Esteves, I., Finetti-Sialer, M. M., Hirsch, P. R., Ward, E., Devonshire, J. and Hidalgo-Diaz, L. 2013. Pochonia chlamydosporia: advances and challenges to improve its performance as a biological control agent of sedentary endo-parasitic nematodes. Journal of Nematology. 45 (1), pp. 1-7.

Light microscopy and cryo SEM observations on Pochonia chlamydosporia parasitism in root-knot nematodes

C2 - Non-edited contributions to conferences

Manzanilla-Lopez, R. H., Devonshire, J., Ward, E. and Hirsch, P. R. 2012. Light microscopy and cryo SEM observations on Pochonia chlamydosporia parasitism in root-knot nematodes. Abstracts 31st International Symposium of the European Society of Nematologists, Adana, Turkey, 23-27 September 2012 . pp. 215

Structure, fluctuation and magnitude of a natural grassland soil metagenome

A - Papers appearing in refereed journals

Delmont, T. O., Prestat, E., Keegan, K. P., Faubladier, M., Robe, P., Clark, I. M., Pelletier, E., Hirsch, P. R., Meyer, F., Gilbert, J. A., Le Paslier, D., Simonet, P. and Vogel, T. M. 2012. Structure, fluctuation and magnitude of a natural grassland soil metagenome. The ISME Journal. 6, pp. 1677-1687. https://doi.org/10.1038/ismej.2011.197

Who's who in the plant root microbiome?

A - Papers appearing in refereed journals

Hirsch, P. R. and Mauchline, T. H. 2012. Who's who in the plant root microbiome? Nature Biotechnology. 30, pp. 961-962. https://doi.org/10.1038/nbt.2387

The Pochonia chlamydosporia serine protease gene vcp1 is subject to regulation by carbon, nitrogen and pH: implications for nematode biocontrol

A - Papers appearing in refereed journals

Ward, E., Kerry, B. R., Manzanilla-Lopez, R. H., Mutua, G., Devonshire, J., Kimenju, J. and Hirsch, P. R. 2012. The Pochonia chlamydosporia serine protease gene vcp1 is subject to regulation by carbon, nitrogen and pH: implications for nematode biocontrol. PLOS ONE. 7, p. e35657. https://doi.org/10.1371/journal.pone.0035657

Impacts of nitrogen application rates on the activity and diversity of denitrifying bacteria in the Broadbalk Wheat Experiment

A - Papers appearing in refereed journals

Clark, I. M., Buchkina, N., Jhurreea, D., Goulding, K. W. T. and Hirsch, P. R. 2012. Impacts of nitrogen application rates on the activity and diversity of denitrifying bacteria in the Broadbalk Wheat Experiment. Philosophical Transactions of the Royal Society B-Biological Sciences. 367, pp. 1235-1244. https://doi.org/10.1098/rstb.2011.0314

Pasteuria endospores from Heterodera cajani (Nematoda: Heteroderidae) exhibit inverted attachment and altered germination in cross-infection studies with Globodera pallida (Nematoda: Heteroderidae)

A - Papers appearing in refereed journals

Mohan, S., Mauchline, T. H., Rowe, J., Hirsch, P. R. and Davies, K. G. 2012. Pasteuria endospores from Heterodera cajani (Nematoda: Heteroderidae) exhibit inverted attachment and altered germination in cross-infection studies with Globodera pallida (Nematoda: Heteroderidae). FEMS Microbiology Ecology. 79 (3), pp. 675-684. https://doi.org/10.1111/j.1574-6941.2011.01249.x

A genomic network to monitor Earth

G - Articles in popular magazines and other technical publications

Davies, N., Field, D. and Hirsch, P. R. 2012. A genomic network to monitor Earth. Nature. 481 (7380), p. 145. https://doi.org/10.1038/481145a

Multi-scale approaches to investigating C dynamics in grassland systems

C2 - Non-edited contributions to conferences

Dungait, J. A. J., Bol, R., Murray, P. J., Dixon, E. R., Granger, S. J., Crotty, F. V., Hirsch, P. R., Evershed, R. and Goulding, K. W. T. 2011. Multi-scale approaches to investigating C dynamics in grassland systems. Abstracts AGU Fall Meeting 2011, San Francisco, 5-9 December 2011 .

Soil metagenomics reveals impacts of land management on microbial communities in long-term field experiments

C2 - Non-edited contributions to conferences

Hirsch, P. R. 2011. Soil metagenomics reveals impacts of land management on microbial communities in long-term field experiments. Abstracts 2011 International Conference on Soil Omics (ICSO), Nanjing, 19-24 November 2011 .

The role of soil bacteria in nitrogen cycling

C2 - Non-edited contributions to conferences

Hirsch, P. R. 2011. The role of soil bacteria in nitrogen cycling. Abstracts SEE11: Joint Meeting of the Royal Entomological Society of London and the Soil Ecology Society, Plymouth, 14-16 September 2011 .

Identification of new single nucleotide polymorphism-based markers for inter- and intraspecies discrimination of obligate bacterial parasites (Pasteuria spp.) of invertebrates

A - Papers appearing in refereed journals

Mauchline, T. H., Knox, R., Mohan, S., Powers, S. J., Kerry, B. R., Davies, K. G. and Hirsch, P. R. 2011. Identification of new single nucleotide polymorphism-based markers for inter- and intraspecies discrimination of obligate bacterial parasites (Pasteuria spp.) of invertebrates. Applied and Environmental Microbiology. 77, pp. 6388-6394. https://doi.org/10.1128/AEM.05185-11

Ecology of Pochonia chlamydosporia in the rhizosphere at the population, whole organism and molecular scales

B - Book chapters etc edited externally

Kerry, B. R. and Hirsch, P. R. 2011. Ecology of Pochonia chlamydosporia in the rhizosphere at the population, whole organism and molecular scales. in: Davies, K. G. and Spiegel, Y. (ed.) Biological control of plant-parasitic nematodes: building coherence between microbial ecology and molecular mechanisms Springer, Dordrecht. pp. 171-182

Metagenomic comparison of direct and indirect soil DNA extraction approaches

A - Papers appearing in refereed journals

Delmont, T. O., Robe, P., Clark, I. M., Simonet, P. and Vogel, T. M. 2011. Metagenomic comparison of direct and indirect soil DNA extraction approaches. Journal of Microbiological Methods. 86 (3), pp. 397-400. https://doi.org/10.1016/j.mimet.2011.06.013

Pochonia chlamydosporia: advances and challenges to improve its performance as a biological control agent of sedentary endo-parasitic nematodes

C2 - Non-edited contributions to conferences

Manzanilla-Lopez, R. H., Esteves, I., Finetti-Sialer, M., Hirsch, P. R., Ward, E., Devonshire, J., Hidalgo, L. and Kerry, B. R. 2011. Pochonia chlamydosporia: advances and challenges to improve its performance as a biological control agent of sedentary endo-parasitic nematodes. Abstracts 50th Annual Meeting of the Society of Nematologists, Corvallis, 17-20 July 2011 . pp. 105-106

Exploring competitiveness and genetic variation in the nematophagous fungus Pochonia chlamydosporia var. chlamydosporia and its significance for biological control

C1 - Edited contributions to conferences/learned societies

Manzanilla-Lopez, R. H., Clark, I. M., Atkins, S. D., Hirsch, P. R. and Kerry, B. R. 2011. Exploring competitiveness and genetic variation in the nematophagous fungus Pochonia chlamydosporia var. chlamydosporia and its significance for biological control.

Transcriptome analysis shows differential gene expression in the saprotrophic to parasitic transition of Pochonia chlamydosporia

A - Papers appearing in refereed journals

Rosso, L. C., Finetti-Sialer, M. M., Hirsch, P. R., Ciancio, A., Kerry, B. R. and Clark, I. M. 2011. Transcriptome analysis shows differential gene expression in the saprotrophic to parasitic transition of Pochonia chlamydosporia. Applied Microbiology and Biotechnology. 90, pp. 1981-1994. https://doi.org/10.1007/s00253-011-3282-7

Development of a real-time PCR assay for detection and quantification of Rhizobium leguminosarum bacteria and discrimination between different biovars in zinc-contaminated soil

A - Papers appearing in refereed journals

Macdonald, C. A., Clark, I. M., Hirsch, P. R., Zhao, F-J. and McGrath, S. P. 2011. Development of a real-time PCR assay for detection and quantification of Rhizobium leguminosarum bacteria and discrimination between different biovars in zinc-contaminated soil. Applied and Environmental Microbiology. 77, pp. 4626-4633. https://doi.org/10.1128/AEM.02232-10

Impacts of land use change on denitrifying bacteria and nitrous oxide emissions

C2 - Non-edited contributions to conferences

Hirsch, P. R., Jhurreea, D., Scott, T., Misselbrook, T. H., Goulding, K. W. T. and Clark, I. M. 2011. Impacts of land use change on denitrifying bacteria and nitrous oxide emissions. Abstracts Theo Murphy Scientific Meeting: Nitrous Oxide, the Forgotten Greenhouse Gas, Chicheley, 23-24 May 2011 .

Nutrient regulation of parasitism genes in the nematophagous fungus Pochonia chlamydosporia

C2 - Non-edited contributions to conferences

Ward, E., Kerry, B. R., Manzanilla-Lopez, R. H. and Hirsch, P. R. 2011. Nutrient regulation of parasitism genes in the nematophagous fungus Pochonia chlamydosporia. Abstracts 26th Fungal Genetics Conference, Asilomar, 15-20 March 2011 . pp. 237

Long-term impacts of zinc and copper enriched sewage sludge additions on bacterial, archaeal and fungal communities in arable and grassland soils

A - Papers appearing in refereed journals

Macdonald, C. A., Clark, I. M., Zhao, F-J., Hirsch, P. R., Singh, B. K. and McGrath, S. P. 2011. Long-term impacts of zinc and copper enriched sewage sludge additions on bacterial, archaeal and fungal communities in arable and grassland soils. Soil Biology and Biochemistry. 43, pp. 932-941. https://doi.org/10.1016/j.soilbio.2011.01.004

Accessing the soil metagenome for studies of microbial diversity

A - Papers appearing in refereed journals

Delmont, T. O., Robe, P., Cecillon, S., Clark, I. M., Constancias, F., Simonet, P., Hirsch, P. R. and Vogel, T. M. 2011. Accessing the soil metagenome for studies of microbial diversity. Applied and Environmental Microbiology. 77 (4), pp. 1315-1324. https://doi.org/10.1128/AEM.01526-10

Soil management in relation to sustainable agriculture and ecosystem services

A - Papers appearing in refereed journals

Powlson, D. S., Gregory, P. J., Whalley, W. R., Quinton, J. N., Hopkins, D. W., Whitmore, A. P., Hirsch, P. R. and Goulding, K. W. T. 2011. Soil management in relation to sustainable agriculture and ecosystem services. Food Policy. 36, pp. S72-S87. https://doi.org/10.1016/j.foodpol.2010.11.025

Soil without plants: the consequences for microorganisms and mesofauna

C1 - Edited contributions to conferences/learned societies

Goulding, K. W. T., Murray, P. J., Sohi, S. P., Gilliam, L. M., Williams, J. K., Clark, I. M. and Hirsch, P. R. 2010. Soil without plants: the consequences for microorganisms and mesofauna. Gilkes, R. and Prakongkep, N. (ed.) Proceedings 19th World Congress of Soil Science, Brisbane, 1-6 August 2010 . Australian Society of Soil Science, Warragul. pp. 1622-1625

Nutrient regulation of parasitism in Pochonia chlamydosporia

C2 - Non-edited contributions to conferences

Ward, E., Mutua, G., Manzanilla-Lopez, R. H., Kerry, B. R., Kimenju, J. and Hirsch, P. R. 2010. Nutrient regulation of parasitism in Pochonia chlamydosporia. Abstracts ONTA 42nd Annual Meeting, Quito, Ecuador, 3-8 October 2010 . pp. 40

Exploring microbial diversity - methods and meaning

B - Book chapters etc edited externally

Ogilvie, L. A. and Hirsch, P. R. 2010. Exploring microbial diversity - methods and meaning. in: Tepper, G. H. (ed.) Species diversity and extinction Nova Science Publishers, Hauppauge. pp. 24pp

Pochonia chlamydosporia: some biological and physiological aspects in the host-parasite relationship

C2 - Non-edited contributions to conferences

Manzanilla-Lopez, R. H., Kerry, B. R., Esteves, I., Ward, E. and Hirsch, P. R. 2010. Pochonia chlamydosporia: some biological and physiological aspects in the host-parasite relationship. Abstracts ONTA 42nd Annual Meeting, Quito, Ecuador, 3-8 October 2010 . pp. 10

Effects of long-term fertilization and liming on microbial functions and diversity in the grassland site at Rothamsted Research, UK

C2 - Non-edited contributions to conferences

Wu, Liyou, Liang, Y., Clark, I. M., Wue, K., Deng, Y., He, Z., Van Nostrand, J., Macdonald, C., Hirsch, P. R., McGrath, S. P. and Zhou, J. 2010. Effects of long-term fertilization and liming on microbial functions and diversity in the grassland site at Rothamsted Research, UK. Abstracts 13th International Symposium on Microbial Ecology, Seattle, 22-27 August 2010 .

Relative impact of soil, metal source and metal concentration on bacterial community structure and community tolerance

A - Papers appearing in refereed journals

Macdonald, C. A., Yang, X., Clark, I. M., Zhao, F-J., Hirsch, P. R. and McGrath, S. P. 2010. Relative impact of soil, metal source and metal concentration on bacterial community structure and community tolerance. Soil Biology and Biochemistry. 42, pp. 1408-1417. https://doi.org/10.1016/j.soilbio.2010.05.002

Targeting the active bacterial communities in soil pores

C2 - Non-edited contributions to conferences

Mccabe, D., Clark, I. M., Sohi, S., Shaw, E. and Hirsch, P. R. 2010. Targeting the active bacterial communities in soil pores. Abstracts 13th International Symposium on Microbial Ecology, Seattle, 22-27 August 2010 .

Effects of long-term fertilization on spatial distribution patterns of microbial functional genes from the Rothamsted Experimental site

C2 - Non-edited contributions to conferences

Liang, Y., Wu, Liyou, Clark, I. M., Xue, K., Deng, Y., He, Z., Hirsch, P. R., McGrath, S. P. and Zhou, J. 2010. Effects of long-term fertilization on spatial distribution patterns of microbial functional genes from the Rothamsted Experimental site. Abstracts 13th International Symposium on Microbial Ecology, Seattle, 22-27 August 2010 .

Long-term agricultural experiments reveal N influence on ammonia oxidizers and the predominance of CA. nitrososphaera

C2 - Non-edited contributions to conferences

Giongo, A., Gano,K., Roesch, L., Casella, G., Daroub, S., Ramiez, K., Sayavedra-Soto, L., Arp, D., Clark, I. M., Hirsch, P. R., McGrath, S. P. and Triplett, E. 2010. Long-term agricultural experiments reveal N influence on ammonia oxidizers and the predominance of CA. nitrososphaera. Abstracts 13th International Symposium on Microbial Ecology, Seattle, 22-27 August 2010 .

A method for release and multiple strand amplification of small quantities of DNA from endospores of the fastidious bacterium Pasteuria penetrans

A - Papers appearing in refereed journals

Mauchline, T. H., Mohan, S., Davies, K. G., Schaff, J. E., Opperman, C. H., Kerry, B. R. and Hirsch, P. R. 2010. A method for release and multiple strand amplification of small quantities of DNA from endospores of the fastidious bacterium Pasteuria penetrans. Letters in Applied Microbiology. 50 (5), pp. 515-521. https://doi.org/10.1111/j.1472-765X.2010.02830.x

Culture-independent molecular techniques for soil microbial ecology

A - Papers appearing in refereed journals

Hirsch, P. R., Mauchline, T. H. and Clark, I. M. 2010. Culture-independent molecular techniques for soil microbial ecology. Soil Biology and Biochemistry. 42 (6), pp. 878-887. https://doi.org/10.1016/j.soilbio.2010.02.019

Are root exudates more important than other sources of rhizodeposits in structuring rhizosphere bacterial communities?

A - Papers appearing in refereed journals

Dennis, P. G., Miller, A. J. and Hirsch, P. R. 2010. Are root exudates more important than other sources of rhizodeposits in structuring rhizosphere bacterial communities? FEMS Microbiology Ecology. 72 (3), pp. 313-327. https://doi.org/10.1111/j.1574-6941.2010.00860.x

Role of antecedent soil moisture on microbial populations involved in gaseous N2O emissions - use of isotopomers to understand sources

C2 - Non-edited contributions to conferences

Cardenas, L. M., Bol, R., Bergstermann, A., Meijide, A., Hirsch, P. R., Jhurreea, D., Clark, I. M., Gilliam, L., Goulding, K. W. T., Well, R. and Scholefield, D. 2010. Role of antecedent soil moisture on microbial populations involved in gaseous N2O emissions - use of isotopomers to understand sources. Abstracts Stable Isotope Mass-Spectrometry User Group (SIMSUG) Meeting, Exeter, 28-30 April 2010 .

Are long-term changes in soil organic matter reflected in the soil communities?

C2 - Non-edited contributions to conferences

Murray, P. J., Hirsch, P. R., Gilliam, L. M., Sohi, S. P., Williams, J. K., Clark, I. M. and Brookes, P. C. 2009. Are long-term changes in soil organic matter reflected in the soil communities?

Are long-term changes in soil organic matter reflected in the soil communities?

C2 - Non-edited contributions to conferences

Brookes, P. C., Hirsch, P. R., Gilliam, L. M., Clark, I. M., Sohi, S. P., Williams, J. K. and Murray, P. J. 2009. Are long-term changes in soil organic matter reflected in the soil communities? Abstracts 2009 International Annual Meetings of ASA-CSSA-SSSA: Footprints in the Landscape: Sustainability through Plant and Soil Sciences, Pittsburgh, 1-5 November 2009 .

Are long-term changes in soil organic matter reflected in the soil communities?

C2 - Non-edited contributions to conferences

Murray, P. J., Hirsch, P. R., Gilliam, L. M., Sohi, S. P., Williams, J. K., Clark, I. M. and Brookes, P. C. 2009. Are long-term changes in soil organic matter reflected in the soil communities? Abstracts Forming Bridges in a Changing World: Society of Nematologists and Soil Ecology Society Conference, Burlington, 12-15 July 2009 .

A rapid method for release and multiple strand amplification of small quantities of DNA from Pasteuria penetrans endospores

C2 - Non-edited contributions to conferences

Mauchline, T. H., Mohan, S., Davies, K. G., Kerry, B. R. and Hirsch, P. R. 2009. A rapid method for release and multiple strand amplification of small quantities of DNA from Pasteuria penetrans endospores. Abstracts AAB Conference on Advances in Nematology, London, 15 December 2009 .

Through the keyhole: a key to open the bacterial lock; aka using BrdU to target pore space diversity

C2 - Non-edited contributions to conferences

Mccabe, D., Clark, I. M., Sohi, S. P., Shaw, L. and Hirsch, P. R. 2009. Through the keyhole: a key to open the bacterial lock; aka using BrdU to target pore space diversity. Abstracts Micro Soil: Integrating Biological, Physical and Chemical Techniques for the Study of Soil Micro-Habitats, Dundee, 16-17 September 2009 . pp. 24-25

Microhabitat scale methods in microbial ecology

C2 - Non-edited contributions to conferences

Dennis, P., Miller, A. J., Kilburn, M., Taylor, R., Valsami-Jones, E., Grovenor, C. and Hirsch, P. R. 2009. Microhabitat scale methods in microbial ecology. Abstracts Micro Soil: Integrating Biological, Physical and Chemical Techniques for the Study of Soil Micro-Habitats, Dundee, 16-17 September 2009 . pp. 19

Microbial diversity maintained in soils starved of plant inputs for 50 years

C2 - Non-edited contributions to conferences

Clark, I. M., Gilliam, L. M., Sohi, S. P., Williams, J., Murray, P. J. and Hirsch, P. R. 2009. Microbial diversity maintained in soils starved of plant inputs for 50 years. Abstracts BAGECO 10: Bacterial Genetics and Ecology - Coexisting on a Changing Planet, Uppsala, 15-19 June 2009 . pp. 119

What can we learn from the Rothamsted Classical Experiments using molecular techniques

C2 - Non-edited contributions to conferences

Hirsch, P. R. 2009. What can we learn from the Rothamsted Classical Experiments using molecular techniques. Abstracts UK-Brazil Workshop on Soil Quality and Soil Processes, Rio de Janeiro, 20-27 March 2009 . pp. 13

Sampling bacteria at the microhabitat scale

C2 - Non-edited contributions to conferences

Hirsch, P. R., Dennis, P. G. and Miller, A. J. 2009. Sampling bacteria at the microhabitat scale. Abstracts Micro Soil: Integrating Biological, Physical and Chemical Techniques for the Study of Soil Micro-Habitats, Dundee, 16-17 September 2009 . pp. 9

What plants do for soil and what happens after they've gone

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Clark, I. M. 2009. What plants do for soil and what happens after they've gone. Abstracts Plant Soil Interactions: Joint Meeting of the Scottish Root Group and the Scottish Discussion Group of the British Society of Soil Science, Aberdeen, 3 November 2009 .

Sequencing the microbial metagenome of an iconic grassland soil, the Rothamsted Park Grass Experiment

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Clark, I. M. 2009. Sequencing the microbial metagenome of an iconic grassland soil, the Rothamsted Park Grass Experiment. Abstracts BAGECO 10: Bacterial Genetics and Ecology - Coexisting on a Changing Planet, Uppsala, 15-19 June 2009 . pp. 73

The impact of nutrition on parasitism of nematode eggs by Pochonia chlamydosporia

C2 - Non-edited contributions to conferences

Mutua, G., Kerry, B. R., Hirsch, P. R., Kimenju, J., Manzanilla-Lopez, R. H. and Ward, E. 2009. The impact of nutrition on parasitism of nematode eggs by Pochonia chlamydosporia. Abstracts BSPP Presidential Meeting. Darwin to Disease: Crops and their Pathogens, Oxford 21-22 september 2009 .

Advantages of the metagenomic approach for soil exploration: reply from Vogel et al

A - Papers appearing in refereed journals

Vogel, T. M., Hirsch, P. R., Simonet, P., Jansson, J. K., Tiedje, J. M., Van Elsas, J. D., Nalin, R., Philippot, L. and Bailey, M. J. 2009. Advantages of the metagenomic approach for soil exploration: reply from Vogel et al. Nature Reviews Microbiology. 7, pp. 756-757. https://doi.org/10.1038/nrmicro2119-c3

Starving the soil of plant inputs for 50 years reduces abundance but not diversity of soil bacterial communities

A - Papers appearing in refereed journals

Hirsch, P. R., Gilliam, L. M., Sohi, S. P., Williams, J. K., Clark, I. M. and Murray, P. J. 2009. Starving the soil of plant inputs for 50 years reduces abundance but not diversity of soil bacterial communities. Soil Biology and Biochemistry. 41 (9), pp. 2021-2024. https://doi.org/10.1016/j.soilbio.2009.07.011

Use of real-time quantitative PCR to investigate root and gall colonisation by co-inoculated isolates of the nematophagous fungus Pochonia chlamydosporia

A - Papers appearing in refereed journals

Atkins, S. D., Peteira, B., Clark, I. M., Kerry, B. R. and Hirsch, P. R. 2009. Use of real-time quantitative PCR to investigate root and gall colonisation by co-inoculated isolates of the nematophagous fungus Pochonia chlamydosporia. Annals of Applied Biology - AAB. 155, pp. 143-152. https://doi.org/10.1111/j.1744-7348.2009.00333.x

Caracterizacion del hongo nematofago cepa IMI SD 187 de Pochonia chlamydosporia var. catenulata (Kamyscho ex Barron y Onions) Zare y Gams

C2 - Non-edited contributions to conferences

Peteira, B., Hidalgo, L., Esteves, I., Montes De Oca, N., Atkins, S. D., Hirsch, P. R. and Kerry, B. R. 2009. Caracterizacion del hongo nematofago cepa IMI SD 187 de Pochonia chlamydosporia var. catenulata (Kamyscho ex Barron y Onions) Zare y Gams.

Measuring abundance, diversity and parasitic ability in two populations of the nematophagous fungus Pochonia chlamydosporia var. chlamydosporia

A - Papers appearing in refereed journals

Manzanilla-Lopez, R. H., Atkins, S. D., Clark, I. M., Kerry, B. R. and Hirsch, P. R. 2009. Measuring abundance, diversity and parasitic ability in two populations of the nematophagous fungus Pochonia chlamydosporia var. chlamydosporia. Biocontrol Science and Technology. 19, pp. 391-406. https://doi.org/10.1080/09583150902783793

Exploring competitiveness and genetic variation in the nematophagous fungus Pochonia chlamydosporia var. chlamydosporia and its significance for biological control

C2 - Non-edited contributions to conferences

Manzanilla-Lopez, R. H., Clark, I. M., Atkins, S., Hirsch, P. R. and Kerry, B. R. 2009. Exploring competitiveness and genetic variation in the nematophagous fungus Pochonia chlamydosporia var. chlamydosporia and its significance for biological control. Abstracts IOBC 5th Meeting on Multitrophic Interactions in Soil, Uppsala, 11-13 June 2009 . pp. 27

TerraGenome: a consortium for the sequencing of a soil metagenome

A - Papers appearing in refereed journals

Vogel, T. M., Simonet, P., Jansson, J. K., Hirsch, P. R., Tiedje, J. M., Van Elsas, J. D., Bailey, M. J., Nalin, R. and Philippot, L. 2009. TerraGenome: a consortium for the sequencing of a soil metagenome. Nature Reviews Microbiology. 7, p. 252. https://doi.org/10.1038/nrmicro2119

Rapid and reliable DNA extraction and PCR fingerprinting methods to discriminate multiple biotypes of the nematophagous fungus Pochonia chlamydosporia isolated from plant rhizospheres

A - Papers appearing in refereed journals

Manzanilla-Lopez, R. H., Clark, I. M., Atkins, S. D., Hirsch, P. R. and Kerry, B. R. 2009. Rapid and reliable DNA extraction and PCR fingerprinting methods to discriminate multiple biotypes of the nematophagous fungus Pochonia chlamydosporia isolated from plant rhizospheres. Letters in Applied Microbiology. 48 (1), pp. 71-76. https://doi.org/10.1111/j.1472-765X.2008.02489.x

Linking rhizoplane pH and bacterial density at the microhabitat scale

A - Papers appearing in refereed journals

Dennis, P. G., Hirsch, P. R., Smith, S. J., Taylor, R. G., Valsami-Jones, E. and Miller, A. J. 2009. Linking rhizoplane pH and bacterial density at the microhabitat scale. Journal of Microbiological Methods. 76, pp. 101-104. https://doi.org/10.1016/j.mimet.2008.09.013

Long-term impacts of metal-rich sludge additions on soil microbial communities - effects of metal source and soil type

C2 - Non-edited contributions to conferences

Macdonald, C., Yang, X., Clark, I. M., Hirsch, P. R. and McGrath, S. P. 2008. Long-term impacts of metal-rich sludge additions on soil microbial communities - effects of metal source and soil type. Abstracts 12th International Symposium on Microbial Ecology (ISME12): Microbial Diversity - Sustaining the Blue Planet, Cairns, 17-22 August 2008 .

Interactions on roots and the efficacy of Pochonia chlamydosporia as a biological control agent

C2 - Non-edited contributions to conferences

Kerry, B. R., Clark, I. M., Esteves, I., Finetti, M., Hirsch, P. R., Gomez-Gil, L., Manzanilla-Lopez, R. H. and Rosso, L. C. 2008. Interactions on roots and the efficacy of Pochonia chlamydosporia as a biological control agent. Abstracts 6th Seminario Cientifico Internacional de Sanidad Vegetal, Habana, 22-26 September 2008 .

New approaches to an old problem: linking soil quality and microbial communities

C2 - Non-edited contributions to conferences

Hirsch, P. R. 2008. New approaches to an old problem: linking soil quality and microbial communities. Abstracts BSSS Autumn Meeting on Something Old, Something New: Integrating Molecular Biology with Other Techniques in Soil Science, Harpenden, 17 September 2008 .

Survival of bacterial DNA and culturable bacteria in archived soils from the Rothamsted Broadbalk experiment

C2 - Non-edited contributions to conferences

Clark, I. M. 2008. Survival of bacterial DNA and culturable bacteria in archived soils from the Rothamsted Broadbalk experiment. Abstracts BSSS Autumn Meeting on Something Old, Something New: Integrating Molecular Biology with Other Techniques in Soil Science, Harpenden, 17 September 2008 .

Bacterial diversity of the Broadbalk 'Classical' winter wheat experiment in relation to long-term fertilizer inputs

A - Papers appearing in refereed journals

Ogilvie, L. A., Hirsch, P. R. and Johnston, A. W. B. 2008. Bacterial diversity of the Broadbalk 'Classical' winter wheat experiment in relation to long-term fertilizer inputs. Microbial Ecology. 56, pp. 525-537. https://doi.org/10.1007/s00248-008-9372-0

A novel method for sampling bacteria on plant root and soil surfaces at the microhabitat scale

A - Papers appearing in refereed journals

Dennis, P. G., Miller, A. J., Clark, I. M., Taylor, R. G., Valsami-Jones, E. and Hirsch, P. R. 2008. A novel method for sampling bacteria on plant root and soil surfaces at the microhabitat scale. Journal of Microbiological Methods. 75, pp. 12-18. https://doi.org/10.1016/j.mimet.2008.04.013

Gene expression profiles in Pochonia chlamydosporia in conditions of saprotrophic-to-parasite transition

C2 - Non-edited contributions to conferences

Finetti-Sialer, M., Hirsch, P. R., Kerry, B. R. and Clark, I. M. 2008. Gene expression profiles in Pochonia chlamydosporia in conditions of saprotrophic-to-parasite transition. Abstracts 5th International Congress of Nematology, Brisbane, 13-18 July 2008 .

Ecology of Pochonia chlamydosporia in the rhizosphere

C2 - Non-edited contributions to conferences

Kerry, B. R. and Hirsch, P. R. 2008. Ecology of Pochonia chlamydosporia in the rhizosphere. Abstracts 5th International Congress of Nematology, Brisbane, 13-18 July 2008 . pp. 153

Rhizobial symbioses - past, present and future

C2 - Non-edited contributions to conferences

Hirsch, P. R. 2008. Rhizobial symbioses - past, present and future. Abstracts Biological Nitrogen Fixation Convening, Seattle, 21-22 April 2008 .

Survival of bacterial DNA and culturable bacteria in archived soils from the Rothamsted Broadbalk experiment

A - Papers appearing in refereed journals

Clark, I. M. and Hirsch, P. R. 2008. Survival of bacterial DNA and culturable bacteria in archived soils from the Rothamsted Broadbalk experiment. Soil Biology and Biochemistry. 40, pp. 1090-1102. https://doi.org/10.1016/j.soilbio.2007.11.021

Controls on soil nitrogen cycling and microbial community composition across land use and incubation temperature

A - Papers appearing in refereed journals

Cookson, W. R., Osman, M., Marschner, P., Abaye, D. A., Clark, I. M., Murphy, D. V., Stockdale, E. A. and Watson, C. A. 2007. Controls on soil nitrogen cycling and microbial community composition across land use and incubation temperature. Soil Biology and Biochemistry. 39, pp. 744-756. https://doi.org/10.1016/j.soilbio.2006.09.022

Non-destructive micro-scale sampling of bacteria from a root surface using a tungsten rod with a standardised sampling area controlled by a micromanipulator

D1 - Technical reports: non-confidential

Dennis, P. G., Miller, A. J. and Hirsch, P. R. 2006. Non-destructive micro-scale sampling of bacteria from a root surface using a tungsten rod with a standardised sampling area controlled by a micromanipulator. Swiss Federal Research Institute, Birmensdorf.

DNA fingerprinting methodology to monitor infectivity, competition and rhizosphere competence of Pochonia chlamydosporia isolates within bulk soil, rhizoshere and Meloidogyne incognita egg masses

C2 - Non-edited contributions to conferences

Manzanilla-Lopez, R. H., Clark, I. M., Atkins, S., Hirsch, P. R. and Kerry, B. R. 2006. DNA fingerprinting methodology to monitor infectivity, competition and rhizosphere competence of Pochonia chlamydosporia isolates within bulk soil, rhizoshere and Meloidogyne incognita egg masses. Abstracts AAB Conference on Advances in Nematology, London, 12 December 2006 .

Assessing genetic diversity of Pochonia chlamydosporia populations using ERIC primers

C2 - Non-edited contributions to conferences

Manzanilla-Lopez, R. H., Clark, I. M., Hirsch, P. R. and Kerry, B. R. 2006. Assessing genetic diversity of Pochonia chlamydosporia populations using ERIC primers. Abstracts 38th ONTA Annual Meeting, San Jose, 26-30 June 2006 .

Biological and chemical characterisation of microsites in the rhizosphere

C2 - Non-edited contributions to conferences

Dennis, P. G., Miller, A. J. and Hirsch, P. R. 2006. Biological and chemical characterisation of microsites in the rhizosphere. Abstracts Final Meeting of COST Action 631. From Understanding and Modelling to Application: Managing the Natural Potentials of the Rhizosphere for Designing Rhizosphere Technologies, Prague, 20-23 April 2006 . pp. 7

Novel method to investigate spatiotemporal trends in rhizosphere bacterial communities

C2 - Non-edited contributions to conferences

Dennis, P. G., Miller, A. J. and Hirsch, P. R. 2006. Novel method to investigate spatiotemporal trends in rhizosphere bacterial communities. Abstracts 158th Meeting of the Society for General Microbiology, Warwick, 3-6 April 2006 . pp. 52

Monitoring active bacterial communities in soil

C2 - Non-edited contributions to conferences

Clark, I. M., Cookson, W. R., Hampshire, D. and Hirsch, P. R. 2006. Monitoring active bacterial communities in soil. Abstracts 158th Meeting of the Society for General Microbiology, Warwick, 3-6 April 2006 . pp. 52

The influence of season, agricultural management and soil properties on gross nitrogen transformations and bacterial community structure

A - Papers appearing in refereed journals

Cookson, W. R., Marschner, P., Clark, I. M., Milton, N., Smirk, M. N., Murphy, D. V., Osman, M., Stockdale, E. A. and Hirsch, P. R. 2006. The influence of season, agricultural management and soil properties on gross nitrogen transformations and bacterial community structure. Australian journal of soil research. 44, pp. 453-465. https://doi.org/10.1071/SR05042

Distribution of environmental mycobacteria in Karonga District, Northern Malawi

A - Papers appearing in refereed journals

Chilima, B. Z., Clark, I. M., Floyd, S., Fine, P. E. M. and Hirsch, P. R. 2006. Distribution of environmental mycobacteria in Karonga District, Northern Malawi. Applied and Environmental Microbiology. 72 (4), pp. 2343-2350. https://doi.org/10.1128/AEM.72.4.2343-2350.2006

Life in earth: the impact of GM plants on soil ecology?

A - Papers appearing in refereed journals

Lilley, A. K., Bailey, M. J., Cartwright, C., Turner, S. L. and Hirsch, P. R. 2006. Life in earth: the impact of GM plants on soil ecology? Trends in Biotechnology. 24, pp. 9-14. https://doi.org/10.1016/j.tibtech.2005.11.005

Real-time PCR to monitor and assess the efficacy of two types of inoculum of the nematophagous fungus Pochonia chlamydosporia var. catenulata against root-knot nematode populations in the field

A - Papers appearing in refereed journals

Peteira, B., Puertas, A., Hidalgo-Diaz, L., Hirsch, P. R., Kerry, B. R. and Atkins, S. D. 2005. Real-time PCR to monitor and assess the efficacy of two types of inoculum of the nematophagous fungus Pochonia chlamydosporia var. catenulata against root-knot nematode populations in the field. Biotecnologia Aplicada. 22, pp. 261-266.

Novel method to investigate spatiotemporal trends in bacterial communities in the rhizosphere

C2 - Non-edited contributions to conferences

Dennis, P. G., Miller, A. J. and Hirsch, P. R. 2005. Novel method to investigate spatiotemporal trends in bacterial communities in the rhizosphere. Abstracts 11th Annual UK Molecular Microbial Ecology Group Meeting (MMEG-11), Norwich, 11-12 July 2005 .

Impact of the nematophagous fungus Pochonia chlamydosporia on nematode and microbial populations

A - Papers appearing in refereed journals

Tahseen, Q., Clark, I. M., Atkins, S. D., Hirsch, P. R. and Kerry, B. R. 2005. Impact of the nematophagous fungus Pochonia chlamydosporia on nematode and microbial populations. Communications in Agricultural and Applied Biological Sciences. 70(1), pp. 81-86.

Changes in the microbial community of an arable soil caused by long-term metal contamination

A - Papers appearing in refereed journals

Abaye, D. A., Lawlor, K., Hirsch, P. R. and Brookes, P. C. 2005. Changes in the microbial community of an arable soil caused by long-term metal contamination. European Journal of Soil Science. 56 (1), pp. 93-102. https://doi.org/10.1111/j.1365-2389.2004.00648.x

The use of real-time PCR and species-specific primers for the identification and monitoring of Paecilomyces lilacinus

A - Papers appearing in refereed journals

Atkins, S. D., Clark, I. M., Pande, S., Hirsch, P. R. and Kerry, B. R. 2005. The use of real-time PCR and species-specific primers for the identification and monitoring of Paecilomyces lilacinus. FEMS Microbiology Ecology. 51 (2), pp. 257-264. https://doi.org/10.1016/j.femsec.2004.09.002

Novel method to investigate microbial community structure in microsites in the rhizosphere

C2 - Non-edited contributions to conferences

Dennis, P. G., Miller, A. J., Valsami-Jones, E., Taylor, R. G. and Hirsch, P. R. 2004. Novel method to investigate microbial community structure in microsites in the rhizosphere. Abstracts International Congress on the Rhizosphere: Perspectives and Challenges - a Tribute to Lorenz Hiltner, Munich, 12-17 September 2004 . pp. 184

Detection of microbial DNA sequences by colony hybridization

B - Book chapters etc edited externally

Hirsch, P. R. 2004. Detection of microbial DNA sequences by colony hybridization. in: Kowalchuk, G. A. (ed.) Molecular microbial ecology manual, 2nd ed. Part 1 Kluwer Academic Publishers, Dordrecht, Netherlands. pp. 345-356

Impact of genetically modified bacterial inoculants on the soil microbial community

C1 - Edited contributions to conferences/learned societies

Hirsch, P. R. and Clark, I. M. 2004. Impact of genetically modified bacterial inoculants on the soil microbial community. GM Crops - Ecological Dimensions. Aspects of Applied Biology 74 . pp. 141-153

Release of transgenic bacterial inoculants - rhizobia as a case study

A - Papers appearing in refereed journals

Hirsch, P. R. 2004. Release of transgenic bacterial inoculants - rhizobia as a case study. Plant and Soil. 266, pp. 1-10.

Dissecting the tri-trophic interaction between Pochonia chlamydosporia , root-knot nematodes and their plant hosts

C1 - Edited contributions to conferences/learned societies

Morton, C. O., Atkins, S. D., Hirsch, P. R. and Kerry, B. R. 2004. Dissecting the tri-trophic interaction between Pochonia chlamydosporia , root-knot nematodes and their plant hosts.

Biological variation in Verticillium chlamydosporium isolated from different nematode hosts

C1 - Edited contributions to conferences/learned societies

Morton, C. O., Hirsch, P. R., Peberdy, J. and Kerry, B. R. 2004. Biological variation in Verticillium chlamydosporium isolated from different nematode hosts.

Variation in Pochonia chlamydosporia and its potential as a biological control agent for root-knot nematodes

C1 - Edited contributions to conferences/learned societies

Kerry, B. R., Atkins, S. D., Mauchline, T. H., Morton, C. O. and Hirsch, P. R. 2004. Variation in Pochonia chlamydosporia and its potential as a biological control agent for root-knot nematodes.

Fungal molecular diagnostics of nematophagous fungi

C1 - Edited contributions to conferences/learned societies

Atkins, S. D., Clark, I. M., Morton, C. O. and Kerry, B. R. 2004. Fungal molecular diagnostics of nematophagous fungi.

Investigation of three nematophagous fungi in two potato cyst nematode suppressive soils

C1 - Edited contributions to conferences/learned societies

Atkins, S. D., Sosnowska, D., Evans, V. J., Clark, I. M., Hirsch, P. R. and Kerry, B. R. 2004. Investigation of three nematophagous fungi in two potato cyst nematode suppressive soils.

Infection of plant-parasitic nematodes by nematophagous fungi - a review of the application of molecular biology to understand infection processes and to improve biological control

A - Papers appearing in refereed journals

Morton, C. O., Hirsch, P. R. and Kerry, B. R. 2004. Infection of plant-parasitic nematodes by nematophagous fungi - a review of the application of molecular biology to understand infection processes and to improve biological control. Nematology. 6, pp. 161-170.

Development of a transformation system for the nematophagous fungus Pochonia chlamydosporia

A - Papers appearing in refereed journals

Atkins, S. D., Mauchline, T. H., Kerry, B. R. and Hirsch, P. R. 2004. Development of a transformation system for the nematophagous fungus Pochonia chlamydosporia. Mycological Research. 108 (6), pp. 654-661. https://doi.org/10.1017/S0953756204009906

The biocontrol fungus Pochonia chlamydosporia shows nematode host preference at the infraspecific level

A - Papers appearing in refereed journals

Mauchline, T. H., Kerry, B. R. and Hirsch, P. R. 2004. The biocontrol fungus Pochonia chlamydosporia shows nematode host preference at the infraspecific level. Mycological Research. 108 (2), pp. 161-169. https://doi.org/10.1017/S095375620300889X

Isolates of the generalist parasite Pochonia chlamydosporia have specific interactions with their nematode hosts

C2 - Non-edited contributions to conferences

Kerry, B. R., Morton, C. O., Mauchline, T. H. and Hirsch, P. R. 2003. Isolates of the generalist parasite Pochonia chlamydosporia have specific interactions with their nematode hosts. Abstracts British Ecological Society 2003 Annual Symposium on Biological Diversity and Function in Soils, Lancaster, 25-27 March 2003 . pp. 26

Detection and quantification of Plectosphaerella cucumerina , a potential biological control agent of potato cyst nematodes, using real-time PCR

C2 - Non-edited contributions to conferences

Atkins, S. D., Clark, I. M., Sosnowska, D., Hirsch, P. R. and Kerry, B. R. 2003. Detection and quantification of Plectosphaerella cucumerina , a potential biological control agent of potato cyst nematodes, using real-time PCR. Abstracts 11th International Congress on Molecular Plant Microbe Interactions, St Petersburg, 18-27 July 2003 .

How does Pochonia chlamydosporia limit populations of root-knot nematodes?

C2 - Non-edited contributions to conferences

Kerry, B. R., Atkins, S. D., Gray, P., Hidalgo-Diaz, L., Hirsch, P. R., Mauchline, T. H. and Morton, C. O. 2003. How does Pochonia chlamydosporia limit populations of root-knot nematodes?

Vorticella sp. infestations in nematodes: a report

A - Papers appearing in refereed journals

Tahseen, Q., Clark, I. M. and Kerry, B. R. 2003. Vorticella sp. infestations in nematodes: a report. Nematologia mediterranea. 31, pp. 195-196.

Nutrient dynamics in the rhizosphere

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Miller, A. J. 2003. Nutrient dynamics in the rhizosphere.

A case study: the soil ecosystem

C2 - Non-edited contributions to conferences

Hirsch, P. R. 2003. A case study: the soil ecosystem. Abstracts Royal Society Discussion Meeting on GM Crops, Modern Agriculture and the Environment, London, 11 February 2003 .

The influence of the root-knot nematode Meloidogyne incognita , the nematicide aldicarb and the nematophagous fungus Pochonia chlamydosporia on heterotrophic bacteria in soil and the rhizosphere

A - Papers appearing in refereed journals

O'flaherty, S. M., Hirsch, P. R. and Kerry, B. R. 2003. The influence of the root-knot nematode Meloidogyne incognita , the nematicide aldicarb and the nematophagous fungus Pochonia chlamydosporia on heterotrophic bacteria in soil and the rhizosphere. European Journal of Soil Science. 54 (4), pp. 759-766. https://doi.org/10.1046/j.1365-2389.2003.00568.x

Detection and quantification of Plectosphaerella cucumerina , a potential biological control agent of potato cyst nematodes, by using conventional PCR, real-time PCR, selective media, and baiting

A - Papers appearing in refereed journals

Atkins, S. D., Clark, I. M., Sosnowska, D., Hirsch, P. R. and Kerry, B. R. 2003. Detection and quantification of Plectosphaerella cucumerina , a potential biological control agent of potato cyst nematodes, by using conventional PCR, real-time PCR, selective media, and baiting. Applied and Environmental Microbiology. 69, pp. 4788-4793.

Co-induction of glutathione-S-transferases and multidrug resistance associated protein by xenobiotics in wheat

A - Papers appearing in refereed journals

Theodoulou, F. L., Clark, I. M., He, X-L., Pallett, K. E., Cole, D. J. and Hallahan, D. L. 2003. Co-induction of glutathione-S-transferases and multidrug resistance associated protein by xenobiotics in wheat. Pest Management Science. 59 (2), pp. 202-214. https://doi.org/10.1002/ps.576

Cloning of and genetic variation in protease VCP1 from the nematophagous fungus Pochonia chlamydosporia

A - Papers appearing in refereed journals

Morton, C. O., Hirsch, P. R., Peberdy, J. P. and Kerry, B. R. 2003. Cloning of and genetic variation in protease VCP1 from the nematophagous fungus Pochonia chlamydosporia. Mycological Research. 107 (1), pp. 38-46. https://doi.org/10.1017/S0953756202007050

Approaches for monitoring the release of Pochonia chlamydosporia var. catenulata , a biocontrol agent of root-knot nematodes

A - Papers appearing in refereed journals

Atkins, S. D., Hidalgo-Diaz, L., Clark, I. M., Morton, C. O., Montes De Oca, N., Gray, P. A. and Kerry, B. R. 2003. Approaches for monitoring the release of Pochonia chlamydosporia var. catenulata , a biocontrol agent of root-knot nematodes. Mycological Research. 107, pp. 206-212.

Development of a new management strategy for the control of root-knot nematodes (Meloidogyne spp) in organic vegetable production

A - Papers appearing in refereed journals

Atkins, S. D., Hidalgo-Diaz, L., Kalisz, H., Mauchline, T. H., Hirsch, P. R. and Kerry, B. R. 2003. Development of a new management strategy for the control of root-knot nematodes (Meloidogyne spp) in organic vegetable production. Pest Management Science. 59 (2), pp. 183-189. https://doi.org/10.1002/ps.603

PCR-based DNA fingerprinting indicates host-related genetic variation in the nematophagous fungus Pochonia chlamydosporia

A - Papers appearing in refereed journals

Morton, C. O., Mauchline, T. H., Kerry, B. R. and Hirsch, P. R. 2003. PCR-based DNA fingerprinting indicates host-related genetic variation in the nematophagous fungus Pochonia chlamydosporia. Mycological Research. 107, pp. 198-205.

Variance in Pochonia chlamydosporia and its importance in the regulation of nematode populations in the rhizosphere

C2 - Non-edited contributions to conferences

Kerry, B. R., Morton, C. O., Mauchline, T. H. and Hirsch, P. R. 2002. Variance in Pochonia chlamydosporia and its importance in the regulation of nematode populations in the rhizosphere. Abstracts Symposium on the Role of Genetics and Evolution in Biological Control, Montpellier, 14-16 October 2002 .

Isolates of the generalist parasite Pochonia chlamydosporia have specific interactions with their nematode hosts

C2 - Non-edited contributions to conferences

Kerry, B. R., Morton, C. O., Mauchline, T. H. and Hirsch, P. R. 2002. Isolates of the generalist parasite Pochonia chlamydosporia have specific interactions with their nematode hosts. Abstracts 4th International Congress of Nematology, Tenerife, 8-13 June 2002 .

Initial testing of potential fungal biological control agents for potato cyst nematodes

C1 - Edited contributions to conferences/learned societies

Atkins, S. D., Clark, I. M., Sosnowska, D. and Kerry, B. R. 2002. Initial testing of potential fungal biological control agents for potato cyst nematodes. Proceedings Brighton Crop Protection Conference - Pests and Diseases, 2002 . pp. 79-84

Impact of GM bacterial inoculants on the soil microbial community

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Clark, I. M. 2002. Impact of GM bacterial inoculants on the soil microbial community. Abstracts International Conference on GMOs - Ecological Dimensions, Reading, 9-11 September 2002 .

Release of transgenic bacterial inoculants in Europe

C2 - Non-edited contributions to conferences

Hirsch, P. R. 2002. Release of transgenic bacterial inoculants in Europe. Abstracts Symposium on the Impact of GMOs: Soil Microbiology and Nutrient Dynamics, Vienna, 3-6 November 2002 .

Fate of GM rhizobial inoculants: lessons from Europe and elsewhere

C1 - Edited contributions to conferences/learned societies

Hirsch, P. R. 2002. Fate of GM rhizobial inoculants: lessons from Europe and elsewhere. Proceedings 7th International Symposium on the Biosafety of GMOs, Beijing, 10-17 October 2002 . pp. 243-250

Genetic and functional diversity in the rhizosphere of oilseed rape, wheat and potatoes

C2 - Non-edited contributions to conferences

Gilliam, L. M., Clark, I. M. and Hirsch, P. R. 2002. Genetic and functional diversity in the rhizosphere of oilseed rape, wheat and potatoes. Abstracts BAGECO-7: 7th Symposium on Bacterial Genetics and Ecology, Bergen, 15-19 June 2002 . pp. 86

Interactions in the root environment - an integrated approach. The Rothamsted Millennium Conference

E - Books edited/written by staff member, alone/with others

Powlson, D. S., Bateman, G. L., Davies, K. G., Gaunt, J. L. and Hirsch, P. R. Barlow, P. W. (ed.) 2002. Interactions in the root environment - an integrated approach. The Rothamsted Millennium Conference. Kluwer Academic Publishers, Dordrecht, Netherlands.

Changes in the population structure of beta-group autotrophic ammonia oxidising bacteria in arable soils in response to agricultural practice

A - Papers appearing in refereed journals

Mendum, T. A. and Hirsch, P. R. 2002. Changes in the population structure of beta-group autotrophic ammonia oxidising bacteria in arable soils in response to agricultural practice. Soil Biology and Biochemistry. 34, pp. 1479-1485.

The influence of the symbiotic plasmid pRL1J1 on the distribution of GM rhizobia in soil and crop rhizospheres, and implications for gene flow

A - Papers appearing in refereed journals

Clark, I. M., Mendum, T. A. and Hirsch, P. R. 2002. The influence of the symbiotic plasmid pRL1J1 on the distribution of GM rhizobia in soil and crop rhizospheres, and implications for gene flow. Antonie van Leeuwenhoek. 81, pp. 607-616.

The role of the rhizobium symbiotic plasmid in survival in the soil and the rhizosphere

C2 - Non-edited contributions to conferences

Clark, I. M. and Hirsch, P. R. 2002. The role of the rhizobium symbiotic plasmid in survival in the soil and the rhizosphere. Abstracts BAGECO-7: 7th Symposium on Bacterial Genetics and Ecology, Bergen, 15-19 June 2002 .

The fate of genetically modified rhizobial inoculants in the field

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Clark, I. M. 2002. The fate of genetically modified rhizobial inoculants in the field. Abstracts 8th New Phytologist Symposium, Helsinki, 10-14 June 2002 .

Quantification in soil and the rhizosphere of the nematophagous fungus Verticillium chlamydosporium by competitive PCR and comparison with selective plating

A - Papers appearing in refereed journals

Mauchline, T. H., Kerry, B. R. and Hirsch, P. R. 2002. Quantification in soil and the rhizosphere of the nematophagous fungus Verticillium chlamydosporium by competitive PCR and comparison with selective plating. Applied and Environmental Microbiology. 68, pp. 1846-1853.

Failure of the Mycobacterium bovis BCG vaccine: some species of environmental mycobacteria block multiplication of BCG and induction of protective immunity to tuberculosis

A - Papers appearing in refereed journals

Brandt, L., Feino Cunha, J., Weinreich O. A., Chilima, B., Hirsch, P. R., Appelberg, R. and Andersen, P. 2002. Failure of the Mycobacterium bovis BCG vaccine: some species of environmental mycobacteria block multiplication of BCG and induction of protective immunity to tuberculosis. Infection And Immunity. 70, pp. 672-678. https://doi.org/10.1128/iai.70.2.672-678.2002

Foreword to Proceedings of the Rothamsted Millennium Conference on Interactions in the Root Environment

G - Articles in popular magazines and other technical publications

Powlson, D. S., Bateman, G. L., Davies, K. G., Gaunt, J. L., Hirsch, P. R. and Barlow, P. W. 2001. Foreword to Proceedings of the Rothamsted Millennium Conference on Interactions in the Root Environment. Plant and Soil. 232, pp. 1-2.

The role of soil microorganisms in soil organic matter conservation in the tropics

A - Papers appearing in refereed journals

Powlson, D. S., Hirsch, P. R. and Brookes, P. C. 2001. The role of soil microorganisms in soil organic matter conservation in the tropics. Nutrient Cycling in Agroecosystems. 61 (1), pp. 41-51. https://doi.org/10.1023/A:1013338028454

Transgenic releases, analysis of gene flow and fluctuations in indigenous bacterial communities

D1 - Technical reports: non-confidential

Hirsch, P. R. 2001. Transgenic releases, analysis of gene flow and fluctuations in indigenous bacterial communities. European Commission, Luxembourg.

Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites

D1 - Technical reports: non-confidential

Hirsch, P. R. 2001. Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites. European Commission, Luxembourg.

Assessing the risks involved in the release of genetically manipulated microorganisms

D1 - Technical reports: non-confidential

Amarger, N., Hirsch, P. R. and Klingmuller, W. 2001. Assessing the risks involved in the release of genetically manipulated microorganisms. European Commission, Luxembourg.

Measurement of the impact of Verticillium chlamydosporium on the dynamics of sedentary nematodes in the rhizosphere

C1 - Edited contributions to conferences/learned societies

Kerry, B. R., Atkins, S. D., Mauchline, T. H. and Hirsch, P. R. 2001. Measurement of the impact of Verticillium chlamydosporium on the dynamics of sedentary nematodes in the rhizosphere.

Understanding and exploiting interactions between nitrogen-fixing bacteria and plants

B - Book chapters etc edited externally

Hirsch, P. R. and Micanovic, D. 2001. Understanding and exploiting interactions between nitrogen-fixing bacteria and plants. in: Quarrie, S. A., Stojanovic, S., Knezevic, D., Atanassov, A. and Janjic, V. (ed.) Genetics and breeding of small grains ARI-Serbia, Belgrade. pp. 335-347

Soil microbial fatty acids as indicators of heavy metal pollution and soil quality

C2 - Non-edited contributions to conferences

Abaye, D., Lawlor, K., Hirsch, P. R. and Brookes, P. C. 2001. Soil microbial fatty acids as indicators of heavy metal pollution and soil quality. Abstracts 9th International Symposium on Microbial Ecology (ISME 9): Interactions in the Microbial World, Amsterdam, 26-31 August 2001 . pp. 204

Characterization of two novel Rhizobium leguminosarum bacteriophages from a field release site of genetically-modified rhizobia

A - Papers appearing in refereed journals

Mendum, T. A., Clark, I. M. and Hirsch, P. R. 2001. Characterization of two novel Rhizobium leguminosarum bacteriophages from a field release site of genetically-modified rhizobia. Antonie van Leeuwenhoek. 79 (2), pp. 189-197. https://doi.org/10.1023/a:1010238412538

Molecular approaches to studies of the interactions of Verticillium chlamydosporium in the rhizosphere of root-knot nematode infected plants

C2 - Non-edited contributions to conferences

Kerry, B. R., O'flaherty, S., Mauchline, T. H., Morton, C. O. and Hirsch, P. R. 2001. Molecular approaches to studies of the interactions of Verticillium chlamydosporium in the rhizosphere of root-knot nematode infected plants. Abstracts 4th International Scientific Seminar of Plant Health/33rd Annual Meeting of the Organization of Nematologists of Tropical America (ONTA), Varadera, Cuba, 11-15 June 2001 . pp. 12-13

Methods for studying the nematophagous fungus Verticillium chlamydosporium in the root environment

A - Papers appearing in refereed journals

Hirsch, P. R., Atkins, S. D., Mauchline, T. H., Morton, C. O., Davies, K. G. and Kerry, B. R. 2001. Methods for studying the nematophagous fungus Verticillium chlamydosporium in the root environment. Plant and Soil. 232, pp. 21-30.

The development of Verticillium chlamydosporium as a biological control agent of root-knot nematodes in organic vegetable production in Havana

C2 - Non-edited contributions to conferences

Hidalgo, L., Bourne, J. M., Rodriguez, M. G., Sanchez, L., Hernandez, M. A., Atkins, S. D., Clark, I. M. and Kerry, B. R. 2001. The development of Verticillium chlamydosporium as a biological control agent of root-knot nematodes in organic vegetable production in Havana. Abstracts 4th International Scientific Seminar of Plant Health/33rd Annual Meeting of the Organization of Nematologists of Tropical America (ONTA), Varadera, Cuba, 11-15 June 2001 . pp. 12

Microbial diversity in heavy metal-contaminated soils - microbial indicators of soil quality

C2 - Non-edited contributions to conferences

Abaye, D., Lawlor, K., Hirsch, P. R. and Brookes, P. C. 2001. Microbial diversity in heavy metal-contaminated soils - microbial indicators of soil quality. Proceedings Chiba University International Symposium on Microbial Diversity and Environmental Remediation in Biosphere, Nishi-Chiba, Japan, 6 July 2001 .

Comparison of phenotypic, functional and genetic diversity of bacterial communities in soils

B - Book chapters etc edited externally

O'flaherty, S., McGrath, S. P. and Hirsch, P. R. 2001. Comparison of phenotypic, functional and genetic diversity of bacterial communities in soils. in: Ball, B. C., Watson, C. A., Campbell, C. D. and Rees, R. M. (ed.) Sustainable management of soil organic matter CABI International, Wallingford, Oxon (CABI). pp. 370-376

Molecular methods to study the rhizosphere interactions of Verticillium chlamydosporium

C2 - Non-edited contributions to conferences

Kerry, B. R., Mauchline, T. H., Atkins, S. D., Davies, K. G. and Hirsch, P. R. 2000. Molecular methods to study the rhizosphere interactions of Verticillium chlamydosporium. Abstracts 39th Annual Meeting of the Society of Nematologists, Quebec, 26-28 June 2000 .

The diversity, activity and size of ammonia oxidising populations

C2 - Non-edited contributions to conferences

Mendum, T. A. and Hirsch, P. R. 2000. The diversity, activity and size of ammonia oxidising populations. Abstracts British Society of Soil Science Conference Eurosoil 2000, Reading, 4-6 September 2000 .

Inference of symbiotic plasmid involvement in the population dynamics of two GM rhizobia under different agricultural practices

C2 - Non-edited contributions to conferences

Clark, I. M., Mendum, T. A. and Hirsch, P. R. 2000. Inference of symbiotic plasmid involvement in the population dynamics of two GM rhizobia under different agricultural practices. Abstracts 2nd Symposium of the EU Concerted Action on Mobile Genetic Elements' Contribution to Bacterial Adaptability and Diversity (MECBAD), Prague, 17-19 September 2000 . pp. 27-28

Soil microbial fatty acids as indicators of soil quality

C2 - Non-edited contributions to conferences

Abaye, D., Lawlor, K., Hirsch, P. R. and Brookes, P. C. 2000. Soil microbial fatty acids as indicators of soil quality. Abstracts British Society of Soil Science Conference Eurosoil 2000, Reading, 4-6 September 2000 .

Development of a transformation system for the root-knot nematode biological control fungus Verticillium chlamydosporium

B - Book chapters etc edited externally

Atkins, S. D., Peberdy, J., Kerry, B. R. and Hirsch, P. R. 2000. Development of a transformation system for the root-knot nematode biological control fungus Verticillium chlamydosporium. in: de Wit, P. J. G. M., Stiekema, W. J. and Bisseling, T. (ed.) Biology of plant-microbe interactions. Vol. 2 International Society for Molecular Plant-Microbe Interactions, St Paul. pp. 336-341

Comparison of methods to investigate microbial populations in soils under different agricultural management

A - Papers appearing in refereed journals

Lawlor, K., Knight, B. P., Barbosa-Jefferson, V. L., Lane, P. W., Lilley, A. K., Paton, G. I., McGrath, S. P., O'flaherty, S. and Hirsch, P. R. 2000. Comparison of methods to investigate microbial populations in soils under different agricultural management. FEMS Microbiology Ecology. 33, pp. 129-137. https://doi.org/10.1111/j.1574-6941.2000.tb00735.x

Ecology of plasmid transfer and spread

B - Book chapters etc edited externally

Van Elsas, J. D., Fry, J., Hirsch, P. R. and Molin, S. 2000. Ecology of plasmid transfer and spread. in: Thomas, C. M. (ed.) The horizontal gene pool: bacterial plasmids and gene spread Harwood Academic Publishers, Amsterdam. pp. 175-206

The PCR amplification of non-tuberculous mycobacterial 16S rRNA sequences from soil

A - Papers appearing in refereed journals

Mendum, T. A., Chilima, B. Z. and Hirsch, P. R. 2000. The PCR amplification of non-tuberculous mycobacterial 16S rRNA sequences from soil. FEMS Microbiology Letters. 185, pp. 189-192. https://doi.org/10.1111/j.1574-6968.2000.tb09060.x

Detection of the nematophagous fungus Verticillium chlamydosporium in nematode-infested plant roots using PCR

A - Papers appearing in refereed journals

Hirsch, P. R., Mauchline, T. H., Mendum, T. A. and Kerry, B. R. 2000. Detection of the nematophagous fungus Verticillium chlamydosporium in nematode-infested plant roots using PCR. Mycological Research. 104 (4), pp. 435-439. https://doi.org/10.1017/S0953756299001483

The field release and monitoring of GUS-marked rhizobial strain CT0370

B - Book chapters etc edited externally

Hirsch, P. R., Mendum, T. A., Puhler, A. and Selbitschka, W. 1999. The field release and monitoring of GUS-marked rhizobial strain CT0370. in: Bailey, M. J., Jansson, J. K. and Vanelsas, J. D. (ed.) Tracking genetically-engineered microorganisms Landes Bioscience, Georgetown. pp. 145-151

Role of ABC transporters in herbicide metabolism

C2 - Non-edited contributions to conferences

Theodoulou, F. L., Clark, I. M., Mitchell, V. J., Moss, S. R. and Pallett, K. E. 1999. Role of ABC transporters in herbicide metabolism. Abstracts Society for Experimental Biology Plant Transport Group Meeting, Southampton, 8-10 September 1999 .

Nucleotide sequence of Cla 30 (Accession No. Y17386), a xenobiotic- inducible member of the GST superfamily from Triticum aestivum L. (PGR99-049)

K - Protein or DNA sequences submitted to database

Theodoulou, F. L., Clark, I. M., Pallett, K. E. and Hallahan, D. L. 1999. Nucleotide sequence of Cla 30 (Accession No. Y17386), a xenobiotic- inducible member of the GST superfamily from Triticum aestivum L. (PGR99-049).

Do changes in land management influence soil microbial function?

C2 - Non-edited contributions to conferences

O'flaherty, S. M., Murphy, D. V., Goulding, K. W. T. and Hirsch, P. R. 1999. Do changes in land management influence soil microbial function? Proceedings British Society of Soil Science Meeting on Sustainable Management of Soil Organic Matter, Edinburgh, 15-17 September 1999 .

Microbial diversity - an indication of soil quality?

C2 - Non-edited contributions to conferences

O'flaherty, S. M., McGrath, S. P. and Hirsch, P. R. 1999. Microbial diversity - an indication of soil quality? Proceedings British Society of Soil Science Meeting on Sustainable Management of Soil Organic Matter, Edinburgh, 15-17 September 1999 .

Use of molecular and isotopic techniques to monitor the response of autotrophic ammonia-oxidizing populations of the beta subdivision of the class Proteobacteria in arable soils to nitrogen fertilizer

A - Papers appearing in refereed journals

Mendum, T. A., Sockett, R. E. and Hirsch, P. R. 1999. Use of molecular and isotopic techniques to monitor the response of autotrophic ammonia-oxidizing populations of the beta subdivision of the class Proteobacteria in arable soils to nitrogen fertilizer. Applied and Environmental Microbiology. 65 (9), pp. 4155-4162. https://doi.org/10.1128/AEM.65.9.4155-4162.1999

Investigating genetic and functional shifts in metal contaminated soils

C2 - Non-edited contributions to conferences

O'flaherty, S. M. and Hirsch, P. R. 1999. Investigating genetic and functional shifts in metal contaminated soils. Abstracts BAGECO-6: 6th Symposium on Bacterial Genetics and Ecology, Florence, 20-24 June 1999 . pp. 61

Microbial diversity - an indication of soil quality?

C2 - Non-edited contributions to conferences

O'flaherty, S. M., McGrath, S. P. and Hirsch, P. R. 1999. Microbial diversity - an indication of soil quality? Abstracts Society for General Microbiology 143rd Meeting, Edinburgh, 12-16 April 1999 . pp. 48

Interactions between rhizobia and bacteriophages isolated from soil

C2 - Non-edited contributions to conferences

Mendum, T. A., Clark, I. M. and Hirsch, P. R. 1999. Interactions between rhizobia and bacteriophages isolated from soil. Abstracts BAGECO-6: 6th Symposium on Bacterial Genetics and Ecology, Florence, 20-24 June 1999 . pp. 17

Competitive PCR to monitor ammonia oxidisers in a 150 year old field experiment

C2 - Non-edited contributions to conferences

Mendum, T. A., Sockett, R. E. and Hirsch, P. R. 1999. Competitive PCR to monitor ammonia oxidisers in a 150 year old field experiment. Abstracts Society for General Microbiology 143rd Meeting, Edinburgh, 12-16 April 1999 . pp. 44

The genetic implications of bacteriophages in Rhizobium leguminosarum

C2 - Non-edited contributions to conferences

Mendum, T. A., Clark, I. M. and Hirsch, P. R. 1999. The genetic implications of bacteriophages in Rhizobium leguminosarum. Abstracts 1st Symposium of the EU-concerted Action on Mobile Elements Contribution to Bacterial Adaptability (MECBAD), Le Mont Ste Odile, 23-27 April 1999 . pp. 23

Development of a transformation system for the nematode biological control fungus Verticillium chlamydosporium

C2 - Non-edited contributions to conferences

Atkins, S. D., Peberdy, J., Kerry, B. R. and Hirsch, P. R. 1999. Development of a transformation system for the nematode biological control fungus Verticillium chlamydosporium. Abstracts 9th International Congress on Molecular Plant-Microbe Interactions, Amsterdam, 25-30 July 1999 . pp. 186

Gene transfer in bacteria from soils contaminated with heavy metals

A - Papers appearing in refereed journals

Lawlor, K., Chaudri, A. M., McGrath, S. P. and Hirsch, P. R. 1999. Gene transfer in bacteria from soils contaminated with heavy metals. Letters in Applied Microbiology. 28 (4), pp. 317-320. https://doi.org/10.1046/j.1365-2672.1999.00520.x

Immunological quantification in soil of Pasteuria penetrans , an unculturable bacteria, hyperparasite of plant-parasitic nematodes

C2 - Non-edited contributions to conferences

Fould, S., Davies, K. G., Hirsch, P. R., Dieng, L., Dabire, K. R., Diop, M. T., Normand, P. and Mateille, T. 1998. Immunological quantification in soil of Pasteuria penetrans , an unculturable bacteria, hyperparasite of plant-parasitic nematodes.

Microbial diversity in agricultural soil

C2 - Non-edited contributions to conferences

O'flaherty, S., Lawlor, K., McGrath, S. P., Kerry, B. R. and Hirsch, P. R. 1998. Microbial diversity in agricultural soil. Abstracts British Society for Soil Science Down to Earth Conference, University of Reading, 31 March-2 April 1998 .

Bacterial diversity in metal contaminated soils

C2 - Non-edited contributions to conferences

Lawlor, K., Barbosa-Jefferson, V., McGrath, S. P., O'flaherty, S. and Hirsch, P. R. 1998. Bacterial diversity in metal contaminated soils. Abstracts British Society for Soil Science Down to Earth Conference, University of Reading, 31 March-2 April 1998 .

A herbicide safener-induced MRP homologue from wheat

C2 - Non-edited contributions to conferences

Theodoulou, F. L., Clark, I. M., Pallett, K. E. and Hallahan, D. L. 1998. A herbicide safener-induced MRP homologue from wheat. Abstracts 11th International Workshop on Plant Membrane Biology, Cambridge, 9-14 August 1998 . pp. 77

The detection of Gram negative bacterial mRNA from soil by RT-PCR

A - Papers appearing in refereed journals

Mendum, T. A., Sockett, R. E. and Hirsch, P. R. 1998. The detection of Gram negative bacterial mRNA from soil by RT-PCR. FEMS Microbiology Letters. 164, pp. 369-373. https://doi.org/10.1111/j.1574-6968.1998.tb13111.x

Monitoring genetically modified rhizobia in field soils using the polymerase chain reaction

A - Papers appearing in refereed journals

Cullen, D. W., Nicholson, P. S., Mendum, T. A. and Hirsch, P. R. 1998. Monitoring genetically modified rhizobia in field soils using the polymerase chain reaction. Journal of Applied Microbiology. 84 (6), pp. 1025-1034. https://doi.org/10.1046/j.1365-2672.1998.00443.x

Simple and rapid method for direct extraction of microbial DNA from soil for PCR

A - Papers appearing in refereed journals

Cullen, D. W. and Hirsch, P. R. 1998. Simple and rapid method for direct extraction of microbial DNA from soil for PCR. Soil Biology and Biochemistry. 30 (8/9), pp. 983-993. https://doi.org/10.1016/S0038-0717(98)00001-7

The effects of pesticides on the diversity of culturable soil bacteria

A - Papers appearing in refereed journals

Nicholson, P. S. and Hirsch, P. R. 1998. The effects of pesticides on the diversity of culturable soil bacteria. Journal of Applied Microbiology. 84 (4), pp. 551-558. https://doi.org/10.1046/j.1365-2672.1998.00381.x

Plant genotype and micronutrient status influence colonization of wheat roots by soil bacteria

A - Papers appearing in refereed journals

Rengel, Z., Ross, G. and Hirsch, P. R. 1998. Plant genotype and micronutrient status influence colonization of wheat roots by soil bacteria. Journal of Plant Nutrition. 21 (1), pp. 99-113. https://doi.org/10.1080/01904169809365386

Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites

D1 - Technical reports: non-confidential

Hirsch, P. R. 1997. Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites. European Commission, Luxembourg.

Occurrence of flavonoids and nucleosides in agricultural soils

A - Papers appearing in refereed journals

Phillips, D. A., Joseph, C. M. and Hirsch, P. R. 1997. Occurrence of flavonoids and nucleosides in agricultural soils. Applied and Environmental Microbiology. 63 (11), pp. 4573-4577. https://doi.org/10.1128/aem.63.11.4573-4577.1997

Molecular enzymology of plant cytochromes P450

C1 - Edited contributions to conferences/learned societies

Maughan, J. A., Nugent, J. H. A., Clark, I. M., Westlake, A. C. G. and Hallahan, D. L. 1997. Molecular enzymology of plant cytochromes P450. Proceedings Brighton Crop Protection Conference - Weeds, 1997 . pp. 597-604

The role of available metal ions in the transfer of mobile genetic elements

C2 - Non-edited contributions to conferences

Lawlor, K., Barbosa-Jefferson, V., Chaudri, A., McGrath, S. P. and Hirsch, P. R. 1997. The role of available metal ions in the transfer of mobile genetic elements. Abstracts 3rd ESF Workshop on Molecular Biology and Ecology of Plasmid-Mediated Gene Transfer, Cuenca, 12-16 September 1997 .

Genetic basis of wheat roots colonisation by pseudomonads

C2 - Non-edited contributions to conferences

Curnow, P. and Hirsch, P. R. 1997. Genetic basis of wheat roots colonisation by pseudomonads. Abstracts UK Soil:Plant:Microbe Interactions Initiative 3rd Annual Meeting, Oxford, 17-19 March 1997 .

Spatially distinct expression of two new cytochrome P450s in leaves of Nepeta racemosa : identification of a trichome-specific isoform

A - Papers appearing in refereed journals

Clark, I. M., Forde, B. G. and Hallahan, D. L. 1997. Spatially distinct expression of two new cytochrome P450s in leaves of Nepeta racemosa : identification of a trichome-specific isoform. Plant Molecular Biology. 33, pp. 875-885.

N. racemosa mRNA for cytochrome P450, CYP71A6, partial

K - Protein or DNA sequences submitted to database

Clark, I. M. and Hallahan, D. L. 1996. N. racemosa mRNA for cytochrome P450, CYP71A6, partial.

Nepeta racemosa mRNA for cytochrome P450, CYP71A5

K - Protein or DNA sequences submitted to database

Clark, I. M. and Hallahan, D. L. 1996. Nepeta racemosa mRNA for cytochrome P450, CYP71A5.

Genetic exchange between field rhizobia mediated by plasmids and bacteriophage

C2 - Non-edited contributions to conferences

Mendum, T. A. and Hirsch, P. R. 1996. Genetic exchange between field rhizobia mediated by plasmids and bacteriophage. Proceedings EC DG XII Biotechnology Final Sectorial Meeting on Ecological Implications of Biotechnology, Norwich, 3-6 September 1996 .

Rhizobial genetic elements and the extent of genetic interactions in the field

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Mendum, T. A. 1996. Rhizobial genetic elements and the extent of genetic interactions in the field. Proceedings 5th International Symposium on Bacterial Genetics and Ecology, Nafplion, Greece, 25-29 May 1996 . pp. 175

Molecular tools for monitoring bacterial gene transfer in the field

C1 - Edited contributions to conferences/learned societies

Hirsch, P. R., Young, P., Amarger, N., Toro, N., Lotz, W. and Selbitschka, W. 1996. Molecular tools for monitoring bacterial gene transfer in the field. Proceedings EC DG XII Biotechnology Final Sectorial Meeting on Ecological Implications of Biotechnology, Norwich, 3-6 September 1996 .

Genetic basis of wheat roots colonisation by pseudomonads

C2 - Non-edited contributions to conferences

Curnow, P. and Hirsch, P. R. 1996. Genetic basis of wheat roots colonisation by pseudomonads. Abstracts 8th International Congress on Molecular Plant-Microbe Interactions, Knoxville, 14-19 July 1996 .

Plant genotype, micronutrient fertilization and take-all infection influence bacterial populations in the rhizosphere of wheat

A - Papers appearing in refereed journals

Rengel, Z., Gutteridge, R. J., Hirsch, P. R. and Hornby, D. 1996. Plant genotype, micronutrient fertilization and take-all infection influence bacterial populations in the rhizosphere of wheat. Plant and Soil. 183 (2), pp. 269-277. https://doi.org/10.1007/BF00011442

Population dynamics of indigenous and genetically modified rhizobia in the field

A - Papers appearing in refereed journals

Hirsch, P. R. 1996. Population dynamics of indigenous and genetically modified rhizobia in the field. New Phytologist. 133 (1), pp. 159-171. https://doi.org/10.1111/j.1469-8137.1996.tb04351.x

Know your genes

G - Articles in popular magazines and other technical publications

Hirsch, P. R. 1996. Know your genes. Chemistry & Industry. 23, pp. 935-937.

PCR-based molecular discrimination of Verticillium chlamydosporium isolates

A - Papers appearing in refereed journals

Arora, D. K., Hirsch, P. R. and Kerry, B. R. 1996. PCR-based molecular discrimination of Verticillium chlamydosporium isolates. Mycological Research. 100 (7), pp. 801-809. https://doi.org/10.1016/S0953-7562(96)80025-6

Bacteriophages and genetically modified rhizobia in the field

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Mendum, T. A. 1996. Bacteriophages and genetically modified rhizobia in the field. Abstracts ESF Network Workshop on Molecular Biology and Ecology of Plasmid-Mediated Gene Transfer, Potsdam, 28 June-1 July 1996 . pp. 21

Potential manipulation of crop rhizosphere

B - Book chapters etc edited externally

Hirsch, P. R. 1996. Potential manipulation of crop rhizosphere. in: Shewry, P. R. and Pierpoint, W. S. (ed.) Genetic engineering of crop plants for resistance to pests and diseases British Crop Protection Council (BCPC). pp. 95-97

Population dynamics of indigenous and genetically modified rhizobia in the field

C2 - Non-edited contributions to conferences

Hirsch, P. R. 1995. Population dynamics of indigenous and genetically modified rhizobia in the field. Abstracts Molecular Approaches to the Study of Plant-Microbe Symbioses: 1st New Phytologist Conference, York, 13-15 November 1995 . Wiley. https://doi.org/10.1111/j.1469-8137.1996.tb04351.x

Monitoring genetically manipulated rhizobia in field soil samples

C2 - Non-edited contributions to conferences

Hirsch, P. R., Nicholson, P. and Cullen, D. 1995. Monitoring genetically manipulated rhizobia in field soil samples. Abstracts Molecular Monitoring of Environmental Samples. Society for Applied Bacteriology Demonstration Meeting, London, 13 September 1995 .

Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites

D1 - Technical reports: non-confidential

Hirsch, P. R. 1995. Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites. European Commission, Luxembourg.

Molecular analysis of cytochrome P450 cDNAs from Nepeta racemosa

C2 - Non-edited contributions to conferences

Clark, I. M., Crank, S. F., Forde, B. G. and Hallahan, D. L. 1995. Molecular analysis of cytochrome P450 cDNAs from Nepeta racemosa. Abstracts 3rd International Symposium on Cytochrome P450 Biodiversity, Woods Hole, 8-12 October 1995 .

Monitoring genetically modified microorganisms following field release

C1 - Edited contributions to conferences/learned societies

Hirsch, P. R. 1995. Monitoring genetically modified microorganisms following field release. Unanswered Safety Questions when Employing GMO's. CCRO Workshop Proceedings, Noordwijkerhout, the Netherlands, 2-4 May 1995 . pp. 117-121

Detection of microbial DNA sequences by colony hybridization

B - Book chapters etc edited externally

Hirsch, P. R. 1995. Detection of microbial DNA sequences by colony hybridization. in: Molecular microbial ecology manual Kluwer Academic Publishers, Dordrecht, Netherlands.

Construction and characterization of a Rhizobium leguminosarum biovar viciae strain designed to assess horizontal gene transfer in the environment

A - Papers appearing in refereed journals

Selbitschka, W., Jording, D., Nieman, S., Schmidt, R., Puhler, A., Mendum, T. A. and Hirsch, P. R. 1995. Construction and characterization of a Rhizobium leguminosarum biovar viciae strain designed to assess horizontal gene transfer in the environment. FEMS Microbiology Letters. 128, pp. 255-263. https://doi.org/10.1111/j.1574-6968.1995.tb07533.x

Targets for introduction of pests and disease resistance into crops by genetic engineering: report of a review funded by MAFF

D1 - Technical reports: non-confidential

Pierpoint, W. S., Hughes, K. J. D., Shewry, P. R., Burrows, P. R., Henderson, I. F., Hirsch, P. R., Hughes , K. J. D., James, S., Lazzeri, P. A., Miflin, B. J., Plumb, R. T., Glen, D. M., Hargreaves, J. A., Elphinsone, J. G. and Stead, D. E. 1995. Targets for introduction of pests and disease resistance into crops by genetic engineering: report of a review funded by MAFF. Institute for Arable Crops Research (IACR) , Long Ashton Research Station (LARS), Bristol. https://doi.org/10.23637/rothamsted.87224

Conjugative plasmids in Rhizobium

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Mendum, T. A. 1995. Conjugative plasmids in Rhizobium. Abstracts ESF Workshop on Plasmid Mediated Gene Transfer, University of Birmingham, 12-15 May 1995 .

Field release of genetically modified Rhizobia in the UK

C1 - Edited contributions to conferences/learned societies

Hirsch, P. R., Mendum, T. A., Jording, D. and Selbitschka, W. 1995. Field release of genetically modified Rhizobia in the UK. Jones, D. D. (ed.) Proceedings 3rd International Symposium on the Biosafety Results of Field Tests of GM Plants and Microorganisms, Monterey, 13-16 November 1994 . pp. 407-417

Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites

C2 - Non-edited contributions to conferences

Hirsch, P. R., Young, P., Amarger, N., Toro, N., Lotz, W. and Selbitschka, W. 1994. Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites. Proceedings Biotech Sectorial Meeting on Microbial Ecology and Biosafety, Cork, 27-29 September 1994 . pp. 27-28

Investigating bacterial root colonization in soils with long-term wheat cultivation

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Ross, G. 1994. Investigating bacterial root colonization in soils with long-term wheat cultivation. Abstracts 7th International Symposium on Molecular Plant-Microbe Interactions, Edinburgh, 26 June-1 July 1994 . pp. 65

Field release of genetically modified Rhizobium leguminosarum biovar viciae

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Mendum, T. A. 1994. Field release of genetically modified Rhizobium leguminosarum biovar viciae. Proceedings Biotech Sectorial Meeting on Microbial Ecology and Biosafety, Cork, 27-29 September 1994 . pp. 29

The extent of gene transfer in deliberate release experiments

C2 - Non-edited contributions to conferences

Hirsch, P. R. 1994. The extent of gene transfer in deliberate release experiments. Proceedings Horizontal Gene Transfer Mechanisms and Implications, Bielefeld, 25-27 July 1994 .

Survival and dispersion of genetically modified rhizobia in the field and genetic interactions with native strains

A - Papers appearing in refereed journals

Hirsch, P. R. and Spokes, J. D. 1994. Survival and dispersion of genetically modified rhizobia in the field and genetic interactions with native strains. FEMS Microbiology Ecology. 15, pp. 147-160. https://doi.org/10.1111/j.1574-6941.1994.tb00239.x

Plant cytochrome P-450 and agricultural biotechnology

A - Papers appearing in refereed journals

Hallahan, D. L., Cheriton, A. K., Hyde, R., Clark, I. M. and Forde, B. G. 1993. Plant cytochrome P-450 and agricultural biotechnology. Biochemical Society Transactions. 21 (4), pp. 1068-1073. https://doi.org/10.1042/bst0211068

Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites

C2 - Non-edited contributions to conferences

Hirsch, P. R., Young, P., Amarger, N., Toro, N., Lotz, W. and Selbitschka, W. 1993. Acquisition of genes from indigenous bacteria by inoculant strains at long-term release sites. Abstracts BRIDGE/BIOTECH Final Sectorial Meeting on Biosafety and First Sectorial Meeting on Microbial Ecology, Granada, October 1993 . pp. 142

Investigating gene transfer in soil using genetically modified rhizobia

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Mendum, T. A. 1993. Investigating gene transfer in soil using genetically modified rhizobia. Abstracts BRIDGE/BIOTECH Final Sectorial Meeting on Biosafety and First Sectorial Meeting on Microbial Ecology, Granada, October 1993 . pp. 143

Behaviour of genetically modified rhizobia in the field

C2 - Non-edited contributions to conferences

Hirsch, P. R. 1993. Behaviour of genetically modified rhizobia in the field. Abstracts BAGECO 4: 4th Symposium on Bacterial Genetics and Ecology, Wageningen, November 1993 .

Techniques for monitoring rhizobia in the field

C2 - Non-edited contributions to conferences

Hirsch, P. R., Nicholson, P. S. and Cullen, D. W. 1993. Techniques for monitoring rhizobia in the field. Abstracts Combined EERO and DLO-AFRC Workshop, Wageningen, November 1993 .

Molecular approaches to monitoring bacteria in soil

C2 - Non-edited contributions to conferences

Hirsch, P. R., Nicholson, P. S. and Cullen, D. W. 1993. Molecular approaches to monitoring bacteria in soil. Abstracts. Beyond the Biomass - Compositional and Functional Analysis of Soil Microbial Communities, Wye College, March 1993 .

Heavy metals from past applications of sewage sludge decrease the genetic diversity of Rhizobium leguminosarum biovar Trifolii populations

A - Papers appearing in refereed journals

Hirsch, P. R., Jones, M. J., McGrath, S. P. and Giller, K. E. 1993. Heavy metals from past applications of sewage sludge decrease the genetic diversity of Rhizobium leguminosarum biovar Trifolii populations. Soil Biology and Biochemistry. 25 (11), pp. 1485-1490. https://doi.org/10.1016/0038-0717(93)90003-T

Monitoring survival of genetically-modified Rhizobium in the field

C1 - Edited contributions to conferences/learned societies

Nicholson, P. S., Jones, M. J. and Hirsch, P. R. 1992. Monitoring survival of genetically-modified Rhizobium in the field. Stewart-Tull, D. E. S. and Sussman, M. (ed.) The release of genetically modified microorganisms. Plenum Press, New York. pp. 217-219

Crop plants effects on field populations of rhizobia

C2 - Non-edited contributions to conferences

Hirsch, P. R., Jones, M. and Spokes, J. 1992. Crop plants effects on field populations of rhizobia. Program and Abstracts Sixth International Symposium on Molecular Plant-Microbe Interactions, University of Washington, 1992. pp. Abstract no. 75

The identification and classification of Rhizobium and Bradyrhizobium

B - Book chapters etc edited externally

Hirsch, P. R. 1992. The identification and classification of Rhizobium and Bradyrhizobium. in: Skinner, F. A., Jones, D. and Board, R. G. (ed.) Identification methods in applied and environmental microbiology Blackwell Scientific Publications, Oxford. pp. 45-65

Assessing the risks involved in the release of genetically manipulated microorganisms

D1 - Technical reports: non-confidential

Armarger, N., Hirsch, P. R. and Klingmuller, W. 1991. Assessing the risks involved in the release of genetically manipulated microorganisms. Commission of the European Communities (CEC), Luxembourg.

Assessing the risks involved in the release of genetically manipulated microorganisms

D1 - Technical reports: non-confidential

Armarger, N., Hirsch, P. R. and Klingmuller, W. 1991. Assessing the risks involved in the release of genetically manipulated microorganisms. Commission of the European Communities (CEC), Luxembourg.

Comparison of late Sym genes in Rhizobium species and construction of improved strains

B - Book chapters etc edited externally

Boistard, P., Hirsch, P. R., O'Connell, M., Puhler, A. and Priefer, U. B. 1990. Comparison of late Sym genes in Rhizobium species and construction of improved strains. in: Vassarotti, A. and Magnien, G. (ed.) Biotechnology R & D in the EC (BAP 1985-1989). Vol II Detailed Final Report of BAP Contractors Elsevier, Paris.

Comparison of late Sym genes in Rhizobium species and construction of improved strains

B - Book chapters etc edited externally

Boistard, P., Hirsch, P. R., O'Connell, M. and Puhler, A. 1990. Comparison of late Sym genes in Rhizobium species and construction of improved strains. in: Vassarotti, A. and Magnien, E. (ed.) Biotechnology R & D in the EC (BAP 1985-1989). Vol I Catalogue of BAP Achievements Elsevier, Paris.

Assessing the risks involved in the release of genetically manipulated microorganisms

B - Book chapters etc edited externally

Amarger, N., Hirsch, P. R. and Klingmuller, W. 1990. Assessing the risks involved in the release of genetically manipulated microorganisms. in: Vassarotti, A. and Magnien, E. (ed.) Biotechnology R & D in the EC (BAP 1985-1989). Vol I Catalogue of BAP Achievements Elsevier, Paris.

Factors limiting gene transfer in bacteria

B - Book chapters etc edited externally

Hirsch, P. R. 1990. Factors limiting gene transfer in bacteria. in: Fry, J. C. and Day, M. J. (ed.) Bacterial genetics in natural environments Chapman & Hall, London. pp. 31-40

Assessing the risks involved in the release of genetically manipulated microorganisms

D1 - Technical reports: non-confidential

Amarger, N., Hirsch, P. R. and Klingmuller, W. 1990. Assessing the risks involved in the release of genetically manipulated microorganisms. Elsevier, Paris.

The rhizobium-legume symbiosis.

G - Articles in popular magazines and other technical publications

Hirsch, P. R., O'Connell, M., Boistard, P., Puhler, A. and Priefer, U. B. 1990. The rhizobium-legume symbiosis.

Monitoring genetically manipulated rhizobial inoculants following intentional introduction in agricultural soils

C2 - Non-edited contributions to conferences

Hirsch, P. R., Spokes, J. R., Klingmuller, W., Dohler, K., Amarger, N. and Delgutte, D. 1989. Monitoring genetically manipulated rhizobial inoculants following intentional introduction in agricultural soils. Abstracts, BAP Sectional Meeting on Risk Assessment, Dijon, 3-6 December 1989.

Rhizobium meliloti FIXGHI and FIXNOQP sequences predict involvement of a specific cation pump and of a cytochrome in symbiotic nitrogen fixation

C2 - Non-edited contributions to conferences

Kahn, D., Boistard, P., David, M., Da Veran Mingot, M. L., Hirsch, P. R. and Batut, J. 1989. Rhizobium meliloti FIXGHI and FIXNOQP sequences predict involvement of a specific cation pump and of a cytochrome in symbiotic nitrogen fixation. Abstracts, CEC BAP Final Meeting: Plant Biotechnology in the European Community, Bad Honref, 19-21 December 1989. pp. 145

Past, present and future uses of Rhizobium inoculants.

A - Papers appearing in refereed journals

Hirsch, P. R. 1989. Past, present and future uses of Rhizobium inoculants. Journal of the Science of Food and Agriculture. 50 (1), pp. 130-131. https://doi.org/10.1002/jsfa.2740500115

Absence of nitrogen fixation in clover grown on soil subject to long-term contamination with heavy metals is due to survival of only ineffective Rhizobium.

A - Papers appearing in refereed journals

Giller, K. E., McGrath, S. P. and Hirsch, P. R. 1989. Absence of nitrogen fixation in clover grown on soil subject to long-term contamination with heavy metals is due to survival of only ineffective Rhizobium. Soil Biology and Biochemistry. 21 (6), pp. 841-848. https://doi.org/10.1016/0038-0717(89)90179-X

Field release of rhizobia marked with a transposon.

C2 - Non-edited contributions to conferences

Hirsch, P. R. and Spokes, J. R. 1989. Field release of rhizobia marked with a transposon. In Abstracts International conferernce on risk assessment in agriculture biotechnology, Davis, California, 1989 .

Rhizobium meliloti fixGHI sequence predicts involvement of a specific cation pump in symbiotic nitrogen fixation.

A - Papers appearing in refereed journals

Kahn, D., David, M., Domergue, O., Daveran, M-L., Ghai, J., Hirsch, P. R. and Batut, J. 1989. Rhizobium meliloti fixGHI sequence predicts involvement of a specific cation pump in symbiotic nitrogen fixation. Journal of Bacteriology. 171 (2), pp. 929-939. https://doi.org/10.1128/jb.171.2.929-939.1989

Field release of rhizobia marked with a transposon.

G - Articles in popular magazines and other technical publications

Hirsch, P. R. and Spokes, J. R. 1988. Field release of rhizobia marked with a transposon.

Assessing the risks involved in the release of genetically manipulated microorganisms.

D1 - Technical reports: non-confidential

Hirsch, P. R. 1988. Assessing the risks involved in the release of genetically manipulated microorganisms. Commission of the European Communities (CEC), Luxembourg.

Comparison of late Sym genes in Rhizobium species and construction of improved strains.

D1 - Technical reports: non-confidential

Hirsch, P. R. 1988. Comparison of late Sym genes in Rhizobium species and construction of improved strains. Commission of the European Communities (CEC), Luxembourg.

Suppression of N2-fixation in clover on soil contaminated with heavy metals.

C2 - Non-edited contributions to conferences

Giller, K. E., McGrath, S. P. and Hirsch, P. R. 1988. Suppression of N2-fixation in clover on soil contaminated with heavy metals. Nitrogen fixation: hundred years after. Proceedings 7th International Congress on Nitrogen Fixation. Eds. H. Bothe, F.J. de Bruijn & W.E. Newton. Stuttgart : Gustav Fischer, p. 813..

Rhizobia isolated from root nodules of clover grown on soils with heavy metal contamination.

C2 - Non-edited contributions to conferences

Hirsch, P. R., Giller, K. E. and McGrath, S. P. 1988. Rhizobia isolated from root nodules of clover grown on soils with heavy metal contamination. Nitrogen fixation: hundred years after. Proceedings 7th International Congress on Nitrogen Fixation. Eds. H. Bothe, F.J. de Bruijn & W.E. Newton. Stuttgart : Gustav Fischer, p. 816..

Gene transfer between rhizobia in controlled conditions and the field.

C2 - Non-edited contributions to conferences

Spokes, J. R. and Hirsch, P. R. 1988. Gene transfer between rhizobia in controlled conditions and the field. REGEM-1 1st International Conference on the Release of Genetically Manipulated Microorganisms, Cardiff, 1988. Abstracts ..

Effect of heavy metal contamination on the genetics of nitrogen-fixing populations of Rhizobium leguminosarum nodulating white clover.

C1 - Edited contributions to conferences/learned societies

McGrath, S. P., Hirsch, P. R. and Giller, K. E. 1988. Effect of heavy metal contamination on the genetics of nitrogen-fixing populations of Rhizobium leguminosarum nodulating white clover. Environmental contamination. Ed. A.A. Orio. Edinburgh : CEP. pp. 164-166

Rhizobium leguminosarum as a model for investigating gene transfer in soil

C1 - Edited contributions to conferences/learned societies

Hirsch, P. R. and Spokes, J. 1988. Rhizobium leguminosarum as a model for investigating gene transfer in soil. Risk assessment for deliberate releases . Ed. W. Klingmuller. Berlin : Springer. pp. 10-17

Mutation, transfer and location of symbiotic genes of Rhizobium leguminosarum biovar phaseoli by insertion of Tn5-Mob.

A - Papers appearing in refereed journals

Wang, C. L. and Hirsch, P. R. 1988. Mutation, transfer and location of symbiotic genes of Rhizobium leguminosarum biovar phaseoli by insertion of Tn5-Mob. Acta Genetica Sinica. 15, pp. 25-33.

Assessing the environmental risks of releasing genetically manipulated organisms.

G - Articles in popular magazines and other technical publications

Hirsch, P. R. 1988. Assessing the environmental risks of releasing genetically manipulated organisms.

Genetic factors in Rhizobium affecting the symbiotic carbon costs of N2 fixation and host plant biomass production.

A - Papers appearing in refereed journals

Skot, L., Hirsch, P. R. and Witty, J. F. 1986. Genetic factors in Rhizobium affecting the symbiotic carbon costs of N2 fixation and host plant biomass production. Journal of Applied Bacteriology. 61, pp. 239-246.

Gene cloning and its potential application to mycorrhizal fungi.

G - Articles in popular magazines and other technical publications

Hirsch, P. R. 1986. Gene cloning and its potential application to mycorrhizal fungi.

Host plant effects on hybrids of Rhizobium leguminosarum Biovars viceae and trifolii .

A - Papers appearing in refereed journals

Wang, C. L., Beringer, J. E. and Hirsch, P. R. 1986. Host plant effects on hybrids of Rhizobium leguminosarum Biovars viceae and trifolii . Journal of General Microbiology. 132, pp. 2063-2070. https://doi.org/10.1099/00221287-132-8-2063

Construction of a Tn5 derivative determining resistance to gentamicin and spectinomycin using a fragment cloned from R1033.

A - Papers appearing in refereed journals

Hirsch, P. R., Wang, C. L. and Woodward, M. J. 1986. Construction of a Tn5 derivative determining resistance to gentamicin and spectinomycin using a fragment cloned from R1033. Gene. 48, pp. 203-209.

Nitrogen-fixation

A - Papers appearing in refereed journals

Beringer, J. E., Hirsch, P. R. and Witty, J. F. 1985. Nitrogen-fixation. Journal of the Science of Food and Agriculture. 36 (8), pp. 651-651.

Transposon mutagenesis of Rhizobium using a derivitive of Tn5 conferring gentamicin and spectinomycin resistance.

G - Articles in popular magazines and other technical publications

Wang, C. L., Spokes, J. R., Woodward, M. J. and Hirsch, P. R. 1985. Transposon mutagenesis of Rhizobium using a derivitive of Tn5 conferring gentamicin and spectinomycin resistance.

Rothamsted Multidisciplinary Agronomy

A - Papers appearing in refereed journals

Thorne, G. N., Prew, R. D., williams, Lacey, J., Plumb, R. T., Hirsch, P. R., Church, B. M., Todd, A. D. and Carter, N. 1984. Rothamsted Multidisciplinary Agronomy. Rothamsted Experimental Station Report. 1984 (part 1), pp. 23-38.

Agrobacterium tumefaciens T-DNA in the yeast Saccharomyces cerevisiae

A - Papers appearing in refereed journals

Hirsch, P. R. and Beggs, J. D. 1984. Agrobacterium tumefaciens T-DNA in the yeast Saccharomyces cerevisiae. Molecular and General Genetics (MGG). 195 (1-2), pp. 209-214. https://doi.org/10.1007/BF00332748

A physical map of pPH1JI and pJB4JI

A - Papers appearing in refereed journals

Hirsch, P. R. and Beringer, J. E. 1984. A physical map of pPH1JI and pJB4JI. Plasmid. 12 (2), pp. 139-141. https://doi.org/10.1016/0147-619x(84)90059-3

Genetic engineering and nitrogen fixation

A - Papers appearing in refereed journals

Beringer, J. E. and Hirsch, P. R. 1984. Genetic engineering and nitrogen fixation. Biotechnology & Genetic Engineering Reviews. 1 (1), pp. 65-88. https://doi.org/10.1080/02648725.1984.10647781

Genetic adaptation to the environment. The role of plasmids in microbial ecology.

G - Articles in popular magazines and other technical publications

Beringer, J. E. and Hirsch, P. R. 1984. Genetic adaptation to the environment. The role of plasmids in microbial ecology.

Improved crop plant productivity through genetic manipulation of mycorrhizal fungi

G - Articles in popular magazines and other technical publications

Hirsch, P. R. 1984. Improved crop plant productivity through genetic manipulation of mycorrhizal fungi. Chemistry & Industry. 23 (23), pp. 833-838.

Rothamsted Multidisciplinary Agronomy

A - Papers appearing in refereed journals

Thorne, G. N., Dewar, A. M., Prew, R. D., williams, Lacey, J., Plumb, R. T., Hirsch, P. R., Church, B. M. and Todd, A. D. 1983. Rothamsted Multidisciplinary Agronomy. Rothamsted Experimental Station Report. 1983 (part 1), pp. 21-36.

Plasmid-determined Bacteriocin Production by Rhizobium leguminosarum

A - Papers appearing in refereed journals

Hirsch, P. R. 1979. Plasmid-determined Bacteriocin Production by Rhizobium leguminosarum. Microbiology. 113 (2), pp. 219-228. https://doi.org/10.1099/00221287-113-2-219