Intelligent Data Ecosystems

TitleIntelligent Data Ecosystems
TypeScience Department
InstituteRothamsted Research
HeadChris Baker
Executive AssistantSally Murdoch

Outputs

Sort by: Date Title

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 tethered flight technique as a tool for studying life‐history strategies associated with migration in insects

A - Papers appearing in refereed journals
Minter, M., Pearson, A. J., Lim, K. S., Wilson, K., Chapman, J. W. and Jones, C. M. 2018. The tethered flight technique as a tool for studying life‐history strategies associated with migration in insects. Ecological Entomology. 43 (4). https://doi.org/10.1111/een.12521

Loop-mediated isothermal amplification (LAMP) assays for rapid detection of Pyrenopeziza brassicae (light leaf spot of brassicas)

A - Papers appearing in refereed journals
King, K. M., Krivova, V., Canning, G. G. M., Hawkins, N. J., Kaczmarek, A. M., Perryman, S. A. M., Dyer, P. S., Fraaije, B. A. and West, J. S. 2018. Loop-mediated isothermal amplification (LAMP) assays for rapid detection of Pyrenopeziza brassicae (light leaf spot of brassicas). Plant Pathology. 67 (1), pp. 167-174. https://doi.org/10.1111/ppa.12717

Current status and future directions of Levy walk research

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. Current status and future directions of Levy walk research. Biology Open. 7 (1), p. bio030106. https://doi.org/10.1242/bio.030106

Fluctuating environments drive insect swarms into a new state that is robust to perturbations

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. Fluctuating environments drive insect swarms into a new state that is robust to perturbations. EPL. 124, p. 38001. https://doi.org/10.1209/0295-5075/124/38001

Natural variation in acyl editing is a determinant of seed storage oil composition

A - Papers appearing in refereed journals
Menard, G. N., Bryant, F. M., Kelly, A. A., Craddock, C. P., Lavagi, I., Hassani-Pak, K., Kurup, S. and Eastmond, P. J. 2018. Natural variation in acyl editing is a determinant of seed storage oil composition. Scientific Reports. 8, p. 17346. https://doi.org/10.1038/s41598-018-35136-6

Incorporating terminal velocities into Lagrangian stochastic models of particle dispersal in the atmospheric boundary layer

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. Incorporating terminal velocities into Lagrangian stochastic models of particle dispersal in the atmospheric boundary layer. Scientific Reports. 8, p. 16843. https://doi.org/10.1038/s41598-018-34924-4

KnetMaps: a BioJS component to visualize biological knowledge networks

A - Papers appearing in refereed journals
Singh, A., Rawlings, C. J. and Hassani-Pak, K. 2018. KnetMaps: a BioJS component to visualize biological knowledge networks. F1000Research. 7, p. 1651. https://doi.org/10.12688/f1000research.16605.1

Sequence diversity and Identification of novel puroindoline and grain softness protein alleles in Elymus, Agropyron and related species

A - Papers appearing in refereed journals
Wilkinson, M. D., King, R. and Grimaldi, R. 2018. Sequence diversity and Identification of novel puroindoline and grain softness protein alleles in Elymus, Agropyron and related species. Diversity. 10 (4), p. 114. https://doi.org/10.3390/d10040114

Genetic interactions between ABA signalling and the Arg/N-end rule pathway during Arabidopsis seedling establishment

A - Papers appearing in refereed journals
Zhang, H., Gannon, L., Jones, P. D., Rundle, C. A., Hassall, K. L., Gibbs, D. J., Holdsworth, M. J. and Theodoulou, F. L. 2018. Genetic interactions between ABA signalling and the Arg/N-end rule pathway during Arabidopsis seedling establishment. Scientific Reports. 8, p. 15192. https://doi.org/10.1038/s41598-018-33630-5

Olfactory-cued navigation in shearwaters: linking movement patterns to mechanisms

A - Papers appearing in refereed journals
Abolaffio, M., Reynolds, A. M., Cecere, J. G., Paiva, V. H. and Focardi, S. 2018. Olfactory-cued navigation in shearwaters: linking movement patterns to mechanisms. Scientific Reports. 8 (11590). https://doi.org/10.1038/s41598-018-29919-0

Root development impacts on the distribution of phosphatase activity: Improvements in quantification using soil zymography

A - Papers appearing in refereed journals
Giles, C. D., Dupuy, L., Boitt, G., Brown, L. K., Condron, L. M., Darch, T., Blackwell, M. S. A., Menezes-Blackburn, D., Shand, C. A., Stutter, M. I., Lumsdon, D. G., Wendler, R., Cooper, P., Wearing, C., Zhang, H., Haygarth, P. M. and George, T. S. 2018. Root development impacts on the distribution of phosphatase activity: Improvements in quantification using soil zymography. Soil Biology and Biochemistry. 116, pp. 158-166. https://doi.org/10.1016/j.soilbio.2017.08.011

Phosphorus acquisition by citrate- and phytase-exuding Nicotiana tabacum plant mixtures depends on soil phosphorus availability and root intermingling

A - Papers appearing in refereed journals
Giles, C. D., Richardson, A. E., Cade-Menun, B. J., Mezali, M. M., Brown, L. K., Menezes-Blackburn, D., Darch, T., Blackwell, M. S. A., Shand, C. A., Stutter, M. I., Wendler, R., Cooper, P., Lumsdon, D. G., Wearing, C., Zhang, H., Haygarth, P. M. and George, T. S. 2018. Phosphorus acquisition by citrate- and phytase-exuding Nicotiana tabacum plant mixtures depends on soil phosphorus availability and root intermingling. Physiologia Plantarum. 163, pp. 356-371. https://doi.org/10.1111/ppl.12718

The adaptation of Fusarium culmorum to DMI Fungicides Is Mediated by Major Transcriptome Modifications in Response to Azole Fungicide, Including the Overexpression of a PDR Transporter (FcABC1).

A - Papers appearing in refereed journals
Hellin, P., King, R., Urban, M., Hammond-Kosack, K. E. and Legreve, A 2018. The adaptation of Fusarium culmorum to DMI Fungicides Is Mediated by Major Transcriptome Modifications in Response to Azole Fungicide, Including the Overexpression of a PDR Transporter (FcABC1). Frontiers in Microbiology. 9 (1385). https://doi.org/10.3389/fmicb.2018.01385

Towards FAIRer Biological Knowledge Networks Using a Hybrid Linked Data and Graph Database Approach

A - Papers appearing in refereed journals
Brandizi, M., Singh, A., Rawlings, C. J. and Hassani-Pak, K. 2018. Towards FAIRer Biological Knowledge Networks Using a Hybrid Linked Data and Graph Database Approach. Journal of Integrative Bioinformatics. 15 (3), pp. 1-10. https://doi.org/10.1515/jib-2018-0023

Passive particles Lévy walk through turbulence mirroring the diving patterns of marine predators

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. Passive particles Lévy walk through turbulence mirroring the diving patterns of marine predators. Journal of Physics Communications. 2 (8), p. 085003. https://doi.org/10.1088/2399-6528/aad498

New insights in the composition of wax and sterol esters in common and mutant sunflower oils revealed by ESI-MS/MS

A - Papers appearing in refereed journals
Broughton, R., Ruíz-Lopez, N., Hassall, K. L., Martínez-Force, E., Garcés, R., Salas, J. J. and Beaudoin, F. 2018. New insights in the composition of wax and sterol esters in common and mutant sunflower oils revealed by ESI-MS/MS. Food Chemistry. 269, pp. 70-79. https://doi.org/10.1016/j.foodchem.2018.06.135

Organic phosphorus in the terrestrial environment: a perspective on the state of the art and future priorities

A - Papers appearing in refereed journals
George, T. S., Giles, C. D., Menezes-Blackburn, D., Condron, L. M., Gama-Rodrigues, A. C., Jaisi, D., Lang, F., Neal, A. L., Stutter, M. I., Almeida, D. S., Bol, R., Cabugoa, K. G., Celi, L., Cotner, J. B., Feng, G., Goll, D. S., Hallama, M., Krueger, J., Plassard, C., Rosling, A., Darch, T., Fraser, T., Giesler, R., Richardson, A. E., Tamburini, F., Shand, C. A., Lumsdon, D. G., Zhang, H., Blackwell, M. S. A., Wearing, C., Mezeli, M. M., Almas, A. R., Audette, Y., Bertrand, I., Beyhaut, E., Boitt, G., Bradshaw, N., Brearley, C. A., Bruulsema, T. W., Ciais, P., Cozzolino, V., Duran, P. C., Mora, M. L., De Menezes, A. B., Dodd, R. J., Dunfield, K., Engl, C., Frazao, P. C., Garland, G., Gonzalez Jimenez, J. L., Graca, J., Granger, S. J., Harrison, A. F., Heuck, C., Hou, E. Q., Johnes, P. J., Kaiser, K., Kjaer, H. A., Klumpp, E., Lamb, A. L., Macintosh, K .A., Mackay, E. B., McGrath, J., McIntryre, C., McLaren, T., Meszaros, E., Missong, A., Mooshammer, M., Negron, C. P., Nelson, L. A., Pfahler, V., Poblete-Grant, P., Randall, M., Seguel, A., Seth, K., Smith , A. C., Smits, M. M., Sobaro, J. A., Spohn, M., Tawaraya, K., Tibbett, M., Voroney, P., Wallander, H., Wang, L., Wasaki, J. and Haygarth, P. M. 2018. Organic phosphorus in the terrestrial environment: a perspective on the state of the art and future priorities. Plant and Soil. 427 (1-2), pp. 191-208. https://doi.org/10.1007/s11104-017-3391-x

Levy foraging patterns of rural humans

A - Papers appearing in refereed journals
Reynolds, A. M., Ceccon, E., Baldauf, C., Medeiros, T. K. and Miramontes, O. 2018. Levy foraging patterns of rural humans. PLOS ONE. 13 (6), p. e0199099. https://doi.org/10.1371/journal.pone.0199099

Distinguishing between apparent and actual randomness: a preliminary examination with Australian ants

A - Papers appearing in refereed journals
Reynolds, A. M., Ferdous, M. J. and Cheng, K. 2018. Distinguishing between apparent and actual randomness: a preliminary examination with Australian ants. Behavioral Ecology and Sociobiology. 72 (113). https://doi.org/10.1007/s00265-018-2527-1

Inter-genome comparison of the Quorn fungus Fusarium venenatum and the closely related plant infecting pathogen Fusarium graminearum

A - Papers appearing in refereed journals
King, R., Brown, N. A., Urban, M. and Hammond-Kosack, K. E. 2018. Inter-genome comparison of the Quorn fungus Fusarium venenatum and the closely related plant infecting pathogen Fusarium graminearum. BMC Genomics. 19, p. 269. https://doi.org/10.1186/s12864-018-4612-2

The Role of Trehalose 6-Phosphate in Crop Yield and Resilience

A - Papers appearing in refereed journals
Paul, M. J., Gonzalez-Uriarte, A., Griffiths, C. A. and Hassani-Pak, K. 2018. The Role of Trehalose 6-Phosphate in Crop Yield and Resilience. Plant Physiology. 177, pp. 12-23. https://doi.org/10.1104/pp.17.01634

Foxtail mosaic virus: a new viral vector for protein expression in cereals

A - Papers appearing in refereed journals
Bouton, C., King, R., Chen, H., Azhakanandam, K., Bieri, S., Hammond-Kosack, K. E. and Kanyuka, K. 2018. Foxtail mosaic virus: a new viral vector for protein expression in cereals. Plant Physiology. 177 (4), pp. 1352-1367. https://doi.org/10.1104/pp.17.01679

Shifting the limits in wheat research and breeding using a fully annotated reference genome

A - Papers appearing in refereed journals
International Wheat Genome Sequencing Consortium (IWGSC), Kanyuka, K. and King, R. 2018. Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science - AAAS. 361 (6403), p. eaar7191. https://doi.org/10.1126/science.aar7191

Effect of long‐term drainage on plant community, soil carbon and nitrogen contents and stable isotopic (δ13C, δ15N) composition of a permanent grassland

A - Papers appearing in refereed journals
Harris, P., Bol, R., Evans, J., Hawkins, J. M. B., Dixon, E. R., Wolf, K., Dungait, J. A. J., Griffith, B. A., Herbst, M., Dhanoa, M. S., Beaumont, D. A., Dunn, R. M. and Weisenberg, G. L. B. 2018. Effect of long‐term drainage on plant community, soil carbon and nitrogen contents and stable isotopic (δ13C, δ15N) composition of a permanent grassland. European Journal of Soil Science. 69 (1), pp. 48-68. https://doi.org/10.1111/ejss.12504

Wheat receptor-kinase-like protein Stb6 controls gene-for-gene resistance to fungal pathogen Zymoseptoria tritici

A - Papers appearing in refereed journals
Saintennac, C., Lee, W. S., Cambon, F., Rudd, J. J., King, R., Marande, W., Powers, S. J., Berges, H., Phillips, A. L., Uauy, C., Hammond-Kosack, K. E., Langin, T. and Kanyuka, K. 2018. Wheat receptor-kinase-like protein Stb6 controls gene-for-gene resistance to fungal pathogen Zymoseptoria tritici. Nature Genetics. 50, pp. 368-374. https://doi.org/10.1038/s41588-018-0051-x

Hyperspectral measurements of yellow rust and fusarium head blight in cereal crops: Part 1: Laboratory study

A - Papers appearing in refereed journals
Whetton, R. L., Hassall, K. L., Waine, T. W. and Mouazen, A. M. 2018. Hyperspectral measurements of yellow rust and fusarium head blight in cereal crops: Part 1: Laboratory study. Biosystems Engineering. 166, pp. 101-115. https://doi.org/10.1016/j.biosystemseng.2017.11.008

Beyond the one-way ANOVA for 'omics data

A - Papers appearing in refereed journals
Hassall, K. L. and Mead, A. 2018. Beyond the one-way ANOVA for 'omics data. BMC Bioinformatics. 19 (Suppl 7), p. 199. https://doi.org/10.1186/s12859-018-2173-7

Transcriptome changes induced by arbuscular mycorrhizal fungi in sunflower (Helianthus annuus L.) roots

A - Papers appearing in refereed journals
Vangelisti, A., Natali, L., Bernardi, R., Sbrana, C., Turrini, A., Hassani-Pak, K., Hughes, D. J., Cavallini, A., Giovannetti, M. and Giordani, T. 2018. Transcriptome changes induced by arbuscular mycorrhizal fungi in sunflower (Helianthus annuus L.) roots. Scientific Reports. 8 (4), pp. 1-14. https://doi.org/10.1038/s41598-017-18445-0

Impact of two centuries of intensive agriculture on soil carbon, nitrogen and phosphorus cycling in the UK

A - Papers appearing in refereed journals
Muhammed, S. E., Coleman, K., Wu, L., Bell, V. A., Davies, J. A. C., Carnell, E. J., Tomlinson, S. J., Dore, A. J., Dragosits, U., Naden, P. S., Glendining, M. J., Whitmore, A. P. and Tipping, E. 2018. Impact of two centuries of intensive agriculture on soil carbon, nitrogen and phosphorus cycling in the UK. Science of the Total Environment. 634 (1 September), pp. 1486-1504. https://doi.org/10.1016/j.scitotenv.2018.03.378

N-terminomics reveals control of Arabidopsis seed storage proteins and proteases by the Arg/N-end rule pathway

A - Papers appearing in refereed journals
Zhang, H., Gannon, L., Hassall, K. L., Deery, M. J., Gibbs, D. J., Holdsworth, M. J., Van der Hoorn, R. A. L., Lilley, K. S. and Theodoulou, F. L. 2018. N-terminomics reveals control of Arabidopsis seed storage proteins and proteases by the Arg/N-end rule pathway. New Phytologist. 218 (3), pp. 1106-1126. https://doi.org/10.1111/nph.14909

Langevin dynamics encapsulate the microscopic and emergent macroscopic properties of midge swarms

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. Langevin dynamics encapsulate the microscopic and emergent macroscopic properties of midge swarms. Journal of the Royal Society Interface. 15. https://doi.org/10.1098/rsif.2017.0806

The electronic Rothamsted Archive (e-RA): an online resource for data from the Rothamsted long-term experiments

A - Papers appearing in refereed journals
Perryman, S. A. M., Castells-Brooke, N. I. D., Glendining, M. J., Goulding, K. W. T., Hawkesford, M. J., Macdonald, A. J., Ostler, R. J., Poulton, P. R., Rawlings, C. J., Scott, T. and Verrier, P. J. 2018. The electronic Rothamsted Archive (e-RA): an online resource for data from the Rothamsted long-term experiments. Scientific Data. 5, p. 180072. https://doi.org/10.1038/sdata.2018.72

Woburn Experimental Farm Soil and Field Maps

D1 - Technical reports: non-confidential
Watts, C. W., Glendining, M. J. and Castells-Brooke, N. I. D. 2017. Woburn Experimental Farm Soil and Field Maps. https://doi.org/10.23637/ws-soil-maps-01

Lolium multiflorum : aspects of herbicide resistance, agro-ecology and effects on crop yield in wheat crops

A - Papers appearing in refereed journals
Moss, S. R., Hull, R. I., Perryman, S. A. M. and Cussans, J. W. 2017. Lolium multiflorum : aspects of herbicide resistance, agro-ecology and effects on crop yield in wheat crops. Aspects of Applied Biology. 134, pp. 151-160.

Simulating soil carbon sequestration from long term fertilizer and manure additions under continuous wheat using the DailyDayCent model

A - Papers appearing in refereed journals
Begum, K., Kuhnert, M., Yeluripati, J., Glendining, M. J. and Smith, P. 2017. Simulating soil carbon sequestration from long term fertilizer and manure additions under continuous wheat using the DailyDayCent model. Nutrient Cycling in Agroecosystems. 109 (3), pp. 291-302. https://doi.org/10.1007/s10705-017-9888-0

Phenotypic, comparative genomic and transcriptomic analysis of recently collected European Zymoseptoria tritici strains

C2 - Non-edited contributions to conferences
Chen, H., Bayon, C., King, R., Torriani, S. F. F., Bieri, S., Kanyuka, K., Hammond-Kosack, K. E. and Rudd, J. J. 2017. Phenotypic, comparative genomic and transcriptomic analysis of recently collected European Zymoseptoria tritici strains. Zymoseptoria Meeting, 2017, Kiel, Germany.

Sustainable Intensification - Lessons from the Rothamsted Long-term Experiments

A - Papers appearing in refereed journals
Macdonald, A. J., Poulton, P. R., Glendining, M. J., Goulding, K. W. T., Perryman, S. A. M. and Powlson, D. S. 2017. Sustainable Intensification - Lessons from the Rothamsted Long-term Experiments. Aspects of Applied Biology. 136, pp. 239-244.

Precision disease protection systems for agriculture and horticulture

A - Papers appearing in refereed journals
West, J. S., Canning, G., Perryman, S. A. M., Kaczmarek, A. and King, K. M. 2017. Precision disease protection systems for agriculture and horticulture. Aspects of Applied Biology. 135, pp. 1-8.

Continuous Radar Tracking Illustrates the Development of Multi-destination Routes of Bumblebees

A - Papers appearing in refereed journals
Woodgate, J. L., Makinson, J. C., Lim, K. S., Reynolds, A. M. and Chittka, L. 2017. Continuous Radar Tracking Illustrates the Development of Multi-destination Routes of Bumblebees. Scientific Reports. 7 (1), p. 17323. https://doi.org/10.1038/s41598-017-17553-1

129262 total views
34313 total downloads
6559 views this month
566 downloads this month

People