Plant Sciences and the Bioeconomy

TitlePlant Sciences and the Bioeconomy
TypeScience Department
InstituteRothamsted Research
HeadFreddie Theodoulou
Executive AssistantSue Steele

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An inter-laboratory comparison demonstrates that [1H]-NMR metabolite fingerprinting is a robust technique for collaborative plant metabolomic data collection

A - Papers appearing in refereed journals
Ward, J. L., Baker, J. M., Miller, S. J., Deborde, C., Maucourt, M., Biais, B., Rolin, D., Moing, A., Moco, S., Vervoort, J., Lommen, A., Schafer, H., Humpfer, E. and Beale, M. H. 2010. An inter-laboratory comparison demonstrates that [1H]-NMR metabolite fingerprinting is a robust technique for collaborative plant metabolomic data collection. Metabolomics. 6, pp. 263-273. https://doi.org/10.1007/s11306-010-0200-4

An oil containing EPA and DHA from transgenic Camelina sativa to replace marine fish oil in feeds for Atlantic salmon (Salmo salar L.): Effects on intestinal transcriptome, histology, tissue fatty acid profiles and plasma biochemistry

A - Papers appearing in refereed journals
Betancor, M. B., Li, K., Sprague, M., Bardal, T., Sayanova, O. V., Usher, S., Han, L., Måsøval, K., Torrissen, O., Napier, J. A., Tocher, D. R. and Olsen, R. E. 2017. An oil containing EPA and DHA from transgenic Camelina sativa to replace marine fish oil in feeds for Atlantic salmon (Salmo salar L.): Effects on intestinal transcriptome, histology, tissue fatty acid profiles and plasma biochemistry. PLOS ONE. 12 (4), p. e0175415. https://doi.org/10.1371/journal.pone.0175415

An unusual desaturase in Aquilegia vulgaris

A - Papers appearing in refereed journals
Longman, A. J., Michaelson, L. V., Sayanova, O. V., Napier, J. A. and Stobart, A. K. 2000. An unusual desaturase in Aquilegia vulgaris. Biochemical Society Transactions. 28 (6), pp. 641-643. https://doi.org/10.1042/bst0280641

Analysis of cytochrome b5 reductase-mediated metabolism in the phytopathogenic fungus Zymoseptoria tritici reveals novel functionalities implicated in virulence

A - Papers appearing in refereed journals
Derbyshire, M. C., Michaelson, L. V., Parker, J., Kelly, S., Thacker, U., Powers, S. J., Bailey, A., Hammond-Kosack, K. E., Courbot, M. and Rudd, J. J. 2015. Analysis of cytochrome b5 reductase-mediated metabolism in the phytopathogenic fungus Zymoseptoria tritici reveals novel functionalities implicated in virulence. Fungal Genetics and Biology. 82 (September), pp. 69-84. https://doi.org/10.1016/j.fgb.2015.05.008

Analysis of detergent-resistant membranes in Arabidopsis. Evidence for plasma membrane lipid rafts

A - Papers appearing in refereed journals
Borner, G. H. H., Sherrier, D. J., Weimar, T., Michaelson, L. V., Hawkins, N. D., Macaskill, A., Napier, J. A., Beale, M. H., Lilley, K. S. and Dupree, P. 2005. Analysis of detergent-resistant membranes in Arabidopsis. Evidence for plasma membrane lipid rafts. Plant Physiology. 137 (1), pp. 104-116. https://doi.org/10.1104/pp.104.053041

Analysis of the role of COMATOSE and peroxisomal beta-oxidation in the determination of germination potential in Arabidopsis

A - Papers appearing in refereed journals
Footitt, S., Marquez, J., Schmuths, H., Baker, A., Theodoulou, F. L. and Holdsworth, M. 2006. Analysis of the role of COMATOSE and peroxisomal beta-oxidation in the determination of germination potential in Arabidopsis. Journal of Experimental Botany. 57 (11), pp. 2805-2814. https://doi.org/10.1093/jxb/erl045

Aphid alarm pheromone produced by transgenic plants affects aphid and parasitoid behavior

A - Papers appearing in refereed journals
Beale, M. H., Birkett, M. A., Bruce, T. J. A., Chamberlain, K., Field, L. M., Huttly, A. K., Martin, J. L., Parker, R., Phillips, A. L., Pickett, J. A., Prosser, I. M., Shewry, P. R., Smart, L. E., Wadhams, L. J., Woodcock, C. M. and Zhang, Y. 2006. Aphid alarm pheromone produced by transgenic plants affects aphid and parasitoid behavior. Proceedings of the National Academy of Sciences. 103, pp. 10509-10513. https://doi.org/10.1073/pnas.0603998103

Aphid-induced accumulation of trehalose in Arabidopsis thaliana is systemic and dependent upon aphid density

A - Papers appearing in refereed journals
Hodge, S., Ward, J. L., Beale, M. H., Bennett, M., Mansfield, J. W. and Powell, G. 2013. Aphid-induced accumulation of trehalose in Arabidopsis thaliana is systemic and dependent upon aphid density. Planta. 237, pp. 1057-1064. https://doi.org/10.1007/s00425-012-1826-4

Arabidopsis cytosolic acyl-CoA-binding proteins ACBP4, ACBP5 and ACBP6 have overlapping but distinct roles in seed development

A - Papers appearing in refereed journals
Hsiao, A-S., Haslam, R. P., Michaelson, L. V., Liao, P., Chen, Q-F., Sooriyaarachchi, S., Mowbray, S. L., Napier, J. A., Tanner, J. A. and Chye, M-L. 2014. Arabidopsis cytosolic acyl-CoA-binding proteins ACBP4, ACBP5 and ACBP6 have overlapping but distinct roles in seed development. Bioscience Reports. 34 (6), pp. 865-877. https://doi.org/10.1042/BSR20140139

Arabidopsis cytosolic acyl-CoA-binding proteins function in determining seed oil composition

A - Papers appearing in refereed journals
Guo, Z. H., Ye, Z. W., Haslam, R. P., Michaelson, L. V., Napier, J. A. and Chye, M. L. 2019. Arabidopsis cytosolic acyl-CoA-binding proteins function in determining seed oil composition. Plant Direct. 3 (12), p. e00182. https://doi.org/10.1002/pld3.182

Arabidopsis uses two gluconeogenic gateways for organic acids to fuel seedling establishment

A - Papers appearing in refereed journals
Eastmond, P. J., Astley, H. M., Parsley, K., Aubry, S., Williams, B. P., Menard, G. N., Craddock, C. P., Nunes-Nesi, A., Fernie, A. R. and Hibberd, J. M. 2015. Arabidopsis uses two gluconeogenic gateways for organic acids to fuel seedling establishment. Nature Communications. 6, p. 6659. https://doi.org/10.1038/ncomms7659

Arabidopsis VARIEGATED 3 encodes a chloroplast-targeted, zinc-finger protein required for chloroplast and palisade cell development

A - Papers appearing in refereed journals
Naested, H., Holm, A., Jenkins, T., Nielsen, H. B., Harris, C. A., Beale, M. H., Andersen, M., Mant, A., Scheller, H., Camara, B., Mattsson, O. and Munday, J. 2004. Arabidopsis VARIEGATED 3 encodes a chloroplast-targeted, zinc-finger protein required for chloroplast and palisade cell development. Journal Of Cell Science. 117 (20), pp. 4807-4818. https://doi.org/10.1242/jcs.01360

Are GM and conventionally bred cereals really different?

A - Papers appearing in refereed journals
Shewry, P. R., Baudo, M., Lovegrove, A., Powers, S. J., Napier, J. A., Ward, J. L., Baker, J. M. and Beale, M. H. 2007. Are GM and conventionally bred cereals really different? Trends in Food Science and Technology. 18, pp. 201-209. https://doi.org/10.1016/j.tifs.2006.12.010

As simple as ACB - new insights into the role of acyl-CoA-binding proteins in Arabidopsis

A - Papers appearing in refereed journals
Napier, J. A. and Haslam, R. P. 2010. As simple as ACB - new insights into the role of acyl-CoA-binding proteins in Arabidopsis. New Phytologist. 186 (4), pp. 781-783. https://doi.org/10.1111/j.1469-8137.2010.03287.x

Ascorbate content of wheat leaves is not determined by maximal L-galactono-1,4-lactone dehydrogenase (GalLDH) activity under drought stress

A - Papers appearing in refereed journals
Bartoli, C. G., Guiamet, J. J., Kiddle, G., Pastori, G. M., Di Cagno, R., Theodoulou, F. L. and Foyer, C. H. 2005. Ascorbate content of wheat leaves is not determined by maximal L-galactono-1,4-lactone dehydrogenase (GalLDH) activity under drought stress. Plant, Cell and Environment. 28 (9), pp. 1073-1081. https://doi.org/10.1111/j.1365-3040.2005.01338.x

Assessment of 1H NMR spectroscopy and multivariate analysis as a technique for metabolite fingerprinting of Arabidopsis thaliana

A - Papers appearing in refereed journals
Ward, J. L., Harris, C., Lewis, J. and Beale, M. H. 2003. Assessment of 1H NMR spectroscopy and multivariate analysis as a technique for metabolite fingerprinting of Arabidopsis thaliana. Phytochemistry. 62, pp. 949-957.

Assigning Brassica microsatellite markers to the nine C-genome chromosomes using Brassica rapa var. tricularis-B.oleracea var. alboglabra monosomic alien addition lines

A - Papers appearing in refereed journals
Geleta, M., Heneen, W. K., Stoute, A. I., Muttucumaru, N., Scott, R. J., King, G. J., Kurup, S. and Bryngelsson, T. 2012. Assigning Brassica microsatellite markers to the nine C-genome chromosomes using Brassica rapa var. tricularis-B.oleracea var. alboglabra monosomic alien addition lines. Theoretical and Applied Genetics. 125, pp. 455-466. https://doi.org/10.1007/s00122-012-1845-3

Association mapping in Salix viminalis L. (Salicaceae) - identification of candidate genes associated with growth and phenology

A - Papers appearing in refereed journals
Hallingbäck, H. R., Fogelqvist, J., Powers, S. J., Turrion-Gomez, J., Rossiter, R., Amey, J., Martin, T., Weih, M., Gyllenstrand, N., Karp, A., Lagercrantz, U., Hanley, S. J., Berlin, S. and Rönnberg-Wästljung, A-C. 2016. Association mapping in Salix viminalis L. (Salicaceae) - identification of candidate genes associated with growth and phenology. Global Change Biology. Bioenergy. 8 (3), pp. 670-685. https://doi.org/10.1111/gcbb.12280

Automated extraction of pod phenotype data from micro-computed tomograph

A - Papers appearing in refereed journals
Corcoran, E., Siles-Suarez, L., Kurup, S. and Ahnert, S. 2023. Automated extraction of pod phenotype data from micro-computed tomograph. Frontiers in Plant Science. 14, p. 1120182. https://doi.org/10.3389/fpls.2023.1120182

Awake1, an ABC-type transporter, reveals an essential role for Suberin in the control of seed dormancy

A - Papers appearing in refereed journals
Fedi, F., O’neill, C. M., Menard, G., Trick, M., Dechirico, S., Corbineau, F., Bailly, C., Eastmond, P. J. and Penfield, S. 2017. Awake1, an ABC-type transporter, reveals an essential role for Suberin in the control of seed dormancy. Plant Physiology. 174 (1), pp. 276-283. https://doi.org/10.1104/pp.16.01556

Band of boffins

G - Articles in popular magazines and other technical publications
Theodoulou, F. L. 2014. Band of boffins. The Biochemist. 36 (6), p. 3.

Bang the gong for biochemistry

G - Articles in popular magazines and other technical publications
Theodoulou, F. L. 2015. Bang the gong for biochemistry. The Biochemist. 37 (1), p. 3.

Barley has two peroxisomal ABC transporters with multiple functions in beta-oxidation

A - Papers appearing in refereed journals
Mendiondo, G. M., Medhurst, A., Van Roermund, C. W., Zhang, X., Devonshire, J., Scholefield, D., Fernandez, J., Axcell, B., Ramsay, L., Waterham, H. R., Waugh, R., Theodoulou, F. L. and Holdsworth, M. J. 2014. Barley has two peroxisomal ABC transporters with multiple functions in beta-oxidation. Journal of Experimental Botany. 65, pp. 4833-4847. https://doi.org/10.1093/jxb/eru243

Basic LEUCINE ZIPPER TRANSCRIPTION FACTOR 67 transactivates DELAY OF GERMINATION 1 to establish primary seed dormancy in Arabidopsis

A - Papers appearing in refereed journals
Bryant, F. M., Hughes, D. J., Hassani-Pak, K. and Eastmond, P. J. 2019. Basic LEUCINE ZIPPER TRANSCRIPTION FACTOR 67 transactivates DELAY OF GERMINATION 1 to establish primary seed dormancy in Arabidopsis. The Plant Cell. https://doi.org/10.1105/tpc.18.00892

Big data from small tissue extraction of high-quality RNA for RNA-Sequencing from different oilseed Brassica seed tissues during seed development

A - Papers appearing in refereed journals
Siles-Suarez, L., Eastmond, P. J. and Kurup, S. 2020. Big data from small tissue extraction of high-quality RNA for RNA-Sequencing from different oilseed Brassica seed tissues during seed development . Plant Methods. 16, p. 80. https://doi.org/10.1186/s13007-020-00626-0

BIG enhances Arg/N-degron pathway-mediated protein degradation to regulate Arabidopsis hypoxia responses and suberin deposition

A - Papers appearing in refereed journals
Zhang, H., Rundle, C., Winter, N., Miricescu, A., Mooney B. C., Bachmair, A., Graciet, E. and Theodoulou, F. L. 2024. BIG enhances Arg/N-degron pathway-mediated protein degradation to regulate Arabidopsis hypoxia responses and suberin deposition. The Plant Cell. p. koae117. https://doi.org/10.1093/plcell/koae117

BIG regulates dynamic adjustment of circadian period in Arabidopsis thaliana

A - Papers appearing in refereed journals
Hearn, T. J, Marti, M. C., Abdul-Awal, S. M., Wimalasekera, R., Stanton, C. R., Haydon, M. J., Theodoulou, F. L., Hannah, M. A. and Webb, A. A. R. 2018. BIG regulates dynamic adjustment of circadian period in Arabidopsis thaliana. Plant Physiology. 178, pp. 358-371. https://doi.org/10.1104/pp.18.00571

Bioassay-led isolation of Myrothecium verrucaria and verrucarin A as germination inhibitors of Orobanche crenata

A - Papers appearing in refereed journals
El-Kassas, R., Karam El-Din, Z., Beale, M. H., Ward, J. L. and Strange, R. N. 2005. Bioassay-led isolation of Myrothecium verrucaria and verrucarin A as germination inhibitors of Orobanche crenata. Weed Research. 45 (3), pp. 212-219. https://doi.org/10.1111/j.1365-3180.2005.00448.x

Bioengineering horizon scan 2020

A - Papers appearing in refereed journals
Kemp, L., Adam, L., Boehm, C. R., Breitling, R., Casagrande, R., Dando, M., Djikent, A., Evan, N. G., Hammond, R., Hills, K., Holt, L. A., Kuiken, T, Markotic, A., Millett, P., Napier, J. A., Nelson, C., O´Heigeartaigh, S. S, Osbourn, A., Palmer, M. J., Patron, N. J., Perello, E., Piyawattanametha, W., Restrepo-Schild, V., Riosrojas, C., Rhodes, C., Roessing, A., Scott, D., Shapira, P., Simuntala, C., Smith, R. D. J., Sundaram, L. S., Takano, E., Uttmark, G., Wintle, B. C., Zahra, N. B. and Sutherland, W. J. 2020. Bioengineering horizon scan 2020. eLife. 9, p. e54489. https://doi.org/10.7554/eLife.54489

Biolistics transformation of wheat

B - Book chapters etc edited externally
Sparks, C. A. 2008. Biolistics transformation of wheat. in: Shewry, P. R. and Jones, H. D. (ed.) Transgenic wheat, barley and oats. Methods in molecular biology, vol. 478 Humana Press, New York. pp. 71-92

Biomass oil crops: more than a pipe dream?

A - Papers appearing in refereed journals
Eastmond, P. J. 2014. Biomass oil crops: more than a pipe dream? Biofuels. 5 (2), pp. 99-101. https://doi.org/10.4155/BFS.13.77

Biosynthesis and compartmentation of triacylglycerol in higher plants

B - Book chapters etc edited externally
Beaudoin, F. and Napier, J. A. 2004. Biosynthesis and compartmentation of triacylglycerol in higher plants. in: Daum, G. (ed.) Lipid metabolism and membrane biogenesis Springer, New York. pp. 267-287

Biosynthesis of very-long-chain polyunsaturated fatty acids in transgenic oilseeds: constraints on their accumulation

A - Papers appearing in refereed journals
Abbadi, A., Domergue, F., Bauer, J., Napier, J. A., Welti, R., Zahringer, U., Cirpus, P. and Heinz, E. 2004. Biosynthesis of very-long-chain polyunsaturated fatty acids in transgenic oilseeds: constraints on their accumulation. The Plant Cell. 16, pp. 2734-2748.

Boosting Geranyl Diphosphate Synthesis for Linalool Production in Engineered Yarrowia lipolytica

A - Papers appearing in refereed journals
Taratynova, M. O., Tikhonova, E. E., Fedyaeva, I. M., Dementev, D. A., Yuzbashev, T., Solovyev, A. I., Sineoky, S. P. and Yuzbasheva, E. Y. 2023. Boosting Geranyl Diphosphate Synthesis for Linalool Production in Engineered Yarrowia lipolytica. Applied Biochemistry and Biotechnology. https://doi.org/10.1007/s12010-023-04581-z

Breeding progress and preparedness for mass-scale deployment of perennial lignocellulosic biomass crops switchgrass, miscanthus, willow, and poplar

A - Papers appearing in refereed journals
Clifton-Brown, J., Harfouche, A., Casler, M. D., Jones, H. D., Macalpine, W. J., Murphy-Bokern, D., Smart, L. B., Adler, A., Ashman, C., Awty-Carroll, D., Bastien, C., Bopper, S., Botnari, V., Brancourt-Hulmel, M., Chen, Z., Clark, L. V., Cosentino, S., Dalton, S., Davey, C., Dolstra, O., Donnison, I., Flavell, R., Greef, J., Hanley, S. J., Hastings, A., Hertzberg, M., Hsu, T., Huang, L., Iurato, A., Jensen, E., Jin, X., Jørgensen, U., Kiesel, A., Kim, D., Liu, J., McCalmont, J. P., McMahon, B. G., Mos, M., Robson, P., Sacks, E. J., Sandu, A., Scalici, G., Schwarz, K., Scordia, D., Shafiei, R., Shield, I. F., Slavov, G., Stanton, B. J., Swaminathan, K., Taylor, G., Torres, A. F., Trindade, L. M., Tschaplinski, T., Tuskan, J., Yamada, T., Yu, C. Y., Zalesny, R., Zong, J. and Lewandowski, I. 2018. Breeding progress and preparedness for mass-scale deployment of perennial lignocellulosic biomass crops switchgrass, miscanthus, willow, and poplar. Global Change Biology. Bioenergy. https://doi.org/10.1111/gcbb.12566

Breeding willow for short rotation coppice energy cropping

B - Book chapters etc edited externally
Shield, I. F., Macalpine, W. J., Hanley, S. J. and Karp, A. 2015. Breeding willow for short rotation coppice energy cropping. in: Cruz, V. M. V. and Dierig, D. A. (ed.) Industrial crops. Handbook of Plant Breeding 9 Springer, New York. pp. 67-80

BSBEC-BioMASS - selecting traits to optimise biomass yield of SRC willow

A - Papers appearing in refereed journals
Cunniff, J., Shield, I. F., Barraclough, T. J. P., Castle, M., Hanley, S. J., Andralojc, P. J., Richter, G. M., Cerasuolo, M., Purdy, S., Clifton-Brown, J., Maddison, A., Jones, L., Donnison, I. and Karp, A. 2011. BSBEC-BioMASS - selecting traits to optimise biomass yield of SRC willow. Aspects of Applied Biology. 112.

Burden tests can be used to map causal genes for a simple metabolic trait in an exome-sequenced polyploid mutant population

A - Papers appearing in refereed journals
Menard, G. N. and Eastmond, P. J. 2022. Burden tests can be used to map causal genes for a simple metabolic trait in an exome-sequenced polyploid mutant population. Plant Biotechnology Journal. 20 (10), pp. 1850-1852. https://doi.org/10.1111/pbi.13890

bZIP67 regulates the omega-3 fatty acid content of Arabidopsis seed oil by activating FATTY ACID DESATURASE3

A - Papers appearing in refereed journals
Mendes, A., Kelly, A. A., Van-Erp, H., Shaw, E., Powers, S. J., Kurup, S. and Eastmond, P. J. 2013. bZIP67 regulates the omega-3 fatty acid content of Arabidopsis seed oil by activating FATTY ACID DESATURASE3. The Plant Cell. 25, pp. 3104-3116. https://doi.org/10.1105/tpc.113.116343

C1 Metabolism Inhibition and Nitrogen Deprivation Trigger Triacylglycerol Accumulation in Arabidopsis thaliana Cell Cultures and Highlight a Role of NPC in Phosphatidylcholine-to-Triacylglycerol Pathway

A - Papers appearing in refereed journals
Mei, C. E., Cussac, M., Haslam, R. P., Beaudoin, F., Wong, Y. S., Marechal, E. and Rebeille, F. 2017. C1 Metabolism Inhibition and Nitrogen Deprivation Trigger Triacylglycerol Accumulation in Arabidopsis thaliana Cell Cultures and Highlight a Role of NPC in Phosphatidylcholine-to-Triacylglycerol Pathway. Frontiers in Plant Science. 7, p. 2014. https://doi.org/10.3389/fpls.2016.02014

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