Lolium and Trifolium genetics, genomics and germplasm development

2021

A comparison of shared patterns of differential gene expression and gene ontologies in response to water-stress in roots and leaves of four diverse genotypes of Lolium and Festuca spp. temperate pasture grasses

Fu, Y., Thomas, A., Gasior, D., Harper, J., Gay, A., Jones, C., Hegarty, M., Asp, T., Fradera-Sola, A., Armstead, I. & Fernandez-Fuentes, N., 08 Apr 2021, In: PLoS One. 16, 4, 21 p., e0249636.

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Canonical correlations reveal adaptive loci and phenotypic responses to climate in perennial ryegrass

Blanco-Pastor, J. L., Barre, P., Keep, T., Ledauphin, T., Escobar-Gutiérrez, A., Roschanski, A. M., Willner, E., Dehmer, K. J., Hegarty, M., Muylle, H., Veeckman, E., Vandepoele, K., Ruttink, T., Roldán-Ruiz, I., Manel, S. & Sampoux, J. P., 11 Mar 2021, In: Molecular Ecology Resources. 21, 3, p. 849-870 22 p.

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2020

High-Throughput Genome-Wide Genotyping To Optimize the Use of Natural Genetic Resources in the Grassland Species Perennial Ryegrass (Lolium perenne L.)

Keep, T., Sampoux, J. P., Blanco-Pastor, J. L., Dehmer, K. J., Hegarty, M. J., Ledauphin, T., Litrico, I., Muylle, H., Roldán-Ruiz, I., Roschanski, A. M., Ruttink, T., Surault, F., Willner, E. & Barre, P., 01 Sept 2020, In: G3 (Bethesda, Md.). 10, 9, p. 3347-3364 18 p.

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Population structure and genetic diversity in red clover (Trifolium pratense L.) germplasm

Jones, C., de Vega, J., Lloyd, D., Hegarty, M., Ayling, S., Powell, W. & Skot, L., 01 Dec 2020, In: Scientific Reports. 10, 1, 12 p., 8364.

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12 Citations (SciVal)

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2019

Differential gene expression and gene ontologies associated with increasing water-stress in leaf and root transcriptomes of perennial ryegrass (Lolium perenne)

Fradera-Sola, A., Thomas, A., Gasior, D., Harper, J., Hegarty, M., Armstead, I. & Fernandez Fuentes, N., 30 Jul 2019, In: PLoS One. 14, 7, e0220518.

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Impacts of abiotic stresses on the physiology and metabolism of cool-season grasses: A review

Loka, D., Harper, J., Humphreys, M., Gasior, D., Wootton-Beard, P., Gwynn-Jones, D., Scullion, J., Doonan, J., Kingston-Smith, A., Dodd, R., Wang, J., Chadwick, D. R., Hill, P., Jones, D. L., Mills, G., Hayes, F. & Robinson, D., 01 Feb 2019, In: Food and Energy Security. 8, 1, e00152.

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21 Citations (SciVal)

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Integrating a newly developed BAC-based physical mapping resource for Lolium perenne with a genome-wide association study across a L. Perenne European ecotype collection identifies genomic contexts associated with agriculturally important traits

Harper, J., de Vega, J., Swain, S., Heavens, D., Gasior, D., Thomas, A., Evans, C., Lovatt, A., Lister, S., Thorogood, D., Skot, L., Hegarty, M., Blackmore, T., Kudrna, D., Byrne, S., Asp, T., Powell, W., Fernandez-Fuentes, N. & Armstead, I., 08 May 2019, In: Annals of Botany. 123, 6, p. 977-992 16 p., mcy230.

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4 Citations (SciVal)

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Pleistocene climate changes, and not agricultural spread, accounts for range expansion and admixture in the dominant grassland species Lolium perenne L.

Blanco‐Pastor, J. L., Manel, S., Barre, P., Roschanski, A. M., Willner, E., Dehmer, K. J., Hegarty, M., Muylle, H., Ruttink, T., Roldán-Ruiz, I., Ledauphin, T., Escobar-Gutiérrez, A. & Sampoux, J-P., 27 Jun 2019, In: Journal of Biogeography. 46, 7, p. 1451-1465 15 p.

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21 Citations (SciVal)

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2018

B chromosomes are associated with redistribution of genetic recombination towards lower-recombination chromosomal regions in perennial ryegrass

Harper, J., Phillips, D., Thomas, A., Gasior, D., Evans, C., Powell, W., King, J., King, I. P., Jenkins, G. & Armstead, I., 21 Mar 2018, In: Journal of Experimental Botany. 69, 8

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8 Citations (SciVal)

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Genotypic and environmental variance for white clover yield in a commercial breeding programme

Hetherington, K. E., Conaghan, P., Milbourne, D., Skot, L. & Byrne, S. L., 2018, Sustainable meat and milk production from grassland: Proceedings of the 27th General Meeting of the European Grassland Federation. Horan, B., Hennessy, D., O'Donovan, M., Kennedy, E., McCarthy, B., Finn, J. A. & O'Brien, B. (eds.). Fermoy: Teagasc, p. 228-230 3 p.

Research output: Chapter in Book/Report/Conference proceeding › Conference Proceeding (Non-Journal item)

Improving the phosphorus use efficiency of perennial forage species to enhance the sustainability of grassland based agriculture

Marshall, A., Collins, R., Williams, K., Han, J., Corke, F. & Doonan, J., 2018, Sustainable meat and milk production from grasslands: Proceedings of the 27th General Meeting of the European Grassland Federation. Horan, B., Hennessy, D., O'Donovan, M., Kennedy, E., McCarthy, B., Finn, J. A. & O'Brien, B. (eds.). Fermoy: Teagasc, p. 280-252 3 p. (Grassland Science in Europe; vol. 23).

Research output: Chapter in Book/Report/Conference proceeding › Conference Proceeding (Non-Journal item)

Root imaging showing comparisons in root distribution and ontogeny in novel Festulolium populations and closely related perennial ryegrass varieties

Humphreys, M., Doonan, J., Boyle, R., Camargo-Rodriguez, A., Marley, C., Williams, K., Farrell, M., Brook, J., Gasior, D., Loka, D., Collins, R., Marshall, A., Allen, D., Yadav, R., Dungait, J. A. J., Murray, P. J. & Harper, J., 01 Nov 2018, In: Food and Energy Security. 7, 4, e00145.

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9 Citations (SciVal)

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2017

A novel multivariate approach to phenotyping and association mapping of multi-locus gametophytic self-incompatibility reveals S, Z and other loci in a perennial ryegrass (Poaceae) population

Thorogood, D., Yates, S., Manzanares, C., Skot, L., Hegarty, M., Blackmore, T., Barth, S. & Studer, B., 02 Aug 2017, In: Frontiers in Plant Science. 8, N/A, 13 p., 1331.

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17 Citations (SciVal)

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Deep sequencing of Suppression Subtractive Hybridisation drought and recovery libraries of the non-model crop Trifolium repens L.

Bisaga, M., Lowe, M., Hegarty, M., Abberton, M. & Ravagnani, A., 23 Feb 2017, In: Frontiers in Plant Science. 8, 213.

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Expression of a fungal ferulic acid esterase in suspension cultures of tall fescue (Festuca arundinacea) decreases cell wall feruloylation and increases rates of cell wall digestion

Morris, P., Dalton, S., Langdon, T., Hauck, B. & Buanafina, M. M. D. O., 01 May 2017, In: Plant Cell, Tissue and Organ Culture. 129, 2, p. 181-193 13 p.

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5 Citations (SciVal)

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Genomic prediction unifies animal and plant breeding programs to form platforms for biological discovery

Hickey, J., Chiurugwi, T., Mackay, I., Powell, W., Eggen, A., Kilian, A., Jones, C., Canales, C., Grattapaglia, D., Bassi, F., Atlin, G., Gorjanc, G., Dawson, I., Rabbi, I., Ribaut, J-M., Rutkoski, J., Benzie, J., Lightner, J., Macharo, J., Parmentier, J., & 15 othersRobins, K., Skot, L., Wolfe, M., Rouard, M., Clark, M., Amer, P., Gardiner, P., Hendre, P., Mrode, R., Sivasankar, S., Rasmussen, S., Groh, S., Jackson, V., Thomas, W. & Beyenne, Y., 01 Sept 2017, In: Nature Genetics. 49, 9, p. 1297-1303 7 p.

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190 Citations (SciVal)

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Hydroponic evaluation of growth and nutrient uptake in a Lolium/Festuca introgression series

Harper, J., Thomas, A., Evans, C., Mathews, R., Allen, D., Humphreys, M. & Armstead, I., 2017, p. 66. 1 p.

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2016

A Gene Encoding a DUF247 Domain Protein Cosegregates with the S Self-Incompatibility Locus in Perennial Ryegrass

Manzanares, C., Barth, S., Thorogood, D., Byrne, S., Yates, S., Czaban, A., Asp, T., Yang, B. & Studer, B., 01 Apr 2016, In: Molecular Biology and Evolution. 33, 4, p. 870-884 15 p.

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A spontaneous mutation in MutL-Homolog 3 (HvMLH3) affects synapsis and crossover resolution in the barley desynaptic mutant des10

Colas, I., Macaulay, M., Higgins, J. D., Phillips, D., Barakate, A., Posch, M., Armstrong, S. J., Franklin, F. C. H., Waugh, R. & Ramsay, L., 13 Oct 2016, In: New Phytologist. 212, 3, p. 693-707 14 p.

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31 Citations (SciVal)

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Characterization of novel SSR markers in diverse sainfoin (Onobrychis viciifolia) germplasm

Kempf, K., Mora-Ortiz, M., Smith, L., Koelliker, R. & Skot, L., 30 Aug 2016, In: BMC Genetics. 17, 14 p., 124.

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De-novo transcriptome assembly for gene identification, analysis, annotation, and molecular marker discovery in Onobrychis viciifolia

Mora-Ortiz, M., Swain, M., Vickers, M., Hegarty, M., Kelly, R., Smith, L. & Skot, L., 26 Sept 2016, In: BMC Genomics. 17, 13 p., 756.

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Implementation of genomic prediction in Lolium perenne (L.) breeding populations

Grinberg, N., Lovatt, A., Hegarty, M., Macfarlane, A. C., Skot, K., Kelly, R., Blackmore, T., Thorogood, D., King, R. D., Armstead, I., Powell, W. & Skot, L., 12 Feb 2016, In: Frontiers in Plant Science. 7, FEB2016, 10 p., 133.

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2015

Functional co-expression of a fungal ferulic acid esterase and a β-1, 4 endoxylanase in Festuca arundinacea (tall fescue) modifies post-harvest cell wall deconstruction

Buanafina, M. M. D. O., Dalton, S., Langdon, T., Timms-Taravella, E., Shearer, E. A. & Morris, P., 01 Jul 2015, In: Planta. 242, 1, p. 97-111 14 p.

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Genetic Differentiation in Response to Selection for Water-Soluble Carbohydrate Content in Perennial Ryegrass (Lolium perenne L.)

Gallagher, J. A., Turner, L. B., Cairns, A. J., Farrell, M. S., Lovatt, J. A., Skøt, K. P., Armstead, I. P., Humphreys, M. O. & Roldan_Ruiz, I., Mar 2015, In: Bioenergy Research. 8, 1, p. 77-90 14 p.

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Genetic-geographic correlation revealed across a broad European ecotypic sample of perennial ryegrass (Lolium perenne) using array-based SNP genotyping

Blackmore, T., Thomas, I., McMahon, R., Powell, W. & Hegarty, M., 24 Oct 2015, In: Theoretical and Applied Genetics. 128, 10, p. 1917-1932 16 p.

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Red clover (Trifolium pratense L.) draft genome provides a platform for trait improvement

de Vega, J., Ayling, S., Hegarty, M. J., Kudrna, D., Goicoechea, J. L., Ergon, Å., Rognli, O-A., Jones, C., Swain, M. T., Geurts, R., Lang, C., Mayer, K. F. X., Rössner, S., Yates, S. A., Webb, K. J., Donnison, I. S., Oldroyd, G. E. D., Wing, R., Caccamo, M., Powell, W., & 2 othersAbberton, M. T. & Skot, L., 30 Nov 2015, In: Scientific Reports. 5, 10 p., 17394 .

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The effect of temperature on the male and female recombination landscape of barley

Phillips, D., Jenkins, G., Macaulay, M., Nibau, C., Wnetrzak, J., Fallding, D. S., Colas, I., Oakey, H., Waugh, R. & Ramsay, L., 18 Sept 2015, In: New Phytologist. 208, 2, p. 421-429 9 p.

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2014

A genetic association between leaf elongation rate and flowering time in perennial ryegrass.

Thorogood, D., Blackmore, T. M., Mathews, R., Allen, D., MacDuff, J. H. & Hegarty, M. J., 25 Sept 2014, Quantitative Traits Breeding for Multifunctional Grasslands and Turf. Sokolović, D., Huyghe, C. & Radović, J. (eds.). Springer Nature, p. 267-271 4 p.

Research output: Chapter in Book/Report/Conference proceeding › Conference Proceeding (Non-Journal item)

CDKG1 protein kinase is essential for synapsis and male meiosis at high ambient temperature in Arabidopsis thaliana

Zheng, T., Nibau, C., Phillips, D. W., Jenkins, G., Armstrong, S. J. & Doonan, J. H., 11 Feb 2014, In: Proceedings of the National Academy of Sciences of the United States of America. 111, 6, p. 2182-2187 6 p.

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De novo assembly of red clover transcriptome based on RNA-Seq data provides insight into drought response, gene discovery and marker identification

Yates, S. A., Swain, M. T., Hegarty, M. J., Chernukin, I., Lowe, M. J., Allison, G. G., Ruttlink, T., Abberton, M. T., Jenkins, G. & Skøt, L., 09 Jun 2014, In: BMC Genomics. 15, 1, 15 p., 453.

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Licensing MLH1 sites for crossover during meiosis

Martin, A. C., Shaw, P., Phillips, D., Reader, S. & Moore, G., 06 Aug 2014, In: Nature Communications. 5, 5 p., 4580 .

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QTL identification for leaf senescence in perennial ryegrass (Lolium perenne L.)

Canunayon, M. & Thorogood, D., 2014, Quantitative Traits Breeding for Multifunctional Grasslands and Turf. Sokolović, D., Huyghe, C. & Radović, J. (eds.). Springer Nature, Vol. 14. p. 239-247 8 p.

Research output: Chapter in Book/Report/Conference proceeding › Conference Proceeding (Non-Journal item)

2013

A DArT marker genetic map of perennial ryegrass (Lolium perenne L.) integrated with detailed comparative mapping information; comparison with existing DArT marker genetic maps of Lolium perenne, L. multiflorum and Festuca pratensis

King, J., Thomas, A., James, C., King, I. & Armstead, I., 03 Jul 2013, In: BMC Genomics. 14, 1, p. n/a 437.

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Genotyping by RAD sequencing enables mapping of fatty acid composition traits in perennial ryegrass (Lolium perenne (L.))

Hegarty, M. J., Yadav, R. S., Lee, M. R., Armstead, I. P., Sanderson, R., Scollan, N. D., Powell, W. & Skøt, L., 17 May 2013, In: Plant Biotechnology Journal. 11, 5, p. 572–581 10 p.

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2012

Development of genomic resources in the species of Trifolium L. and Its application in forage legume breeding

Ravagnani, A., Abberton, M. T. & Skøt, L., 09 May 2012, In: Agronomy. 2, 2, p. 116-131 15 p.

Research output: Contribution to journal › Article › peer-review

Expression of a Trichoderma reesei β-1,4 endo-xylanase in tall fescue modifies cell wall structure and digestibility and elicits pathogen defence responses

Buanafina, M. M. D. O., Langdon, T., Dalton, S. & Morris, P., 01 Dec 2012, In: Planta. 236, 6, p. 1757-1774 18 p.

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Temporal changes in population genetic diversity and structure in red and white clover grown in three contrasting environments in northern Europe

Collins, R. P., Helgadóttir, Á., Frankow-lindberg, B. E., Skøt, L., Jones, C. M. & Skøt, K. P., Nov 2012, In: Annals of Botany. 110, 6, p. 1341-1350 10 p.

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Lolium and Trifolium genetics, genomics and germplasm development

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