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

Jose J. De Vega, Sarah Ayling, Matthew Hegarty, David A Kudrna, Jose L. Goicoechea, Åshild Ergon, Odd A. Rognli, Charlotte Jones, Martin Swain, Rene Geurts, Chunting Lang, Klaus F X Mayer, Stephan Rössner, Steven Yates, Kathleen J. Webb, Iain S. Donnison, Giles E D Oldroyd, Rod A Wing, Mario Caccamo, Wayne PowellMichael T. Abberton, Leif Skøt

Research output: Contribution to journalArticle

43 Citations (Scopus)

Abstract

Red clover (Trifolium pratense L.) is a globally significant forage legume in pastoral livestock farming systems. It is an attractive component of grassland farming, because of its high yield and protein content, nutritional value and ability to fix atmospheric nitrogen. Enhancing its role further in sustainable agriculture requires genetic improvement of persistency, disease resistance, and tolerance to grazing. To help address these challenges, we have assembled a chromosome-scale reference genome for red clover. We observed large blocks of conserved synteny with Medicago truncatula and estimated that the two species diverged ∼23 million years ago. Among the 40,868 annotated genes, we identified gene clusters involved in biochemical pathways of importance for forage quality and livestock nutrition. Genotyping by sequencing of a synthetic population of 86 genotypes show that the number of markers required for genomics-based breeding approaches is tractable, making red clover a suitable candidate for association studies and genomic selection.

Original languageEnglish (US)
Article number17394
JournalScientific Reports
Volume5
DOIs
StatePublished - Nov 30 2015

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Trifolium
Agriculture
Genome
Livestock
Medicago truncatula
Synteny
Disease Resistance
Nutritive Value
Multigene Family
Genomics
Fabaceae
Breeding
Nitrogen
Chromosomes
Genotype
Population
Genes
Proteins

ASJC Scopus subject areas

  • General

Cite this

De Vega, J. J., Ayling, S., Hegarty, M., Kudrna, D. A., Goicoechea, J. L., Ergon, Å., ... Skøt, L. (2015). Red clover (Trifolium pratense L.) draft genome provides a platform for trait improvement. Scientific Reports, 5, [17394]. https://doi.org/10.1038/srep17394

Red clover (Trifolium pratense L.) draft genome provides a platform for trait improvement. / De Vega, Jose J.; Ayling, Sarah; Hegarty, Matthew; Kudrna, David A; Goicoechea, Jose L.; Ergon, Åshild; Rognli, Odd A.; Jones, Charlotte; Swain, Martin; Geurts, Rene; Lang, Chunting; Mayer, Klaus F X; Rössner, Stephan; Yates, Steven; Webb, Kathleen J.; Donnison, Iain S.; Oldroyd, Giles E D; Wing, Rod A; Caccamo, Mario; Powell, Wayne; Abberton, Michael T.; Skøt, Leif.

In: Scientific Reports, Vol. 5, 17394, 30.11.2015.

Research output: Contribution to journalArticle

De Vega, JJ, Ayling, S, Hegarty, M, Kudrna, DA, Goicoechea, JL, Ergon, Å, Rognli, OA, Jones, C, Swain, M, Geurts, R, Lang, C, Mayer, KFX, Rössner, S, Yates, S, Webb, KJ, Donnison, IS, Oldroyd, GED, Wing, RA, Caccamo, M, Powell, W, Abberton, MT & Skøt, L 2015, 'Red clover (Trifolium pratense L.) draft genome provides a platform for trait improvement', Scientific Reports, vol. 5, 17394. https://doi.org/10.1038/srep17394
De Vega, Jose J. ; Ayling, Sarah ; Hegarty, Matthew ; Kudrna, David A ; Goicoechea, Jose L. ; Ergon, Åshild ; Rognli, Odd A. ; Jones, Charlotte ; Swain, Martin ; Geurts, Rene ; Lang, Chunting ; Mayer, Klaus F X ; Rössner, Stephan ; Yates, Steven ; Webb, Kathleen J. ; Donnison, Iain S. ; Oldroyd, Giles E D ; Wing, Rod A ; Caccamo, Mario ; Powell, Wayne ; Abberton, Michael T. ; Skøt, Leif. / Red clover (Trifolium pratense L.) draft genome provides a platform for trait improvement. In: Scientific Reports. 2015 ; Vol. 5.
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