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Sci Rep. 2015 Nov 30;5:17394. doi: 10.1038/srep17394.

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

Author information

1
The Genome Analysis Centre, Norwich Research Park, Norwich, NR4 7UH, UK.
2
Institute of Biological, Environmental and Rural Sciences, Aberystwyth University, Gogerddan, Aberystwyth, Ceredigion SY23 3EB, UK.
3
Arizona Genomics Institute, School of Plant Sciences, University of Arizona, Tucson AZ 85721, USA.
4
Norwegian University of Life Sciences, Department of Plant Sciences, N-1432, Ås, Norway.
5
Laboratory of Molecular Biology, Department of Plant Science, Wageningen University, Droevendaalsesteeg 1, 6708PB Wageningen, The Netherlands.
6
MIPS/Institute for Bioinformatics and Systems Biology, Helmholtz Center Munich, Ingolstädter Landstrasse 1, Neuherberg, Germany.
7
Forage Crop Genetics, Institute of Agricultural Sciences, ETH Zurich, CH-8092, Zurich, Switzerland.
8
Department of Disease and Stress Biology, John Innes Centre, Norwich NR4 7UH, UK.
9
CGIAR Consortium Office 1000, Avenue Agropolis, F-34394, Montpellier, Cedex 5, France.
10
International Institute of Tropical Agriculture (IITA), PMB 5320, Oyo Road, Ibadan, Nigeria.

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.

PMID:
26617401
PMCID:
PMC4663792
DOI:
10.1038/srep17394
[Indexed for MEDLINE]
Free PMC Article

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