Ancient orphan crop joins modern era : gene-based SNP discovery and mapping in lentil

Thumbnail image

Download files

DOI

https://doi.org/10.1186/1471-2164-14-192

Language of the publication
English
Date
2013-03-18
Type
Article
Author(s)
  • Sharpe, Andrew G.
  • Ramsay, Larissa
  • Sanderson, Lacey-Anne
  • Fedoruk, Michael J.
  • Clarke, Wayne E.
  • Li, Rong
  • Kagale, Sateesh
  • Vijayan, Perumal
  • Vandenberg, Albert
  • Bett, Kirstin E.
Publisher
BioMed Central Ltd.

Abstract

Background The genus Lens comprises a range of closely related species within the galegoid clade of the Papilionoideae family. The clade includes other important crops (e.g. chickpea and pea) as well as a sequenced model legume (Medicago truncatula). Lentil is a global food crop increasing in importance in the Indian sub-continent and elsewhere due to its nutritional value and quick cooking time. Despite this importance there has been a dearth of genetic and genomic resources for the crop and this has limited the application of marker-assisted selection strategies in breeding. Results We describe here the development of a deep and diverse transcriptome resource for lentil using next generation sequencing technology. The generation of data in multiple cultivated (L. culinaris) and wild (L. ervoides) genotypes together with the utilization of a bioinformatics workflow enabled the identification of a large collection of SNPs and the subsequent development of a genotyping platform that was used to establish the first comprehensive genetic map of the L. culinaris genome. Extensive collinearity with M. truncatula was evident on the basis of sequence homology between mapped markers and the model genome and large translocations and inversions relative to M. truncatula were identified. An estimate for the time divergence of L. culinaris from L. ervoides and of both from M. truncatula was also calculated. Conclusions The availability of the genomic and derived molecular marker resources presented here will help change lentil breeding strategies and lead to increased genetic gain in the future.

Subject

  • Agriculture

Pagination

1-13

Peer review

Yes

Open access level

Gold

Identifiers

ISSN
1471-2164

Article

Journal title
BMC Genomics
Journal volume
14
Article number
192
Accepted date
2013-02-22
Submitted date
2012-11-03

Citation(s)

Sharpe, A. G., Ramsay, L., Sanderson, L.-.A., Fedoruk, M. J., Clarke, W. E., Li, R., Kagale, S., Vijayan, P., Vandenberg, A., & Bett, K. E. (2013). Ancient orphan crop joins modern era : gene-based SNP discovery and mapping in lentil. BMC Genomics, 14, Article 192. https://doi.org/10.1186/1471-2164-14-192

Download(s)

URI

Collection(s)

Crops and horticulture

Full item page

Full item page

Page details

Date modified: