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

Publication Overview
TitleAncient orphan crop joins modern era: gene-based SNP discovery and mapping in lentil
AuthorsSharpe AG, Ramsay L, Sanderson LA, Fedoruk MJ, Clarke WE, Li R, Kagale S, Vijayan P, Vandenberg A, Bett KE
TypeJournal Article
Journal NameBMC genomics
Volume14
Year2013
Page(s)192
CitationSharpe AG, Ramsay L, Sanderson LA, Fedoruk MJ, Clarke WE, Li R, Kagale S, Vijayan P, Vandenberg A, Bett KE. Ancient orphan crop joins modern era: gene-based SNP discovery and mapping in lentil. BMC genomics. 2013; 14:192.

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.

Features
This publication contains information about 44,943 features:
Feature NameUniquenameType
LcC07487p150LcC07487p150genetic_marker
LcC07487p464LcC07487p464genetic_marker
LcC07487p495LcC07487p495genetic_marker
LcC07487p572LcC07487p572genetic_marker
LcC07487p610LcC07487p610genetic_marker
LcC07487p627LcC07487p627genetic_marker
LcC07487p635LcC07487p635genetic_marker
LcC07487p764LcC07487p764genetic_marker
LcC07488p128LcC07488p128genetic_marker
LcC07488p131LcC07488p131genetic_marker
LcC07489p506LcC07489p506genetic_marker
LcC07492p164LcC07492p164genetic_marker
LcC07492p428LcC07492p428genetic_marker
LcC07494p367LcC07494p367genetic_marker
LcC07494p410LcC07494p410genetic_marker
LcC07494p602LcC07494p602genetic_marker
LcC07494p733LcC07494p733genetic_marker
LcC07494p745LcC07494p745genetic_marker
LcC07494p812LcC07494p812genetic_marker
LcC07498p238LcC07498p238genetic_marker
LcC07499p307LcC07499p307genetic_marker
LcC07502p132LcC07502p132genetic_marker
LcC07502p419LcC07502p419genetic_marker
LcC07502p420LcC07502p420genetic_marker
LcC07502p421LcC07502p421genetic_marker

Pages

Featuremaps
This publication contains information about 1 maps:
Map Name
lentil-CDCRobinx964a-46-RIL
Properties
Additional details for this publication include:
Property NameValue
Publication ModelElectronic
ISSN1471-2164
eISSN1471-2164
Publication Date2013
Journal AbbreviationBMC Genomics
DOI10.1186/1471-2164-14-192
Elocation10.1186/1471-2164-14-192
Language Abbreng
Publication TypeJournal Article
Journal CountryEngland
LanguageEnglish
Publication TypeResearch Support, Non-U.S. Gov't