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
LcC02159p547LcC02159p547genetic_marker
LcC02159p629LcC02159p629genetic_marker
LcC02159p660LcC02159p660genetic_marker
LcC02159p671LcC02159p671genetic_marker
LcC02161p250LcC02161p250genetic_marker
LcC02161p377LcC02161p377genetic_marker
LcC02161p585LcC02161p585genetic_marker
LcC02162p168LcC02162p168genetic_marker
LcC02162p178LcC02162p178genetic_marker
LcC02162p301LcC02162p301genetic_marker
LcC02162p316LcC02162p316genetic_marker
LcC02162p38LcC02162p38genetic_marker
LcC02162p70LcC02162p70genetic_marker
LcC02163p247LcC02163p247genetic_marker
LcC02163p356LcC02163p356genetic_marker
LcC02165p154LcC02165p154genetic_marker
LcC02165p431LcC02165p431genetic_marker
LcC02165p479LcC02165p479genetic_marker
LcC02165p489LcC02165p489genetic_marker
LcC02165p504LcC02165p504genetic_marker
LcC02166p10LcC02166p10genetic_marker
LcC02167p287LcC02167p287genetic_marker
LcC02167p365LcC02167p365genetic_marker
LcC02167p649LcC02167p649genetic_marker
LcC02167p706LcC02167p706genetic_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