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
LcC08698p202LcC08698p202genetic_marker
LcC08698p293LcC08698p293genetic_marker
LcC08698p353LcC08698p353genetic_marker
LcC08698p404LcC08698p404genetic_marker
LcC08698p428LcC08698p428genetic_marker
LcC08698p499LcC08698p499genetic_marker
LcC08698p95LcC08698p95genetic_marker
LcC08698p97LcC08698p97genetic_marker
LcC08702p536LcC08702p536genetic_marker
LcC08703p260LcC08703p260genetic_marker
LcC08704p255LcC08704p255genetic_marker
LcC08704p256LcC08704p256genetic_marker
LcC08708p26LcC08708p26genetic_marker
LcC08708p277LcC08708p277genetic_marker
LcC08708p303LcC08708p303genetic_marker
LcC08708p352LcC08708p352genetic_marker
LcC08708p376LcC08708p376genetic_marker
LcC08708p388LcC08708p388genetic_marker
LcC08708p391LcC08708p391genetic_marker
LcC08708p392LcC08708p392genetic_marker
LcC08708p405LcC08708p405genetic_marker
LcC08708p411LcC08708p411genetic_marker
LcC08710p201LcC08710p201genetic_marker
LcC08719p473LcC08719p473genetic_marker
LcC08719p476LcC08719p476genetic_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