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
LcC07383p590LcC07383p590genetic_marker
LcC07383p781LcC07383p781genetic_marker
LcC07383p838LcC07383p838genetic_marker
LcC07384p26LcC07384p26genetic_marker
LcC07384p395LcC07384p395genetic_marker
LcC07384p397LcC07384p397genetic_marker
LcC07384p575LcC07384p575genetic_marker
LcC07384p620LcC07384p620genetic_marker
LcC07386p168LcC07386p168genetic_marker
LcC07386p217LcC07386p217genetic_marker
LcC07386p223LcC07386p223genetic_marker
LcC07386p23LcC07386p23genetic_marker
LcC07386p250LcC07386p250genetic_marker
LcC07386p88LcC07386p88genetic_marker
LcC07388p179LcC07388p179genetic_marker
LcC07388p187LcC07388p187genetic_marker
LcC07388p264LcC07388p264genetic_marker
LcC07388p61LcC07388p61genetic_marker
LcC07390p434LcC07390p434genetic_marker
LcC07390p607LcC07390p607genetic_marker
LcC07392p162LcC07392p162genetic_marker
LcC07392p210LcC07392p210genetic_marker
LcC07392p299LcC07392p299genetic_marker
LcC07392p341LcC07392p341genetic_marker
LcC07393p112LcC07393p112genetic_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