Genome resources for climate-resilient cowpea, an essential crop for food security

Publication Overview
TitleGenome resources for climate-resilient cowpea, an essential crop for food security
AuthorsMuñoz-Amatriaín M, Mirebrahim H, Xu P, Wanamaker SI, Luo M, Alhakami H, Alpert M, Atokple I, Batieno BJ, Boukar O, Bozdag S, Cisse N, Drabo I, Ehlers JD, Farmer A, Fatokun C, Gu YQ, Guo YN, Huynh BL, Jackson SA, Kusi F, Lawley CT, Lucas MR, Ma Y, Timko MP, Wu J, You F, Barkley NA, Roberts PA, Lonardi S, Close TJ
TypeJournal Article
Journal NameThe Plant journal : for cell and molecular biology
Volume89
Issue5
Year2017
Page(s)1042-1054
CitationMuñoz-Amatriaín M, Mirebrahim H, Xu P, Wanamaker SI, Luo M, Alhakami H, Alpert M, Atokple I, Batieno BJ, Boukar O, Bozdag S, Cisse N, Drabo I, Ehlers JD, Farmer A, Fatokun C, Gu YQ, Guo YN, Huynh BL, Jackson SA, Kusi F, Lawley CT, Lucas MR, Ma Y, Timko MP, Wu J, You F, Barkley NA, Roberts PA, Lonardi S, Close TJ. Genome resources for climate-resilient cowpea, an essential crop for food security. The Plant journal : for cell and molecular biology. 2017 Mar; 89(5):1042-1054.

Abstract

Cowpea (Vigna unguiculata L. Walp.) is a legume crop that is resilient to hot and drought-prone climates, and a primary source of protein in sub-Saharan Africa and other parts of the developing world. However, genome resources for cowpea have lagged behind most other major crops. Here we describe foundational genome resources and their application to the analysis of germplasm currently in use in West African breeding programs. Resources developed from the African cultivar IT97K-499-35 include a whole-genome shotgun (WGS) assembly, a bacterial artificial chromosome (BAC) physical map, and assembled sequences from 4355 BACs. These resources and WGS sequences of an additional 36 diverse cowpea accessions supported the development of a genotyping assay for 51 128 SNPs, which was then applied to five bi-parental RIL populations to produce a consensus genetic map containing 37 372 SNPs. This genetic map enabled the anchoring of 100 Mb of WGS and 420 Mb of BAC sequences, an exploration of genetic diversity along each linkage group, and clarification of macrosynteny between cowpea and common bean. The SNP assay enabled a diversity analysis of materials from West African breeding programs. Two major subpopulations exist within those materials, one of which has significant parentage from South and East Africa and more diversity. There are genomic regions of high differentiation between subpopulations, one of which coincides with a cluster of nodulin genes. The new resources and knowledge help to define goals and accelerate the breeding of improved varieties to address food security issues related to limited-input small-holder farming and climate stress.

Stocks
This publication contains information about 39 stocks:
Stock NameUniquenameType
24-125-B-124-125-B-1breeding_research_material
524-B524-Bbreeding_research_material
B-301B-301wild_unimproved
Bambey-21Bambey-21breeding_research_material
CB-27CB-27breeding_research_material
CB-3CB-3breeding_research_material
CB-46CB-46breeding_research_material
DanilaDanilawild_unimproved
G32G32wild_unimproved
Greenpack D.G.Greenpack D.G.breeding_research_material
INIA-41INIA-41wild_unimproved
Iron ClayIron Claybreeding_research_material
IT00K-1263IT00K-1263breeding_research_material
IT82E-18IT82E-18breeding_research_material
IT84S-2049IT84S-2049breeding_research_material
IT84S-2246IT84S-2246breeding_research_material
IT89KD-288IT89KD-288breeding_research_material
IT93K-503-1IT93K-503-1breeding_research_material
IT97K-499-35IT97K-499-35breeding_research_material
IT97K-556-6IT97K-556-6breeding_research_material
IT98K-1111-1IT98K-1111-1breeding_research_material
MelakhMelakhbreeding_research_material
MourideMouridebreeding_research_material
Moussa LocalMoussa Localbreeding_research_material
SanziSanziwild_unimproved

Pages

Libraries
This publication contains information about 1 libraries:
Library NameUnique NameOrganism
Cowpea iSelect Consortium AssayCowpea iSelect Consortium AssayN/A N/A
Properties
Additional details for this publication include:
Property NameValue
Publication ModelPrint-Electronic
ISSN1365-313X
eISSN1365-313X
Publication Date2017 Mar
Journal AbbreviationPlant J.
DOI10.1111/tpj.13404
Elocation10.1111/tpj.13404
Copyright© 2016 The Authors. The Plant Journal published by John Wiley & Sons Ltd and Society for Experimental Biology.
LanguageEnglish
Language Abbreng
Publication TypeJournal Article
Journal CountryEngland
Cross References
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DatabaseAccession
PMID: PubMedPMID:27775877