Development and bin mapping of gene-associated interspecific SNPs for cotton (Gossypium hirsutum L.) introgression breeding efforts

Publication Overview
TitleDevelopment and bin mapping of gene-associated interspecific SNPs for cotton (Gossypium hirsutum L.) introgression breeding efforts
AuthorsHulse-Kemp AM, Ashrafi H, Zheng X, Wang F, Hoegenauer KA, Maeda AB, Yang SS, Stoffel K, Matvienko M, Clemons K, Udall JA, Van Deynze A, Jones DC, Stelly DM
TypeJournal Article
Journal NameBMC genomics
Volume15
Issue1
Year2014
Page(s)945
CitationHulse-Kemp AM, Ashrafi H, Zheng X, Wang F, Hoegenauer KA, Maeda AB, Yang SS, Stoffel K, Matvienko M, Clemons K, Udall JA, Van Deynze A, Jones DC, Stelly DM. Development and bin mapping of gene-associated interspecific SNPs for cotton (Gossypium hirsutum L.) introgression breeding efforts. BMC genomics. 2014 Oct 30; 15(1):945.

Abstract

BACKGROUND
Cotton (Gossypium spp.) is the largest producer of natural fibers for textile and is an important crop worldwide. Crop production is comprised primarily of G. hirsutum L., an allotetraploid. However, elite cultivars express very small amounts of variation due to the species monophyletic origin, domestication and further bottlenecks due to selection. Conversely, wild cotton species harbor extensive genetic diversity of prospective utility to improve many beneficial agronomic traits, fiber characteristics, and resistance to disease and drought. Introgression of traits from wild species can provide a natural way to incorporate advantageous traits through breeding to generate higher-producing cotton cultivars and more sustainable production systems. Interspecific introgression efforts by conventional methods are very time-consuming and costly, but can be expedited using marker-assisted selection.

RESULTS
Using transcriptome sequencing we have developed the first gene-associated single nucleotide polymorphism (SNP) markers for wild cotton species G. tomentosum, G. mustelinum, G. armourianum and G. longicalyx. Markers were also developed for a secondary cultivated species G. barbadense cv. 3-79. A total of 62,832 non-redundant SNP markers were developed from the five wild species which can be utilized for interspecific germplasm introgression into cultivated G. hirsutum and are directly associated with genes. Over 500 of the G. barbadense markers have been validated by whole-genome radiation hybrid mapping. Overall 1,060 SNPs from the five different species have been screened and shown to produce acceptable genotyping assays.

CONCLUSIONS
This large set of 62,832 SNPs relative to cultivated G. hirsutum will allow for the first high-density mapping of genes from five wild species that affect traits of interest, including beneficial agronomic and fiber characteristics. Upon mapping, the markers can be utilized for marker-assisted introgression of new germplasm into cultivated cotton and in subsequent breeding of agronomically adapted types, including cultivar development.

Features
This publication contains information about 118,443 features:
Feature NameUniquenameType
TAMU_Glsp_002914TAMU_Glsp_002914genetic_marker
TAMU_Glsp_002915TAMU_Glsp_002915genetic_marker
TAMU_Glsp_002922TAMU_Glsp_002922genetic_marker
TAMU_Glsp_003036TAMU_Glsp_003036genetic_marker
TAMU_Glsp_003077TAMU_Glsp_003077genetic_marker
TAMU_Glsp_003167TAMU_Glsp_003167genetic_marker
TAMU_Glsp_003168TAMU_Glsp_003168genetic_marker
TAMU_Glsp_003169TAMU_Glsp_003169genetic_marker
TAMU_Glsp_003222TAMU_Glsp_003222genetic_marker
TAMU_Glsp_003302TAMU_Glsp_003302genetic_marker
TAMU_Glsp_003308TAMU_Glsp_003308genetic_marker
TAMU_Glsp_003322TAMU_Glsp_003322genetic_marker
TAMU_Glsp_003323TAMU_Glsp_003323genetic_marker
TAMU_Glsp_003325TAMU_Glsp_003325genetic_marker
TAMU_Glsp_003334TAMU_Glsp_003334genetic_marker
TAMU_Glsp_003360TAMU_Glsp_003360genetic_marker
TAMU_Glsp_003394TAMU_Glsp_003394genetic_marker
TAMU_Glsp_003395TAMU_Glsp_003395genetic_marker
TAMU_Glsp_003396TAMU_Glsp_003396genetic_marker
TAMU_Glsp_003414TAMU_Glsp_003414genetic_marker
TAMU_Glsp_003434TAMU_Glsp_003434genetic_marker
TAMU_Glsp_003437TAMU_Glsp_003437genetic_marker
TAMU_Glsp_003439TAMU_Glsp_003439genetic_marker
TAMU_Glsp_003473TAMU_Glsp_003473genetic_marker
TAMU_Glsp_003507TAMU_Glsp_003507genetic_marker

Pages

Libraries
This publication contains information about 1 libraries:
Library NameUnique NameOrganism
TAMU_CottonSNP63KTAMU_CottonSNP63KGossypium spp.
Properties
Additional details for this publication include:
Property NameValue
Publication TypeJournal Article
eISSN1471-2164
ISSN1471-2164
Journal AbbreviationBMC Genomics
LanguageEnglish
Language AbbrENG
Publication Date2014 Oct 30
Publication ModelPrint-Electronic
URLhttp://www.biomedcentral.com/1471-2164/15/945