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_208690TAMU_Glsp_208690genetic_marker
TAMU_Glsp_208691TAMU_Glsp_208691genetic_marker
TAMU_Glsp_208710TAMU_Glsp_208710genetic_marker
TAMU_Glsp_208711TAMU_Glsp_208711genetic_marker
TAMU_Glsp_208712TAMU_Glsp_208712genetic_marker
TAMU_Glsp_208731TAMU_Glsp_208731genetic_marker
TAMU_Glsp_208733TAMU_Glsp_208733genetic_marker
TAMU_Glsp_208740TAMU_Glsp_208740genetic_marker
TAMU_Glsp_208748TAMU_Glsp_208748genetic_marker
TAMU_Glsp_208754TAMU_Glsp_208754genetic_marker
TAMU_Glsp_208773TAMU_Glsp_208773genetic_marker
TAMU_Glsp_208774TAMU_Glsp_208774genetic_marker
TAMU_Glsp_208781TAMU_Glsp_208781genetic_marker
TAMU_Glsp_208788TAMU_Glsp_208788genetic_marker
TAMU_Glsp_208789TAMU_Glsp_208789genetic_marker
TAMU_Glsp_208796TAMU_Glsp_208796genetic_marker
TAMU_Glsp_208797TAMU_Glsp_208797genetic_marker
TAMU_Glsp_208799TAMU_Glsp_208799genetic_marker
TAMU_Glsp_208802TAMU_Glsp_208802genetic_marker
TAMU_Glsp_208805TAMU_Glsp_208805genetic_marker
TAMU_Glsp_208806TAMU_Glsp_208806genetic_marker
TAMU_Glsp_208812TAMU_Glsp_208812genetic_marker
TAMU_Glsp_208820TAMU_Glsp_208820genetic_marker
TAMU_Glsp_208824TAMU_Glsp_208824genetic_marker
TAMU_Glsp_208847TAMU_Glsp_208847genetic_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