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_144122TAMU_Glsp_144122genetic_marker
TAMU_Glsp_144177TAMU_Glsp_144177genetic_marker
TAMU_Glsp_144188TAMU_Glsp_144188genetic_marker
TAMU_Glsp_144190TAMU_Glsp_144190genetic_marker
TAMU_Glsp_144191TAMU_Glsp_144191genetic_marker
TAMU_Glsp_144251TAMU_Glsp_144251genetic_marker
TAMU_Glsp_144259TAMU_Glsp_144259genetic_marker
TAMU_Glsp_144277TAMU_Glsp_144277genetic_marker
TAMU_Glsp_144309TAMU_Glsp_144309genetic_marker
TAMU_Glsp_144310TAMU_Glsp_144310genetic_marker
TAMU_Glsp_144318TAMU_Glsp_144318genetic_marker
TAMU_Glsp_144319TAMU_Glsp_144319genetic_marker
TAMU_Glsp_144368TAMU_Glsp_144368genetic_marker
TAMU_Glsp_144385TAMU_Glsp_144385genetic_marker
TAMU_Glsp_144389TAMU_Glsp_144389genetic_marker
TAMU_Glsp_144406TAMU_Glsp_144406genetic_marker
TAMU_Glsp_144409TAMU_Glsp_144409genetic_marker
TAMU_Glsp_144422TAMU_Glsp_144422genetic_marker
TAMU_Glsp_144478TAMU_Glsp_144478genetic_marker
TAMU_Glsp_144482TAMU_Glsp_144482genetic_marker
TAMU_Glsp_144524TAMU_Glsp_144524genetic_marker
TAMU_Glsp_144558TAMU_Glsp_144558genetic_marker
TAMU_Glsp_144576TAMU_Glsp_144576genetic_marker
TAMU_Glsp_144607TAMU_Glsp_144607genetic_marker
TAMU_Glsp_144694TAMU_Glsp_144694genetic_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