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_Gb379_021625TAMU_Gb379_021625genetic_marker
TAMU_Gb379_021626TAMU_Gb379_021626genetic_marker
TAMU_Gb379_021627TAMU_Gb379_021627genetic_marker
TAMU_Gb379_021630TAMU_Gb379_021630genetic_marker
TAMU_Gb379_021636TAMU_Gb379_021636genetic_marker
TAMU_Gb379_021637TAMU_Gb379_021637genetic_marker
TAMU_Gb379_021676TAMU_Gb379_021676genetic_marker
TAMU_Gb379_021677TAMU_Gb379_021677genetic_marker
TAMU_Gb379_021684TAMU_Gb379_021684genetic_marker
TAMU_Gb379_021696TAMU_Gb379_021696genetic_marker
TAMU_Gb379_021697TAMU_Gb379_021697genetic_marker
TAMU_Gb379_021698TAMU_Gb379_021698genetic_marker
TAMU_Gb379_021703TAMU_Gb379_021703genetic_marker
TAMU_Gb379_021717TAMU_Gb379_021717genetic_marker
TAMU_Gb379_021725TAMU_Gb379_021725genetic_marker
TAMU_Gb379_021731TAMU_Gb379_021731genetic_marker
TAMU_Gb379_021760TAMU_Gb379_021760genetic_marker
TAMU_Gb379_021761TAMU_Gb379_021761genetic_marker
TAMU_Gb379_021768TAMU_Gb379_021768genetic_marker
TAMU_Gb379_021785TAMU_Gb379_021785genetic_marker
TAMU_Gb379_021791TAMU_Gb379_021791genetic_marker
TAMU_Gb379_021810TAMU_Gb379_021810genetic_marker
TAMU_Gb379_021814TAMU_Gb379_021814genetic_marker
TAMU_Gb379_021815TAMU_Gb379_021815genetic_marker
TAMU_Gb379_021830TAMU_Gb379_021830genetic_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