Identification of 700 New Microsatellite Loci from Cotton (G. hirsutum L.) [electronic resource].

Publication Overview
TitleIdentification of 700 New Microsatellite Loci from Cotton (G. hirsutum L.) [electronic resource].
AuthorsHoffman SM; Kohel RJ; Pepper AE; Xiao J; Yu JZ; Grum DS
TypeJournal Article
Journal NameJournal of Cotton Science
Volume11
Year2007
Page(s)208 241
CitationHoffman S, Yu J, Grum D, Xiao J, Kohel R, Pepper A. Identification of 700 New Microsatellite Loci from Cotton (G. hirsutum L.). Journal of cotton science. 2007; 11(4):208-241
Publication CodeJCS-11-208

Abstract

Microsatellite markers, also known as SSRs, comprise a keystone technology for genetic linkage analysis, QTL mapping, marker-assisted breeding, and genome analysis. In order to contribute to a growing body of molecular marker resources for cotton research and improvement, 700 primer pairs were developed to amplify new microsatellite markers, designated Gh for Gossypium hirsutum. These primers were designed using microsatellite sequences that were isolated from genomic DNA of G. hirsutum cv. Tamcot Sphinx by a biotinylated-oligonucleotide capture method. A total of 4,512 clones from (GA)(n), (AGA)(n), and (CA)(n) microsatellite-enriched libraries were sequenced. From these, 1,059 primer pairs were developed. Of the first 700 primer-pairs to be characterized, 602 primer pairs (86\\%) produced one or more distinct PCR amplification products within the expected size range in at least one of the test cotton genotypes, G. hirsutum acc. TM-1 and G. barbadense acc. 3-79. Further, 201 primer pairs (28.7\\%) yielded size polymorphisms between TM-1 and 3-79 that were easily resolved using high-resolution agarose electrophoresis. A subset of 165 polymorphic markers was fully genotyped on a TM-1 x 3-79 interspecific recombinant inbred (RI) population of 191 individuals. In this analysis, segregation distortion was low (10.3\\% of loci) and functional redundancy of marker loci was low (1.2\\% of loci). Data from these markers are being incorporated in an integrated SSR map from the TM-1 x 3-79 recombinant inbred population. Updates regarding sequence, primer, polymorphism, and linkage information from the remainder of the Gh microsatellite collection will be uploaded directly to CottonDB and CMD databases.
Features
This publication contains information about 700 features:
Feature NameUniquenameType
Gh401Gh401genetic_marker
Gh402Gh402genetic_marker
Gh403Gh403genetic_marker
Gh404Gh404genetic_marker
Gh405Gh405genetic_marker
Gh406Gh406genetic_marker
Gh407Gh407genetic_marker
Gh408Gh408genetic_marker
Gh409Gh409genetic_marker
Gh410Gh410genetic_marker
Gh411Gh411genetic_marker
Gh412Gh412genetic_marker
Gh413Gh413genetic_marker
Gh414Gh414genetic_marker
Gh415Gh415genetic_marker
Gh416Gh416genetic_marker
Gh417Gh417genetic_marker
Gh418Gh418genetic_marker
Gh419Gh419genetic_marker
Gh420Gh420genetic_marker
Gh421Gh421genetic_marker
Gh422Gh422genetic_marker
Gh423Gh423genetic_marker
Gh424Gh424genetic_marker
Gh425Gh425genetic_marker

Pages

Properties
Additional details for this publication include:
Property NameValue
Publication TypeJournal Article
Publication Date2007
Language Abbreng
Publication Model[electronic resource].
URLhttp://www.cotton.org/journal/2007-11/4/208.cfm
LanguageEnglish
pISSN1523-6919
Publication CodeJCS-11-208
Published LocationUnited States
eISSN1524-3303
Journal AliasThe journal of cotton science
Journal CodeJCS
Keywordscotton, microsatellite repeats, loci, DNA primers, polymerase chain reaction, genetic markers, genetic polymorphism, polymerase chain reaction; DNA primers; genetic polymorphism; genetic markers; cotton; Gossypium hirsutum; loci; microsatellite repeats