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
Gh226Gh226genetic_marker
Gh227Gh227genetic_marker
Gh228Gh228genetic_marker
Gh229Gh229genetic_marker
Gh230Gh230genetic_marker
Gh231Gh231genetic_marker
Gh232Gh232genetic_marker
Gh233Gh233genetic_marker
Gh234Gh234genetic_marker
Gh235Gh235genetic_marker
Gh236Gh236genetic_marker
Gh237Gh237genetic_marker
Gh238Gh238genetic_marker
Gh239Gh239genetic_marker
Gh240Gh240genetic_marker
Gh241Gh241genetic_marker
Gh242Gh242genetic_marker
Gh243Gh243genetic_marker
Gh244Gh244genetic_marker
Gh245Gh245genetic_marker
Gh246Gh246genetic_marker
Gh247Gh247genetic_marker
Gh248Gh248genetic_marker
Gh249Gh249genetic_marker
Gh250Gh250genetic_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