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The Plant Genome Abstract - Original Research

Linkage Map Construction and Quantitative Trait Locus Analysis of Agronomic and Fiber Quality Traits in Cotton


This article in TPG

  1. Vol. 7 No. 1
    unlockOPEN ACCESS
    Received: July 19, 2013
    Published: March 28, 2014

    * Corresponding author(s): mag87@cornell.edu
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  1. Michael A. Gore *a,
  2. David D. Fangb,
  3. Jesse A. Polandc,
  4. Jinfa Zhangd,
  5. Richard G. Percye,
  6. Roy G. Cantrellf,
  7. Gregory Thyssenb and
  8. Alexander E. Lipkag
  1. a Dep. of Plant Breeding and Genetics, Cornell Univ., Ithaca, NY 14853
    b USDA-ARS, Cotton Fiber Bioscience Research Unit, Southern Regional Research Center, 1100 Robert E. Lee Blvd., New Orleans, LA 70124
    c USDA-ARS, Hard Winter Wheat Genetics Research Unit, Manhattan, KS, and Dep. of Agronomy, Kansas State Univ., Manhattan, KS 66506
    d Dep. of Plant and Environmental Sciences, New Mexico State Univ., Las Cruces, NM 88003
    e USDA-ARS, Southern Plains Agricultural Research Center, Crop Germplasm Research Unit, 2881 F&B Rd., College Station, TX 77845
    f Monsanto, 700 Chesterfield Pkwy. W., Mail Stop CC5A, Chesterfield, MO 63017
    g Institute for Genomic Diversity, Cornell Univ., Ithaca, NY. M.A. Gore and D.D. Fang contributed equally to this work


The superior fiber properties of Gossypium barbadense L. serve as a source of novel variation for improving fiber quality in Upland cotton (G. hirsutum L.), but introgression from G. barbadense has been largely unsuccessful due to hybrid breakdown and a lack of genetic and genomic resources. In an effort to overcome these limitations, we constructed a linkage map and conducted a quantitative trait locus (QTL) analysis of 10 agronomic and fiber quality traits in a recombinant inbred mapping population derived from a cross between TM-1, an Upland cotton line, and NM24016, an elite G. hirsutum line with stabilized introgression from G. barbadense. The linkage map consisted of 429 simple-sequence repeat (SSR) and 412 genotyping-by-sequencing (GBS)-based single-nucleotide polymorphism (SNP) marker loci that covered half of the tetraploid cotton genome. Notably, the 841 marker loci were unevenly distributed among the 26 chromosomes of tetraploid cotton. The 10 traits evaluated on the TM-1 × NM24016 population in a multienvironment trial were highly heritable, and most of the fiber traits showed considerable transgressive variation. Through the QTL analysis, we identified a total of 28 QTLs associated with the 10 traits. Our study provides a novel resource that can be used by breeders and geneticists for the genetic improvement of agronomic and fiber quality traits in Upland cotton.

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