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This article in TPG

  1. Vol. 5 No. 3, p. 126-135
    unlockOPEN ACCESS
     
    Received: July 11, 2012
    Published: December 12, 2012


    * Corresponding author(s): jyu@ksu.edu
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doi:10.3835/plantgenome2012.07.0016

Association Mapping for Grain Quality in a Diverse Sorghum Collection

  1. Sivakumar Sukumarana,
  2. Wenwen Xianga,
  3. Scott R. Beanb,
  4. Jeffrey F. Pedersenc,
  5. Stephen Kresovichd,
  6. Mitchell R. Tuinstrae,
  7. Tesfaye T. Tessoa,
  8. Martha T. Hamblinf and
  9. Jianming Yu a
  1. a Dep. of Agronomy, Kansas State Univ., Manhattan, KS 66506
    b USDA-ARS, Grain Storage and Structural Research Unit, Manhattan, KS 66502
    c USDA-ARS, Grain, Forage, and Bioenergy Research, Univ. of Nebraska, Lincoln, NE 68583
    d Dep. of Biological Sciences, Univ. of South Carolina, Columbia, SC 29208
    e Dep. of Agronomy, Purdue Univ., West Lafayette, IN 47907
    f Institute for Genomic Diversity, Cornell Univ., Ithaca, NY 14853.

Abstract

Knowledge of the genetic bases of grain quality traits will complement plant breeding efforts to improve the end-use value of sorghum [Sorghum bicolor (L.) Moench]. Candidate gene association mapping was used on a diverse panel of 300 sorghum accessions to assess marker–trait associations for 10 grain quality traits measured using the single kernel characterization system (SKCS) and near-infrared reflectance spectroscopy (NIRS). The analysis of the accessions through 1290 genomewide single nucleotide polymorphisms (SNPs) separated the panel into five subpopulations that corresponded to three major sorghum races (durra, kafir, and caudatum), one intermediate race (guinea-caudatum), and one working group (zerazera-caudatum). These subpopulations differed in kernel hardness, acid detergent fiber, and total digestible nutrients. After model testing, association analysis between 333 SNPs in candidate genes and/or loci and grain quality traits resulted in eight significant marker–trait associations. A SNP in starch synthase IIa (SSIIa) gene was associated with kernel hardness (KH) with a likelihood ratio-based R2 (RLR2) value of 0.08, a SNP in starch synthase (SSIIb) gene was associated with starch content with an RLR2 value of 0.10, and a SNP in loci pSB1120 was associated with starch content with an RLR2 value of 0.09.

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