Fine mapping and development of DNA markers for the <Emphasis Type="Italic">qPDH1</Emphasis> locus associated with pod dehiscence in soybean |
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Authors: | Masaya Suzuki Kaien Fujino Yumi Nakamoto Masao Ishimoto Hideyuki Funatsuki |
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Institution: | (1) Faculty of Agriculture, Hokkaido University, 9 Kita 9 Nishi, Sapporo, Hokkaido 060-8589, Japan;(2) Present address: Asian Natural Environmental Science Center (ANESC), The University of Tokyo, 1-1-1, Midori-cho, Nishitokyo-shi, Tokyo 188-0002, Japan;(3) Department of Crop Physiology, Graduate School of Agriculture, Hokkaido University, 9 Kita 9 Nishi, Sapporo, Hokkaido 060-8589, Japan;(4) National Agricultural Research Center for Hokkaido Region (NARCH), Hitsujigaoka, Sapporo, Hokkaido 062-8555, Japan; |
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Abstract: | Pod dehiscence (shattering) is a major cause of yield loss in mechanical harvesting of soybeans. To develop useful selection
markers, we conducted a high-resolution mapping of a major quantitative trait locus (QTL) controlling pod dehiscence, designated
as qPDH1. The progeny of a residual heterozygous line, which was a recombinant inbred line segregating only for the genomic region
around qPDH1, was screened for flanking markers to obtain various recombinants in the vicinity of the QTL. Analysis of the relationship
between degree of pod dehiscence and graphical genotype of these lines confined the location of qPDH1 to a 134-kb region on chromosome 16 (formerly linkage group J), where ten putative genes were predicted to be present. None
of these genes showed significant sequence homology with the Arabidopsis genes that have previously been reported to be associated with pod dehiscence, suggesting the presence of a novel gene and
mechanism underlying pod dehiscence in soybean. Sequencing analysis of the parental shattering-resistant and -susceptible
cultivars for the candidate genes revealed a high-frequency nucleotide polymorphism in this genomic region between the cultivars.
Three markers were developed using insertion/deletion variations in the region. Polymorphism at these marker loci was basically
conserved between diverse shattering-resistant and -susceptible cultivars/lines, suggesting the versatility and usefulness
of these markers for marker-assisted selection. |
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