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United States Department of Agriculture

Agricultural Research Service

Research Project: COTTON GENOMICS AND GENETIC ANALYSIS Title: Development and mapping of gene-tagged SNP markers for gland morphogenesis in cotton

Authors
item Cho, Jaemin
item Lu, Cairui -
item Kohel, Russell
item Yu, John

Submitted to: Journal of Cotton Science
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: September 30, 2010
Publication Date: April 20, 2011
Citation: Cho, J., Lu, C., Kohel, R.J., Yu, J. 2011. Development and mapping of gene-tagged SNP markers for gland morphogenesis in cotton. Journal of Cotton Science. 15:22-32.

Interpretive Summary: Cotton plants have small, black-colored gland tissues on the surface of roots, stems, leaves and cottonseeds. A chemical named gossypol is concentrated within these gland tissues. Gossypol limits food utilization of cottonseed due to its toxicity to humans and non-ruminant animals. Because accumulation of gossypol is closely related to the development of gland tissues, localization of DNA markers involved in gland formation on the cotton genome map is helpful for the discovery of candidate genes associated with gland and gossypol traits. We have developed 36 SNP (single nucleotide polymorphism) markers that can localize 20 genes involved in gland tissue formation on the cotton genome map. Cotton breeders could enhance a quality trait such as cottonseed without gland tissues with the functional DNA markers we developed in this study.

Technical Abstract: The genus Gossypium has small, pigmented glands filled with a terpenoid aldehyde, gossypol, in many parts of the plant including cottonseed. Gossypol limits food utilization of cottonseed due to its toxicity to human and non-ruminant animals. Because the genesis of gossypol is closely related to the gland morphogenesis, localization of functional markers involved in gland morphogenesis is needed for the discovery of candidate genes associated with gland and gossypol traits and the results are shown here. A total of eighty-five unique gland development-related protein (GDRP) mRNA sequences were collected from NCBI GenBank. Intron-flanking regions within GDRP genes were amplified using 156 primers designed from exon/exon junction sites inferred from Arabidopsis homologous sequences. Intron size polymorphism was not detected in this study between G. hirsutum cv. TM-1 and G. barbadense cv. 3-79. Therefore, 30 purposely selected GDRP PCR products were subsequently sequenced to identify single nucleotide polymorphisms (SNPs). A total of forty SNPs including six indels were identified in 16,328 bp of GDRP coding and intron sequences. We genotyped all SNP markers against 188 recombinant inbred lines previously developed from the cross of TM-1 and 3-79 and mapped 36 SNP markers (23 loci) to a genetic map saturated with over 2,000 molecular markers. The 23 loci mapped in this investigation were distributed throughout 16 chromosomes. Localization of functional genes on the map may increase the utility of previously developed genetic markers.

Last Modified: 10/20/2014
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