BAC-derived SSR markers chromosome locations in cotton |
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Authors: | Yufang Guo Sukumar Saha John Z Yu Johnie N Jenkins Russell J Kohel Brian E Scheffler David M Stelly |
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Institution: | (1) Department of Plant and Soil Sciences, Mississippi State University, Mississippi State, MS 39762, USA;(2) USDA-ARS, Crop Science Research Laboratory, P.O. Box 5367, Mississippi State, MS 39762, USA;(3) USDA-ARS, Crop Germplasm Research Unit, 2765 F&B Road, College Station, TX 77845, USA;(4) USDA-ARS-CGRU, Stoneville, MS 38776, USA;(5) Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843-2474, USA |
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Abstract: | Bacterial artificial chromosome (BAC) libraries with large DNA fragment inserts have rapidly become the preferred choice for
physical mapping. BAC-derived microsatellite or simple sequence repeats (SSRs) markers facilitate the integration of physical
maps with genetic maps. The objective of this research was to identify chromosome locations of the BAC-derived SSR markers
in tetraploid cotton. A total of 192 SSR primer pairs were derived from BAC clones of an Upland cotton genetic standard line
TM-1 (Gossypium hirsutum L.). Metaphor agarose gel electrophoresis results revealed 76 and 59 polymorphic markers between TM-1 and 3–79 (G. barbadense) or G. tomentosum, respectively. Using deletion analysis method, we assigned 39 markers out of the 192 primer pairs to 17 different chromosomes
or chromosome arms. Among them, 19 and 17 markers were localized to A-subgenomes (chromosome 1–13) and D-subgenomes (chromosome
14–26), respectively. The subgenome status for the remaining three markers remained unclear due to their two potential chromosome
locations achieved by tertiary monosomic stocks deletion analysis. Chromosomal assignment of these BAC-derived SSR markers
will help in integrating physical and cotton genetic linkage maps and thus facilitate positional candidate gene cloning, comparative
genome analysis, and the coordination of chromosome-based genome sequencing project in cotton.
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The U.S. Government’s right to retain a non-exclusive, royalty-free license in and to any copyright is acknowledged. |
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Keywords: | BAC-derived SSR Chromosome location Cotton (Gossypium) Aneuploid lines |
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