CMD - Cotton Marker Database
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MON: Cotton SSR Project Provided by Monsanto Company

  • Contributor:

    Cotton Molecular Breeding Leader
    Monsanto Company,
    Mail Zone N3SA, 800 N. Lindbergh Blvd.
    St. Louis, MO 63167 USA

    Monsanto assumes no liability or claims associated with any use of the sequences or DNA markers disclosed in this project. Users of the sequences or DNA markers may acknowledge Monsanto Company as the source of the information.

  • Project Description
    Monsanto has invested heavily in development of cotton SSRs and has implemented molecular breeding technologies for the genetic improvement of cotton globally and the acceleration of the integration of biotechnology traits into the most elite upland cotton germplasm in the commercial pipeline. Genomic clones from microsatellite-enriched cotton DNA libraries were sequenced to identify SSR-containing target regions and SSR-containing EST collections were searched. PCR primer pairs were generated for 5,475 target sequences and utilized to amplify SSR marker loci which provide useable levels of polymorphism in interspecific and intraspecific genetic populations. Bioinformatics analysis of these sequences and primer pairs relative to SSR sequences already present in current public databases reveal that approximately 2,937 of these SSR primer pairs and target genomic sequences are unique and amplify about 4,000 unique marker loci in a tetraploid cotton genome depending on the germplasm analyzed. A subset of the Monsanto SSR markers were placed on a consensus genetic map along with a selected set of public anchor SSR markers (BNL and JESPR markers). Chromosome-marker bins, each 20cM in size, were constructed on the genetic linkage map containing the two public marker sources. This generated 207 marker bins for a total of about 4,140cM which is approximately the size of the tetraploid cotton genetic map. These bins contain 945 unique Monsanto SSR marker loci and 615 public anchor SSR markers.


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