Projects

MUSS/MUCS: Development of Molecular Markers for Cotton Fiber Characteristics

• Contributors
  Mauricio Ulloa
  USDA-ARS, WCIS, Research Unit, Cotton Enhancement Program, 17053 N. Shafter Ave., Shafter, CA, 93263 .

  Young-Hoon Park, Magdy S. Alabady, Brad Sickler, Thea A. Wilkins
  Department of Plant Sciences, University of California, Davis, CA.
  

• Project Description
  A new set of microsatellites, or simple (SSR) and complex (CSR) markers with di-, tri-, tetra-, and pentanucleotide sequence repeats were developed from approximately 14,000 consensus sequences of the Gossypium arboreum L. fiber data base EST (http://cfgc.ucdavis.edu/ssr). Microsatellites were developed using 1,557 EST-containing SSRs (=10bp) and 5,794 EST-containing CSRs (=12bp) sequences. From a total of 1,232 EST-derived SSR (MUSS) and CSR (MUCS) primer-pairs, 1,019 (83%) of the DNA markers successfully amplified PCR products from a survey panel of six Gossypium species, of which 202 (19.8%) were polymorphic between the species G. hirsutum and G. barbadense using electrophoretic separation on an agarose gel system. Genetic map position and chromosomal location on the tetraploid cotton were assigned for some polymorphic markers. These fiber loci were mapped to 19 chromosomes and 11 linkage groups. New microsatellite loci were designated “MUSS” and “MUCS”: M for microsatellite, U last name of principal investigator, SS for simple sequences, and CS for complex sequence repeats. The information provided here includes: description, primers sequence, map and chromosomal location, and polymorphic data for the 1,232 MUSS and MUCS markers from the panel of six Gossypium species.
  
  
    Download the MUSS/MUCS marker data (Excel format).
    Download the MUSS/MUCS primer data (Excel format).
    Download the MUSS/MUCS microsatellite sequences (fasta format).
    Search your sequences against the MUSS/MUCS microsatellites using the BLAST or FASTA server.
    References
  • Park Y-H, Alabady MS, Ulloa M, Sickler B, Wilkins TA, Yu J, Stelly DM, Kohel RJ, El-Shihy OM, Cantrell RG. 2005. Genetic mapping of new cotton fiber loci using EST-derived microsatellites in an interspecific recombinant inbred line (RIL) cotton population. Molecular Genetics and Genomics. 274: 428-441.
  • Park YH , Ulloa M, Alabady MS, Frelichowski JE, Wilkins T, Stelly DM, Cantrell RG. 2005. EST-derived microsatellite markers as a source for mapping fiber QTL in cotton (Gossypium spp.). Plant and Animal Genome XIII Conference, San Diego, CA, Jan 15-19.
  • Ulloa M, Park YH, Alabady MS, Stewart JM, Wilkins T. 2004. Origins of allelic diversity and genic regions revealed by microsatellite EST markers in cotton. The 49th ASA-CSSA-SSSA International Annual Meeting with the Canadian Society of Soil Science, Seattle, WA, Oct 31 - Nov 4.
  • Alabady MS, Ulloa M, Park YH, Sickler BA, Wilkins TA, Stelly DM, Cantrell RG. 2004. Cotton (Gossypium arboreum L.) Fiber EST-derived compound sequence repeat (CSR) used to develop PCR based markers. The 49th ASA-CSSA-SSSA International Annual Meeting with the Canadian Society of Soil Science, Seattle, WA, Oct 31 - Nov 4.
  • Park YH, Ulloa M, Sickler BA, Wilkins T. 2004. Development and characterization of fiber EST-derived microsatellite in cotton (Gossypium spp). National Cotton Council Beltwide Cotton Conference, San Antonio, January 5-9. P: 1187-1191.