CIR: Search for Microsatellite Markers in Several Tropical Plants and their Pathogens
Trung-Bieu Nguyen, , ,
CIRAD, Centre International en Recherche Agronomique pour le Développement,
UMR1096, TA 70/03,
Avenue Agropolis, 34398
Montpellier Cedex 5, France.
Genoscope, Centre National de Séquençage
2, rue Gaston Crémieux
91057 Evry Cedex, France.
Microsatellite simple-sequence repeat (SSR) markers were developed and positioned on the genetic map of tetraploid cotton. 392 unique microsatellite sequences, all but two containing a (CA/GT) repeat, were isolated, and the SSR markers were designated "mGhCIR" (for microsatellite Gossypium hirsutum CIRAD), using "CIR" as a short prefix. The deduced primers were used to screen for polymorphism between the Gossypium hirsutum and G. barbadense parents of the mapping population analyzed. A 'cotton' module has been implemented to the TropGENE Database of CIRAD. The information provided includes: SSR description, primers sequences, polymorphisms, map localization and map display, and profiles as .jpg images of "CIR" microsatellies.
View/ Downloadthe standardized panel screened CIR marker data (204).
Download the CIR marker data(Excel format).
Download the CIR primers(Excel format).
Download the CIR microsatellite sequences(fasta format).
Search your sequences against the CIR microsatellites using the BLASTor FASTAserver.
- Lacape JM, Dessauw D, Rajab M, Noyer JL, Hau B. 2007. Microsatellite diversity in tetraploid Gossypium germplasm: assembling a highly informative genotyping set of cotton SSRs. Molecular Breeding.
- Nguyen TB, Giband M, Brottier P, Risterucci AM, Lacape J-M. 2004. Wide coverage of the tetraploid cotton genome using newly developed microsatellite markers. Theoretical and Appllied Genetics. 109: 167-175.
- Lacape J-M, Nguyen T-B, Courtois B, Belot J-L, Giband M, Gourlot J-P, Gawryziak G, Roques S, Hau B. 2005. QTL analysis of cotton fiber quality using multiple Gossypium hirsutum x Gossypium barbadense backcross generations. Crop Science. 45: 123-140
- Ruiz M, Rouard M, Raboin LM, Lartaud M, Lagoda P and Courtois B. 2003. TropGENE-DB, a multi-tropical crop information system. Nucleic Acids Research 2004. 32: D364-367