CIR: Search for Microsatellite Markers in Several Tropical Plants
and their Pathogens
-
Contributors
Trung-Bieu Nguyen,
Marc Giband,
Ange-Marie Risterucci,
Jean-Marc Lacape
CIRAD, Centre International en Recherche Agronomique pour
le Développement,
UMR1096, TA 70/03,
Avenue Agropolis, 34398
Montpellier Cedex 5, France.
Pascal Brottier,
Genoscope, Centre National de Séquençage
2, rue Gaston Crémieux
CP 5706,
91057 Evry Cedex, France.
- Project Description
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
/
Download
the 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 BLAST or FASTA server.
References
- 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.
19(1): 45-58
- 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
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