Genome / Development - Chromosome & Linkage maps - About

Chromosome & Linkage maps

  • Integrated map
    1. CL, IT, RI, NK (RGP)
    2. NK (RGP), RGN, IRRI
    3. NK (RGP)
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    The Latest High-Density Rice Genetic Map, Data source RGP(2001.1)

    YAC Clone (test version)
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    Explanation about Rice Genetic Maps used here
    1. CL
      CL means a Classical linkage map constructed with phenotypicaly identified 209 genes. This map was first reported in 1990 and revised in 1995, 1998 as a committee report of the Rice Genetics Cooperative (edited by Dr. Kinoshita, T. in the Rice Genetics Newsletter vol. 12, 9-153, 1995, vol. 15, 13-74, 1998). A lot of classical maps constructed regionally and independently in many Universities in Japan (mainly in Kyushu and Hokkaido Universities) were merged together to create a whole length classical map of 12 chromosomes. Chromosomal location of other 362 genes were also assigned to any of 12 chromosomes.

    2. IT
      IT is an integrated map locating 83 RFLP markers and 40 phenotypical marker genes together onto the same map using 17 F2 and one F3 populations (Yoshimura et al. Plant Mol. Biol.35: 49-60, 1997). Phenotypical markers mapped on both the CL and IT maps are connected with solid lines. RFLP markers common to the IT and the RI maps are also lined for position reference.

    3. RI
      RI is an RFLP framework map constructed with 375 RFLP markers using recombinant inbred lines made by a cross of japonica rice "Asominori" and indica rice "IR24" (Tsunematsu et al., Breeding Science 46: 279-284, 1996). Descendant seed sets of the recombinant inbred lines (beyond F7) are available from Prof. Yoshimura (ayoshiagr.kyushu-u.ac.jp, Fax+81-92-642-2804 or 2822). Genotype segregation data of all 375 markers on the RI map and most sequence information of these markers are also accessible in this database.

    4. NK
      This is the most dense molecular genetic map carrying 2275 DNA markers in rice and is constructed with a F2 population (186 plants) of "Nipponbare", a japonica rice, crossed by an indica rice [Kasalath]. This map covers 1521cM genetic distance and 430Mb length and so has markers at every 283kb length on average. This is the landmarker map constructed in the Rice Genome Program (Harushima et al., Genetics 148: 479-494, 1998) and supplies basic frame to the whole genome physical mapping and sequencing project.
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