Y. harushima, Y. yamazaki and N. kurata
National Institute of Genetics, Mishima, 411 Japan
Accumulation of rice genetic resources which have been collected and developed in this century has widely contributed to rice researches. Recent advances in rice genome researches brought an enormous amount of information which is of outstanding importance to researchers in many areas of genetics, agronomy and biology.
Here we present a selection of database server sites offering rice-related information. Table 1 gives a listing of the WWW addresses (as of October 1997) where the genetic resources information is available.
The database servers listed in Table 2 provide the genome information including genetic map, physical map and DNA clones. cDNA and DNA marker sequence data is widely available from DNA databank (DDBJ/EMBL/Genebank).
Cartinhour (1997), Jackson (1997) and Nakagahra et al. (1997) overviewed the current status of rice genetic resources conservation, informatics and the policy for germplasm management.
Table 1. Major Rice Genetic Resources Database Servers on the Internet |
||
Genetic Stocks |
||
Organization (URL) |
Strains |
Accessions |
CGIAR |
||
Consultative Group on International Agricultural Research |
||
(http://www.cgiar.org) |
||
SINGER |
||
System-wide Information Network for Genetic Resource |
||
Database (http://noc 1 .cgiar.org) |
||
IRRI |
Landraces or Cultivars |
77,869 |
International Rice Research Institute, |
Wild Species |
2,178 |
Philippines. |
Others |
599 |
(http://www.cgiar.org/irri) |
Total |
80,646 |
IITA |
Landraces or Cultivars |
12,151 |
International Institute of Tropical Agriculture, |
Wild Species |
164 |
Nigeria. |
Others |
0 |
(http://www.cgiar.org/iita/horne.htm) |
Total |
12,315 |
WARDA |
Landraces or Cultivars |
16,560 |
West Africa Rice Development Association |
Wild Species |
880 |
Cote d'lvoire. |
Others |
0 |
(http://www.cgiar.org/warda) |
Total |
17,440 |
(continue) |
168 Rice Genetics Newsletter Vol. 14
FAO |
||
Food and Agriculture Organization of the United Nations |
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(http://wcb.icppgr.fao.org) |
||
NIG |
Landraces or Cultivars |
6.293 |
National Institute of Genetics. |
Wild Species |
1,609 |
Japan. |
Others |
3,178 |
http://www.grs.nig.ac.jp/NIGrice/rice.html |
Total |
11,080 |
NIAR |
||
National Institute of Agrobiological Resouces, Japan. |
Landraces or Cultivars |
8,671 |
Database is in Japanese. |
||
http://www.gene.affrc.go.jp/plant/db/ |
Total |
8.671 |
NPGS |
Landraces or Cultivars |
18,516 |
National Plant Germplasm System, |
Wild Species |
57 |
USA. |
Others |
10 |
http://www.ars-prin.pov/npgs |
Total |
18.583 |
NPGRC |
||
National Plant Genetic Resources Center, |
||
Taiwan. |
||
http://www.npgrc.tari.gov.tw |
Total |
3,980 |
Table 2. Rice Genome Database Servers on the Internet
URL |
Information |
DNA bank at Ministry of Agriculture, Forestry and Fisheries of Japan http://www. dna.affrc.go.jp:S4/index.html http://bank.dna.affrc.go.jp/ |
RGP Genetic map, RGP Physical map, Genotype data for RI lines, etc DNA Stock Information of DNA Keyword search, Homologv search, etc) |
The World Wide Web Agricultural Genome Information Server (USA) http://probe.nalusda.gov:8000/plant/aboutricegenes.html |
RiceGencs (Genetic maps, etc). Rice Genetics Newsletter |
The Korea Rice Genome Network h ttp://bioserver.myongjii.ac.kr/ricemac.HTML |
The Korea Rice EST Database, Rice Maps, etc |
University of Minnesota http://www.ebc.med.umn.edu/ResearchProjects/Rice/index.hlml |
a WAIS index search on the results of Rice cDNA similarity search |
Entrez
The Entrez Browser is provided by the National Center for Biotechnology Information (NCBI, USA). http://www3.ncbi.nlm.nih.gov/Entrez/Genome/org.html |
Map and sequences of mitochondrial plasmid (B 1 ). (B2), chloroplast, and genome |
RiceWeb
http://www.riceweb.org/ |
General |
We believe that the availability of these information will make feasible a wide range of studies and promote activities of rice research community.
Information 169
References
Cartinhour, S.W., 1997. Public informatics resources for rice and other grasses. PlantMol. Biol.35: 241-251. Nukagahra, M., K. Okuno and D. Vaughan. 1997. Rice genetic resources: history, conservation, investigative
charaterization and use in Japan. Plant Mol. Biol. 35: 69-77.
Jackson, M.T., 1997. Conservation of rice genetic resources: the role of the International Rice Genebank at
IRRI. Plain Mol. Biol. 35: 61-67.