1. Rice genetic resources and genome databases on the internet

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

(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

Organization

 

URL

Information

MAFF DNA Bank

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)

AGIS

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

http://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.