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     Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Rice is one of the most important food crops in the world and feeds more people than any other crop. The international community decided to use rice as the model monocot plant to study cereal genomics for two reasons: 1) the small genome size, ~450 Mb, and 2) the understanding that many of the commercially important cereals have genomes that are very syntenic with rice { refs}.

There have been commercially funded efforts as well as publicly funded efforts to determine the nucleotide sequence of rice. The first commercial effort, by Monsanto, resulted in a database of genomic sequence and SSR objects. The genomic sequence has been shared with the International Rice Genome Sequencing Project members. The second commercial effort, a collaboration between Myriad Genetics and Syngenta, used the whole-genome shotgun method. Despite a press release in January 2001 noting the completion of the "rice genome map", little if any genomic sequence from this project has been deposited into the public domain.

The two publicly funded rice genomic sequence projects have each produced draft genome sequence. The International Rice Genome Sequencing Project, is a collaboration of publicly funded investigators. The project began at the 1997 meeting of the International Symposium on Plant Molecular Biology in Singapore. All of the PAC and BAC libraries for the effort have been produced from DNA prepared from seeds from a single plant of Oryza sativa ssp. japonica c.v. Nipponbare. The work has been apportioned among the various collaborators. The current status of sequence acquisition by the contributors to the sequence acquisition is routinely updated at the coordination organization, IRGSP. As the Monsanto sequence is brought to phase 2 quality by IRGSP members, this material is published in public databases. The nucleotide sequence for twelve chromosome assemblies has been deposited in DDBJ by IRGSP. Various groupings of subsets of the IRGSP have deposited in GenBank the nucleotide sequence for four alternative assemblies.

The other publicly funded project, directed by the Chinese Academy of Sciences, Beijing, China, is to sequence the genome of O. sativa ssp. indica and O. sativa ssp. japonica by the whole genome shotgun (WGS) method. This project began in April 2000, as a WGS project to sequence the Oryza sativa L. ssp. indica genome. The first peer-reviewed report was in the April 5, 2002 issue of Science. This has been deposited at GenBank/EMBL/DDBJ under the project accession AAAA00000000. The revision history for this data is available. Sequence data are retrievable through Entrez. The collection of contigs is available as a BLAST database for public query. This project has expanded to include the WGS sequencing of the Oryza sativa L. ssp. japonica genome. This has been deposited at GenBank/EMBL/DDBJ under the project accession AACV00000000. The revision history for this data is available. Sequence data are retrievable through Entrez. The collection of contigs is available as a BLAST database for public query.

Annotation of each component BACs is performed by the sequencing center that submitted the record. Annotation of the 12 chromosome sequences is performed by RAP. Gene predictions developed by the Gnomon pipeline at NCBI and the Plant Genomics Group at TIGR have been utilized by RAP in their efforts.

The OMAP project is an NSF-funded attempt to use the Oryza sativa L. ssp. japonica genome nucleotide sequence to address evolutionary, physiologic and biochemical questions across the genus Oryza.

Fifteen genetic maps are available in Map Viewer. Detailed information for the maps is available in the BioProject database.

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