Oryzabase. An Integrated Biological and Genome Information Database for Rice
Open Access
- 1 January 2006
- journal article
- Published by Oxford University Press (OUP) in Plant Physiology
- Vol. 140 (1), 12-17
- https://doi.org/10.1104/pp.105.063008
Abstract
The aim of Oryzabase is to create a comprehensive view of rice (Oryza sativa) as a model monocot plant by integrating biological data with molecular genomic information (http://www.shigen.nig.ac.jp/rice/oryzabase/top/top.jsp). The database contains information about rice development and anatomy, rice mutants, and genetic resources, especially for wild varieties of rice. The anatomical description of rice development is unique and is the first known representation for rice. Developmental and anatomical descriptions include in situ gene expression data serving as stage and tissue markers. The systematic presentation of a large number of rice mutant and mutant trait genes is indispensable, as is description of research in wild strains, core collections, and their detailed characterization. Several genetic, physical, and expression maps with full genome and cDNA sequences are also combined with biological data in Oryzabase. These datasets, when pooled together, could provide a useful tool for gaining greater knowledge about the life cycle of rice, the relationship between phenotype and gene function, and rice genetic diversity. For exchanging community information, Oryzabase publishes the Rice Genetics Newsletter organized by the Rice Genetics Cooperative and provides a mailing service, rice-e-net/rice-net.Keywords
This publication has 10 references indexed in Scilit:
- The Oryza bacterial artificial chromosome library resource: Construction and analysis of 12 deep-coverage large-insert BAC libraries that represent the 10 genome types of the genus OryzaGenome Research, 2005
- The Genomes of Oryza sativa: A History of DuplicationsPLoS Biology, 2005
- Rice Mutants and Genes Related to Organ Development, Morphogenesis and Physiological TraitsPlant and Cell Physiology, 2005
- Rice Plant Development: from Zygote to SpikeletPlant and Cell Physiology, 2005
- Biological Ontologies in Rice Databases. An Introduction to the Activities in Gramene and OryzabasePlant and Cell Physiology, 2005
- Establishment of an enhancer trap system with Ds and GUS for functional genomics in riceMolecular Genetics and Genomics, 2004
- Target Site Specificity of the Tos17 Retrotransposon Shows a Preference for Insertion within Genes and against Insertion in Retrotransposon-Rich Regions of the GenomePlant Cell, 2003
- Large-Scale Discovery of Induced Point Mutations With High-Throughput TILLINGGenome Research, 2003
- Linkage map of phenotype and RFLP markers in ricePlant Molecular Biology, 1997
- RFLP Framework Map Using Recombinant Inbred Lines in Rice.Ikushugaku zasshi, 1996