RiceXPro: a Platform for Monitoring Gene Expression in Japonica Rice Grown Under Natural Field Conditions

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 2010 Nov 4

PMID 21045061

Citations 125

Authors

Yutaka Sato

Baltazar A Antonio

Nobukazu Namiki

Hinako Takehisa

Hiroshi Minami

Kaori Kamatsuki

Kazuhiko Sugimoto

Yuji Shimizu

Hirohiko Hirochika

Yoshiaki Nagamura

Affiliations

Soon will be listed here.

Abstract

Elucidating the function of all predicted genes in rice remains as the ultimate goal in cereal genomics in order to ensure the development of improved varieties that will sustain an expanding world population. We constructed a gene expression database (RiceXPro, URL: http://ricexpro.dna.affrc.go.jp/) to provide an overview of the transcriptional changes throughout the growth of the rice plant in the field. RiceXPro contains two data sets corresponding to spatiotemporal gene expression profiles of various organs and tissues, and continuous gene expression profiles of leaf from transplanting to harvesting. A user-friendly web interface enables the extraction of specific gene expression profiles by keyword and chromosome search, and basic data analysis, thereby providing useful information as to the organ/tissue and developmental stage specificity of expression of a particular gene. Analysis tools such as t-test, calculation of fold change and degree of correlation facilitate the comparison of expression profiles between two random samples and the prediction of function of uncharacterized genes. As a repository of expression data encompassing growth in the field, this database can provide baseline information of genes that underlie various agronomically important traits in rice.

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