A microarray analysis of the rice transcriptome and its comparison to Arabidopsis

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Bibliographische Detailangaben
Zeitschriftentitel:	Genome Research
Personen und Körperschaften:	Ma, Ligeng, Chen, Chen, Liu, Xigang, Jiao, Yuling, Su, Ning, Li, Lin, Wang, Xiangfeng, Cao, Mengliang, Sun, Ning, Zhang, Xiuqing, Bao, Jingyue, Li, Jian, Pedersen, Soren, Bolund, Lars, Zhao, Hongyu, Yuan, Longping, Wong, Gane Ka-Shu, Wang, Jun, Deng, Xing Wang, Wang, Jian
In:	Genome Research, 15, 2005, 9, S. 1274-1283
Format:	E-Article
Sprache:	Englisch
veröffentlicht:	Cold Spring Harbor Laboratory
Schlagwörter:	Genetics (clinical) Genetics

Details
Zusammenfassung:	<jats:p><jats:italic>Arabidopsis</jats:italic> and rice are the only two model plants whose finished phase genome sequence has been completed. Here we report the construction of an oligomer microarray based on the presently known and predicted gene models in the rice genome. This microarray was used to analyze the transcriptional activity of the gene models in representative rice organ types. Expression of 86% of the 41,754 known and predicted gene models was detected. A significant fraction of these expressed gene models are organized into chromosomal regions, about 100 kb in length, that exhibit a coexpression pattern. Compared with similar genome-wide surveys of the <jats:italic>Arabidopsis</jats:italic> transcriptome, our results indicate that similar proportions of the two genomes are expressed in their corresponding organ types. A large percentage of the rice gene models that lack significant <jats:italic>Arabidopsis</jats:italic> homologs are expressed. Furthermore, the expression patterns of rice and <jats:italic>Arabidopsis</jats:italic> best-matched homologous genes in distinct functional groups indicate dramatic differences in their degree of conservation between the two species. Thus, this initial comparative analysis reveals some basic similarities and differences between the <jats:italic>Arabidopsis</jats:italic> and rice transcriptomes.</jats:p>
Umfang:	1274-1283
ISSN:	1088-9051
DOI:	10.1101/gr.3657405