Tiling microarray analysis of rice chromosome 10 to identify the   transcriptome and relate its expression to chromosomal architecture

doi:10.1186/gb-2005-6-6-r52

CORC > 北京大学 > 生命科学学院

	Tiling microarray analysis of rice chromosome 10 to identify the transcriptome and relate its expression to chromosomal architecture
	Li, L ; Wang, XF ; Xia, M ; Stolc, V ; Su, N ; Peng, ZY ; Li, SG ; Wang, J ; Wang, XP ; Deng, XW
刊名	genome biology
	2005
关键词	PLANT TRANSPOSABLE ELEMENTS ASYMMETRIC INTERLACED PCR ARABIDOPSIS-THALIANA CHROMATIN-STRUCTURE GENOME EXPRESSION SEQUENCE-ANALYSIS DRAFT SEQUENCE GENE ANNOTATION HETEROCHROMATIN
DOI	10.1186/gb-2005-6-6-r52
英文摘要	Background: Sequencing and annotation of the genome of rice ( Oryza sativa) have generated gene models in numbers that top all other fully sequenced species, with many lacking recognizable sequence homology to known genes. Experimental evaluation of these gene models and identification of new models will facilitate rice genome annotation and the application of this knowledge to other more complex cereal genomes. Results: We report here an analysis of the chromosome 10 transcriptome of the two major rice subspecies, japonica and indica, using oligonucleotide tiling microarrays. This analysis detected expression of approximately three- quarters of the gene models without previous experimental evidence in both subspecies. Cloning and sequence analysis of the previously unsupported models suggests that the predicted gene structure of nearly half of those models needs improvement. Coupled with comparative gene model mapping, the tiling microarray analysis identified 549 new models for the japonica chromosome, representing an 18% increase in the annotated protein- coding capacity. Furthermore, an asymmetric distribution of genome elements along the chromosome was found that coincides with the cytological definition of the heterochromatin and euchromatin domains. The heterochromatin domain appears to associate with distinct chromosome level transcriptional activities under normal and stress conditions. Conclusion: These results demonstrated the utility of genome tiling microarrays in evaluating annotated rice gene models and in identifying novel transcriptional units. The tiling microarray analysis further revealed a chromosome-wide transcription pattern that suggests a role for transposable element- enriched heterochromatin in shaping global transcription in response to environmental changes in rice.; Biotechnology & Applied Microbiology; Genetics & Heredity; SCI(E); 26; ARTICLE; 6; 6
语种	英语
内容类型	期刊论文
源URL	[http://ir.pku.edu.cn/handle/20.500.11897/254169]
专题	生命科学学院
推荐引用方式 GB/T 7714	Li, L,Wang, XF,Xia, M,et al. Tiling microarray analysis of rice chromosome 10 to identify the transcriptome and relate its expression to chromosomal architecture[J]. genome biology,2005.
APA	Li, L.,Wang, XF.,Xia, M.,Stolc, V.,Su, N.,...&Deng, XW.(2005).Tiling microarray analysis of rice chromosome 10 to identify the transcriptome and relate its expression to chromosomal architecture.genome biology.
MLA	Li, L,et al."Tiling microarray analysis of rice chromosome 10 to identify the transcriptome and relate its expression to chromosomal architecture".genome biology (2005).