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Identification of potential antisense transcripts in rice using conventional microarray

文献类型： 外文期刊

作者： Gan, Qiang 1 ; Li, Dejun 1 ; Liu, Guozhen 5 ; Zhu, Lihuang 1 ;

作者机构： 1.Chinese Acad Sci, Inst Genet & Dev Biol, State Key Lab Plant Genom, Beijing 100101, Peoples R China

2.Chinese Acad Sci, Inst Genet & Dev Biol, Natl Plant Gene Res Ctr Beijing, Beijing 100101, Peoples R China

3.Chinese Acad Sci, Grad Sch, Beijing 100039, Peoples R China

4.Chinese Acad Trop Agr Sci, Rubber Res Inst, Danzhou 571737, Hainan, Peoples R China

5.Agr Univ Hebei, Coll Life Sci, Baoding 071001, Hebei, Peoples R China

关键词： Conventional microarray;Labeling;Natural antisense transcripts;Rice;Second strand cDNA

期刊名称：MOLECULAR BIOTECHNOLOGY （ 影响因子：2.695； 五年影响因子：2.303 ）

ISSN：

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收录情况： SCI

摘要： Natural antisense transcripts (NATs) are endogenous transcripts that contain reverse complementary sequences to other RNAs (usually called sense transcripts). NATs regulate the expression of sense transcripts in a wide range of species. The identification and analysis of NATs are the prerequisite to elucidate their functions. Microarray is a genome-wide method to detect gene expression. However, conventional microarrays do not contain the specific probes of NATs; thus, they cannot be utilized to detect NATs. In this article, we developed a novel method to identify potential NATs with the conventional microarrays. In this method of our study, we labeled the first strand cDNA from one sample with Cy5 and labeled the second strand cDNA from another sample with Cy3, and then hybridized these labeled samples with oligonucleotide microarray. Using this method, we identified 920 potential NATs in rice variety Nipponbare. Among these potential NATs, 88 of them were confirmed by either full-length cDNA or orientated ESTs (expressed sequence tags). This is the first time that a conventional oligonucleotide microarray was employed to identify NATs in rice.

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