Microarray analyses of gene expression during the Tetrahymena thermophila life cycle.
Microarray analyses of gene expression during the Tetrahymena thermophila life cycle.
复制标题
嗜热四膜虫生命周期中基因表达的微阵列分析
DOI：
10.1371/journal.pone.0004429
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发表时间：
2009
期刊：
影响因子：
3.7
通讯作者：
Gorovsky, Martin A.
中科院分区：
文献类型：
--
作者：
Miao, Wei;Xiong, Jie;Bowen, Josephine;Wang, Wei;Liu, Yifan;Braguinets, Olga;Grigull, Jorg;Pearlman, Ronald E.;Orias, Eduardo;Gorovsky, Martin A.
背景：模式真核生物嗜热四膜虫是第一种纤毛原生动物，其基因组已经被测序，这使得基因表达的全基因组分析成为可能。方法/主要发现一种全基因组微阵列平台，其中包含嗜热梭菌的预测编码序列(假定基因)，该平台被描述、验证并用于研究生物生命周期的三个主要阶段的基因表达：生长、饥饿和结合。结论/意义预测的∼27,000个开放阅读框，仅与∼5900同源的转录本在这些生命周期的任何一个阶段都检测不到，表明这种单细胞生物体确实包含大量的功能基因。超过5000个预测基因的转录本在5×校正本底水平表达，95个基因在所有阶段的>；250×校正本底水平表达。与91个预测基因同源的转录本在生长中的细胞中特异性表达，155个基因高度上调，而在饥饿期间，90个基因特异性表达，616个基因上调。值得注意的是，与1068个预测基因同源的转录本在接合过程中特异表达，1753个基因显著上调。接合过程中的基因表达模式与减数分裂、核分化和DNA消除的发育阶段有很好的相关性。分析了基因表达与染色体碎裂的关系。编码已知相互作用或在复合体中发挥功能的蛋白质的基因表现出相似的表达模式，表明与已知功能的假定基因协同表达可以识别具有相关功能的基因。识别了与类似RNAi的DNA消除过程和减数分裂相关的新候选基因，并显示出接合后期的特征是出人意料的大量和多样化的不参与核功能的基因的特异性表达。
Background The model eukaryote, Tetrahymena thermophila, is the first ciliated protozoan whose genome has been sequenced, enabling genome-wide analysis of gene expression. Methodology/Principal Findings A genome-wide microarray platform containing the predicted coding sequences (putative genes) for T. thermophila is described, validated and used to study gene expression during the three major stages of the organism's life cycle: growth, starvation and conjugation. Conclusions/Significance Of the ∼27,000 predicted open reading frames, transcripts homologous to only ∼5900 are not detectable in any of these life cycle stages, indicating that this single-celled organism does indeed contain a large number of functional genes. Transcripts from over 5000 predicted genes are expressed at levels >5× corrected background and 95 genes are expressed at >250× corrected background in all stages. Transcripts homologous to 91 predicted genes are specifically expressed and 155 more are highly up-regulated in growing cells, while 90 are specifically expressed and 616 are up-regulated during starvation. Strikingly, transcripts homologous to 1068 predicted genes are specifically expressed and 1753 are significantly up-regulated during conjugation. The patterns of gene expression during conjugation correlate well with the developmental stages of meiosis, nuclear differentiation and DNA elimination. The relationship between gene expression and chromosome fragmentation is analyzed. Genes encoding proteins known to interact or to function in complexes show similar expression patterns, indicating that co-ordinate expression with putative genes of known function can identify genes with related functions. New candidate genes associated with the RNAi-like process of DNA elimination and with meiosis are identified and the late stages of conjugation are shown to be characterized by specific expression of an unexpectedly large and diverse number of genes not involved in nuclear functions.
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影响因子：
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作者：
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通讯作者：
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影响因子：
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通讯作者：
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