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Diversity and dynamics of the Drosophila transcriptome

机译：果蝇转录组的多样性和动力学。

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摘要

虽然一个动物身上的所有细胞都拥有相同的基因,但那些被转录的基因作为一个整体(称作"转录组")在不同细胞和组织之间却相差巨大。来自"modENCODE consortium"的这篇论文, 对果蝇的一系列培养的细胞系和解剖的器官系统中的这种差异进行了研究, 目的是确定转录组的多样性实际上到底有多大。例如, 一小部分基本上为神经特异性的基因具有编码数千个信使RNA转录体的潜力, 每个都是通过广泛的选择性启动子使用和RNA剪接来进行的。而且, 性腺表达数百种以前不知道的编码RNA和"长非编RNA"(IncRNA), 其中一些对蛋白编码基因是反义的, 产生短的调控性RNA。果蝇转录组显然要比我们以前所认识到的复杂得多。%Animal transcriptomes are dynamic, with each cell type, tissue and organ system expressing an ensemble of transcript isoforms that give rise to substantial diversity. Here we have identified new genes, transcripts and proteins using poly(A)~+ RNA sequencing from Drosophila melanogaster in cultured cell lines, dissected organ systems and under environmental perturbations. We found that a small set of mostly neural-specific genes has the potential to encode thousands of transcripts each through extensive alternative promoter usage and RNA splicing. The magnitudes of splicing changes are larger between tissues than between developmental stages, and most sex-specific splicing is gonad-specific. Gonads express hundreds of previously unknown coding and long non-coding RNAs (IncRNAs), some of which are antisense to protein-coding genes and produce short regulatory RNAs. Furthermore, previously identified pervasive intergenic transcription occurs primarily within newly identified introns. The fly transcriptome is substantially more complex than previously recognized, with this complexity arising from combinatorial usage of promoters, splice sites and polyadenylation sites.
机译：虽然一个动物身上的所有细胞都拥有相同的基因,但那些被转录的基因作为一个整体(称作"转录组")在不同细胞和组织之间却相差巨大。来自"modENCODE consortium"的这篇论文, 对果蝇的一系列培养的细胞系和解剖的器官系统中的这种差异进行了研究, 目的是确定转录组的多样性实际上到底有多大。例如, 一小部分基本上为神经特异性的基因具有编码数千个信使RNA转录体的潜力, 每个都是通过广泛的选择性启动子使用和RNA剪接来进行的。而且, 性腺表达数百种以前不知道的编码RNA和"长非编RNA"(IncRNA), 其中一些对蛋白编码基因是反义的, 产生短的调控性RNA。果蝇转录组显然要比我们以前所认识到的复杂得多。%Animal transcriptomes are dynamic, with each cell type, tissue and organ system expressing an ensemble of transcript isoforms that give rise to substantial diversity. Here we have identified new genes, transcripts and proteins using poly(A)~+ RNA sequencing from Drosophila melanogaster in cultured cell lines, dissected organ systems and under environmental perturbations. We found that a small set of mostly neural-specific genes has the potential to encode thousands of transcripts each through extensive alternative promoter usage and RNA splicing. The magnitudes of splicing changes are larger between tissues than between developmental stages, and most sex-specific splicing is gonad-specific. Gonads express hundreds of previously unknown coding and long non-coding RNAs (IncRNAs), some of which are antisense to protein-coding genes and produce short regulatory RNAs. Furthermore, previously identified pervasive intergenic transcription occurs primarily within newly identified introns. The fly transcriptome is substantially more complex than previously recognized, with this complexity arising from combinatorial usage of promoters, splice sites and polyadenylation sites.

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  • 来源
    《Nature》 |2014年第7515期|393-399337|共8页
  • 作者

    James B. Brown; Nathan Boley; Robert Eisman; Gemma E. May; Marcus H. Stoiber; et al;

  • 作者单位

    Department of Statistics, University of California Berkeley, Berkeley, California 94720, USA, Department of Genome Dynamics, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA;

    Department of Statistics, University of California Berkeley, Berkeley, California 94720, USA;

    Department of Biology, Indiana University, 1001 East 3rd Street, Bloomington, Indiana 47405, USA;

    Department of Genetics and Developmental Biology, Institute for Systems Genomics, University of Connecticut Health Center, 400 Farmington Avenue, Farmington, Connecticut 06030, USA;

    Department of Statistics, University of California Berkeley, Berkeley, California 94720, USA;

  • 收录信息 美国《科学引文索引》(SCI);美国《工程索引》(EI);美国《生物学医学文摘》(MEDLINE);美国《化学文摘》(CA);
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