The Drosophila transcriptional network is structured by microbiota.
The Drosophila transcriptional network is structured by microbiota.
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DOI：
10.1186/s12864-016-3307-9
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发表时间：
2016-11-25
期刊：
影响因子：
4.4
通讯作者：
Douglas AE
中科院分区：
文献类型：
--
作者：
Dobson AJ;Chaston JM;Douglas AE
常驻微生物（微生物群）对其动物宿主的生物学具有深远的影响，对宿主的健康和健身具有重大影响。要充分理解微生物菌群依赖的基因调控，需要通过识别同步表达的基因组来分析宿主转录组的整体结构。在这项研究中，我们研究了微生物群对果蝇基因共表达的影响。我们的转录组学分析，17线代表全球遗传多样性的果蝇，共产生了11个转录模块的共表达基因。对于这些模块中的七个，转录网络（定义为基因-基因共表达）的强度在具有确定的肠道微生物群的苍蝇（gnotobiotic苍蝇）和在微生物无菌条件下饲养的苍蝇（无菌苍蝇）之间存在显着差异。此外，在这些微生物群依赖性模块中的基因共表达均匀地强于在无菌苍蝇中的微生物群独立模块和在无菌苍蝇中的所有模块，这表明微生物群的存在指导转录组的子集中的基因调控。构成微生物群依赖性转录模块的基因包括生长、代谢和神经生理学的调节因子，其先前涉及介导微生物群对果蝇表型的表型效应。这些结果一起提供了第一个证据，即相对于动物的内在基线共表达水平，微生物群增强了特异性和功能相关基因的共表达。我们的全系统分析表明，微生物群的存在增强了基因共表达，从而构建了动物宿主中的转录网络。这一发现对于理解微生物群影响宿主健康和健身的机制以及宿主及其常驻微生物群共同进化的方式具有潜在的重大意义。本文的在线版本（doi：10.1186/s12864-016-3307-9）包含补充材料，可供授权用户使用。
Resident microorganisms (microbiota) have far-reaching effects on the biology of their animal hosts, with major consequences for the host’s health and fitness. A full understanding of microbiota-dependent gene regulation requires analysis of the overall architecture of the host transcriptome, by identifying suites of genes that are expressed synchronously. In this study, we investigated the impact of the microbiota on gene coexpression in Drosophila. Our transcriptomic analysis, of 17 lines representative of the global genetic diversity of Drosophila, yielded a total of 11 transcriptional modules of co-expressed genes. For seven of these modules, the strength of the transcriptional network (defined as gene-gene coexpression) differed significantly between flies bearing a defined gut microbiota (gnotobiotic flies) and flies reared under microbiologically sterile conditions (axenic flies). Furthermore, gene coexpression was uniformly stronger in these microbiota-dependent modules than in both the microbiota-independent modules in gnotobiotic flies and all modules in axenic flies, indicating that the presence of the microbiota directs gene regulation in a subset of the transcriptome. The genes constituting the microbiota-dependent transcriptional modules include regulators of growth, metabolism and neurophysiology, previously implicated in mediating phenotypic effects of microbiota on Drosophila phenotype. Together these results provide the first evidence that the microbiota enhances the coexpression of specific and functionally-related genes relative to the animal’s intrinsic baseline level of coexpression. Our system-wide analysis demonstrates that the presence of microbiota enhances gene coexpression, thereby structuring the transcriptional network in the animal host. This finding has potentially major implications for understanding of the mechanisms by which microbiota affect host health and fitness, and the ways in which hosts and their resident microbiota coevolve. The online version of this article (doi:10.1186/s12864-016-3307-9) contains supplementary material, which is available to authorized users.
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影响因子：
30.3
作者：
Sansone CL;Cohen J;Yasunaga A;Xu J;Osborn G;Subramanian H;Gold B;Buchon N;Cherry S
通讯作者：
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影响因子：
3.7
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WGCNA：用于加权相关网络分析的 R 包。
影响因子：
3
作者：
Langfelder P;Horvath S
通讯作者：
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影响因子：
12.3
作者：
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通讯作者：
Huttenhower C
影响因子：
3.7
作者：
Ridley EV;Wong AC;Westmiller S;Douglas AE
通讯作者：
Douglas AE