Coping with cold: An integrative, multitissue analysis of the transcriptome of a poikilothermic vertebrate
Coping with cold: An integrative, multitissue analysis of the transcriptome of a poikilothermic vertebrate
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DOI：
10.1073/pnas.0403627101
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发表时间：
2004-11-30
影响因子：
11.1
通讯作者：
Cossins, AR
中科院分区：
文献类型：
--
作者：
Gracey, AY;Fraser, EJ;Cossins, AR
生物体是如何适应环境压力的？虽然已经探索了一些基因特异性反应，但其他反应仍有待确定，并且对反应的全系统整合的了解非常少，特别是在复杂的多组织动物中。在这里，我们采用转录本筛选方法来探索脊椎动物自然经历极端环境应激时主要的全身表型转变的机制。将鲤鱼暴露在越来越高的低温环境中，通过使用由13440个cDNA探针组成的微阵列来评估7种组织的反应。一大批独特的cdna（约3400个）受到寒冷的影响。这些cdna包括所有组织中共有的252个上调基因的表达特征，这些上调基因涉及RNA加工、翻译起始、线粒体代谢、蛋白酶体功能以及脂质膜和染色体的高阶结构修饰。还发现了大量具有高度组织特异性调节模式的转录本。通过对基因本体的无偏见分析，我们已经确定了每个组织反应的独特功能特征，并将它们整合到从一种强适应性表型到另一种强适应性表型的全身转变的综合视图中。该方法揭示了一个提示冷却骨骼肌萎缩的表达特征。这种环境基因组学方法通过使用经过充分研究但非基因组的物种，确定了一系列赋予耐热性的候选基因，并揭示了以前未被认识到的影响细胞和组织功能水平的反应的规模和复杂性。
How do organisms respond adaptively to environmental stress? Although some gene-specific responses have been explored, others remain to be identified, and there is a very poor understanding of the system-wide integration of response, particularly in complex, multitissue animals. Here, we adopt a transcript screening approach to explore the mechanisms underpinning a major,wholebody phenotypic transition in a vertebrate animal that naturally experiences extreme environmental stress. Carp were exposed to increasing levels of cold, and responses across seven tissues were assessed by using a microarray composed of 13,440 cDNA probes. A large set of unique cDNAs (approximate to3,400) were affected by cold. These cDNAs included an expression signature common to all tissues of 252 up-regulated genes involved in RNA processing, translation initiation, mitochondrial metabolism, proteasomal function, and modification of higher-order structures of lipid membranes and chromosomes. Also identified were large numbers of transcripts with highly tissue-specific patterns of regulation. By unbiased profiling of gene ontologies, we have identified the distinctive functional features of each tissue's response and integrate them into a comprehensive view of the whole-body transition from one strongly adaptive phenotype to another. This approach revealed an expression signature suggestive of atrophy in cooled skeletal muscle. This environmental genomics approach by using a well studied but nongenomic species has identified a range of candidate genes endowing thermotolerance and reveals a previously unrecognized scale and complexity of responses that impacts at the level of cellular and tissue function.