Global gene expression analysis of gill tissues from normal and thermally selected strains of rainbow trout
Global gene expression analysis of gill tissues from normal and thermally selected strains of rainbow trout
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DOI：
10.1007/s12562-012-0522-4
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发表时间：
2012-07
影响因子：
1.9
通讯作者：
Engkong Tan;Chaninya Wongwarangkana;S. Kinoshita;Yutaka Suzuki;K. Oshima;M. Hattori;T. Ineno;Koichi Tamaki;A. Kera;Koji Muto;T. Yada;S. Kitamura;S. Asakawa;S. Watabe
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文献类型：
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作者：
Engkong Tan;Chaninya Wongwarangkana;S. Kinoshita;Yutaka Suzuki;K. Oshima;M. Hattori;T. Ineno;Koichi Tamaki;A. Kera;Koji Muto;T. Yada;S. Kitamura;S. Asakawa;S. Watabe
本研究的目的是利用下一代测序系统进行全球基因表达分析，以研究具有相当重要经济价值的冷水物种虹鱼耐高温相关基因。从通过选择育种培育的热选择菌株的5个个体的每个个体的鳃组织中收集了5000万对序列，并从标准Donaldson菌株的鳃组织中收集了5000万对序列并组装成转录本。两个菌株的数据被整合在一起，BLASTX搜索发现了13,092个独立的已知基因。将两个菌株的原始读数反向映射到基因上，以调查它们的表达频率，结果显示，324个基因在热选择菌株中的表达至少是唐纳森菌株的两倍。此外，通过注释将44.4%的共同表达基因划分为38个功能基团。编码热休克蛋白和c-fos相关蛋白的基因在热选育菌株中高度表达。我们采用下一代测序的策略被证明对寻找彩虹鲑鱼耐高温的基因非常有用。
The objective of the study reported here was to investigate genes related to upper temperature tolerance in rainbow troutOncorhynchus mykiss, a cold-water species with considerable economic importance, by global gene expression analysis using a next generation sequencing system. Fifty million paired sequences were collected from the gill tissues of each of five individuals of a thermally selected strain developed by selective breeding and from the gill tissues of a standard Donaldson strain and assembled into transcripts. The data of both strains were integrated, and a BLASTX search identified 13,092 independent, known genes. A back-mapping of raw reads from both strains onto the genes, conducted to investigate their frequency of expression, revealed that 324 genes showed at least a twofold higher expression in the thermally selected strain than in the Donaldson strain. In addition, 44.4 % of commonly expressed genes were categorized into 38 functional groups by annotation. Genes encoding heat shock proteins and c-fos-related proteins were highly expressed in the thermally selected strain. Our strategy to employ next generation sequencing proved to be very useful to find genes responsible for upper temperature tolerance of rainbow trout.