Transcriptome sequencing as a platform to elucidate molecular components of the diapause response in the Asian tiger mosquito, Aedes albopictus.
Transcriptome sequencing as a platform to elucidate molecular components of the diapause response in the Asian tiger mosquito, Aedes albopictus.
复制标题
DOI：
10.1111/phen.12016
复制
发表时间：
2013-06
影响因子：
1.5
通讯作者：
Armbruster PA
中科院分区：
文献类型：
--
作者：
Poelchau MF;Reynolds JA;Denlinger DL;Elsik CG;Armbruster PA
滞育一直被认为是一种重要的生态适应时空环境变化。最近，滞育反应的快速进化与当代全球变暖和入侵物种的范围扩张有关。尽管滞育的分子调控在很大程度上仍未得到解决，但迅速兴起的下一代测序（NGS）技术为解决这一长期存在的问题提供了令人兴奋的机会。在此，一个新的装配从亚洲虎蚊，白纹伊蚊（Skuse）滞育相关的生活史阶段，沿着独特的方法进行分析的NGS数据和转录组组装。一个数字标准化程序，显着减少转录组组装所需的计算资源进行评估。另外，描述了用于454和Illumina读段的基于蛋白质参考和基于基因组参考的合并组装的方法。最后，提出了一个基因本体分析，它创建了一个平台，以确定与滞育相关的生理过程。两者合计，这些方法提供了有价值的工具，用于分析许多复杂的表型，包括滞育的转录基础，并提供了一个基础，确定在Ae滞育的分子调控。白纹伊蚊
Diapause has long been recognized as a crucial ecological adaptation to spatio-temporal environmental variation. More recently, rapid evolution of the diapause response has been implicated in response to contemporary global warming and during the range expansion of invasive species. Although the molecular regulation of diapause remains largely unresolved, rapidly emerging next-generation sequencing (NGS) technologies provide exciting opportunities to address this longstanding question. Herein, a new assembly from life-history stages relevant to diapause in the Asian tiger mosquito, Aedes albopictus (Skuse) is presented, along with unique methods for the analysis of NGS data and transcriptome assembly. A digital normalization procedure that significantly reduces computational resources required for transcriptome assembly is evaluated. Additionally, a method for protein reference-based and genomic reference-based merged assembly of 454 and Illumina reads is described. Finally, a gene ontology analysis is presented, which creates a platform to identify physiological processes associated with diapause. Taken together, these methods provide valuable tools for analyzing the transcriptional underpinnings of many complex phenotypes, including diapause, and provide a basis for determining the molecular regulation of diapause in Ae. albopictus.
登录
查看更多内容
影响因子：
14.9
作者：
Haider S;Ballester B;Smedley D;Zhang J;Rice P;Kasprzyk A
通讯作者：
Kasprzyk A
影响因子：
4.1
作者：
Bean DW;Dalin P;Dudley TL
通讯作者：
Dudley TL
影响因子：
2.3
作者：
Choi, Man-Yeon;Jurenka, Russell A.
通讯作者：
Jurenka, Russell A.
影响因子：
7
作者：
Ning, ZM;Cox, AJ;Mullikin, JC
通讯作者：
Mullikin, JC
影响因子：
12.3
作者：
Langmead B;Trapnell C;Pop M;Salzberg SL
通讯作者：
Salzberg SL