A cricket Gene Index: a genomic resource for studying neurobiology, speciation, and molecular evolution.
A cricket Gene Index: a genomic resource for studying neurobiology, speciation, and molecular evolution.
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DOI：
10.1186/1471-2164-8-109
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发表时间：
2007-04-25
期刊：
影响因子：
4.4
通讯作者：
Shaw KL
中科院分区：
文献类型：
--
作者：
Danley PD;Mullen SP;Liu F;Nene V;Quackenbush J;Shaw KL
随着基因组工具开发成本的下降，非模型系统的基因组方法变得更加可行。这些系统中的许多可能缺乏先进的遗传工具，但在其他生物学领域是非常有价值的模型。在这里，我们报告的发展表达序列标签（EST）在直翅目昆虫，神经生物学，物种形成和进化的研究模型。我们报告的14,502 EST的克隆来自一个神经索cDNA文库的测序，并随后从这些序列的基因索引的建设，从夏威夷trigonidine蟋蟀Laupala kohalensis。基因索引包含8607个独特序列，包括2575个暂定共有（TC）序列和6032个单例。对于每个独特的序列，尝试分配一个临时注释，并通过与已知蛋白质的序列比较，使用基于基因本体的分类对其功能进行分类。此外，一组独特的70个碱基对的寡聚体，可用于DNA微阵列的开发。所有基因索引信息都发布在DFCI基因索引网页上。直翅目是用于理解复杂运动模式（如飞行和鸣叫）的神经生理学基础的模型。蟋蟀基因索引中的序列将为神经生理学家提供许多在该领域基本上不存在的遗传工具。板球基因指数是在进化模型系统中开发的仅有的两个基因指数之一。属内的物种Laupala最近形成，迅速，广泛。因此，蟋蟀基因索引中鉴定的基因可用于研究物种形成的基因组学。此外，该基因索引代表了一个重要的EST资源的基础昆虫。因此，该资源是了解无脊椎动物分子进化的宝贵比较工具。这里介绍的序列将为三个不同但重叠的研究领域提供急需的基因组资源：神经生物学，物种形成和分子进化。
As the developmental costs of genomic tools decline, genomic approaches to non-model systems are becoming more feasible. Many of these systems may lack advanced genetic tools but are extremely valuable models in other biological fields. Here we report the development of expressed sequence tags (EST's) in an orthopteroid insect, a model for the study of neurobiology, speciation, and evolution. We report the sequencing of 14,502 EST's from clones derived from a nerve cord cDNA library, and the subsequent construction of a Gene Index from these sequences, from the Hawaiian trigonidiine cricket Laupala kohalensis. The Gene Index contains 8607 unique sequences comprised of 2575 tentative consensus (TC) sequences and 6032 singletons. For each of the unique sequences, an attempt was made to assign a provisional annotation and to categorize its function using a Gene Ontology-based classification through a sequence-based comparison to known proteins. In addition, a set of unique 70 base pair oligomers that can be used for DNA microarrays was developed. All Gene Index information is posted at the DFCI Gene Indices web page Orthopterans are models used to understand the neurophysiological basis of complex motor patterns such as flight and stridulation. The sequences presented in the cricket Gene Index will provide neurophysiologists with many genetic tools that have been largely absent in this field. The cricket Gene Index is one of only two gene indices to be developed in an evolutionary model system. Species within the genus Laupala have speciated recently, rapidly, and extensively. Therefore, the genes identified in the cricket Gene Index can be used to study the genomics of speciation. Furthermore, this gene index represents a significant EST resources for basal insects. As such, this resource is a valuable comparative tool for the understanding of invertebrate molecular evolution. The sequences presented here will provide much needed genomic resources for three distinct but overlapping fields of inquiry: neurobiology, speciation, and molecular evolution.
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影响因子：
4
作者：
Brisson, Jennifer A.;Stern, David L.
通讯作者：
Stern, David L.
影响因子：
12.3
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影响因子：
4.9
作者：
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通讯作者：
Howard, DJ
影响因子：
2.2
作者：
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通讯作者：
Buss, EA
影响因子：
2.5
作者：
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通讯作者：
Gabriel, Josh