WildSilkbase: an EST database of wild silkmoths.
WildSilkbase: an EST database of wild silkmoths.
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DOI：
10.1186/1471-2164-9-338
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发表时间：
2008-07-17
期刊：
影响因子：
4.4
通讯作者：
Nagaraju J
中科院分区：
文献类型：
--
作者：
Arunkumar KP;Tomar A;Daimon T;Shimada T;Nagaraju J
功能基因组学在家蚕生物学中具有特殊的应用前景，可以识别涉及多种生物功能的基因，包括：蚕丝的合成和分泌、性别决定途径、昆虫-病原体相互作用、绒毛膜发生、分子钟。野生蚕蛾很少成为详细科学研究的对象，主要是由于无法获得这些物种的分子和遗传数据。作为本研究的第一步，我们在三种具有重要经济意义的野生蚕蛾物种中生成了大规模表达序列标签（EST）。为了使这些资源可供全球科学界使用，开发了一个名为“WildSilkbase”的EST数据库。WildSilkbase是3种具有重要经济意义的土蚕（印度金蚕、Antheraea assama、印度热带tasar silkmoth、a . mylitta和eri silkmoth、Samia cynthia ricini）不同发育阶段组织产生的ESTs目录。目前，该数据库提供了57,113个est，这些est被聚集和组装成4,019个contigs和10,019个singleton。可以使用标准的web浏览器浏览和下载数据。用户可以通过BLAST查询、关键词查询或基因本体查询对数据库进行查询。BLAST页面提供了物种、组织和发育阶段特定est的搜索选项。WildSilkbase的其他功能包括cSNP发现、GO查看器、同源查找器、SSR查找器和所有其他相关数据库的链接。WildSilkbase是免费的。在3种野生蚕蛾中共鉴定出14038个推定同源基因。这些基因为深入了解野生蚕蛾的功能和进化研究提供了重要的资源。我们相信，WildSilkbase将对从事比较基因组学、功能基因组学和分子进化领域的研究人员，特别是昆虫物种的基因发现、基因组织、转座因子和基因组变异性的研究人员非常有用。
Functional genomics has particular promise in silkworm biology for identifying genes involved in a variety of biological functions that include: synthesis and secretion of silk, sex determination pathways, insect-pathogen interactions, chorionogenesis, molecular clocks. Wild silkmoths have hardly been the subject of detailed scientific investigations, owing largely to non-availability of molecular and genetic data on these species. As a first step, in the present study we generated large scale expressed sequence tags (EST) in three economically important species of wild silkmoths. In order to make these resources available for the use of global scientific community, an EST database called 'WildSilkbase' was developed. WildSilkbase is a catalogue of ESTs generated from several tissues at different developmental stages of 3 economically important saturniid silkmoths, an Indian golden silkmoth, Antheraea assama, an Indian tropical tasar silkmoth, A. mylitta and eri silkmoth, Samia cynthia ricini. Currently the database is provided with 57,113 ESTs which are clustered and assembled into 4,019 contigs and 10,019 singletons. Data can be browsed and downloaded using a standard web browser. Users can search the database either by BLAST query, keywords or Gene Ontology query. There are options to carry out searches for species, tissue and developmental stage specific ESTs in BLAST page. Other features of the WildSilkbase include cSNP discovery, GO viewer, homologue finder, SSR finder and links to all other related databases. The WildSilkbase is freely available from . A total of 14,038 putative unigenes was identified in 3 species of wild silkmoths. These genes provide important resources to gain insight into the functional and evolutionary study of wild silkmoths. We believe that WildSilkbase will be extremely useful for all those researchers working in the areas of comparative genomics, functional genomics and molecular evolution in general, and gene discovery, gene organization, transposable elements and genome variability of insect species in particular.
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影响因子：
5.8
作者：
Huntley, D;Baldo, A;Sergot, M
通讯作者：
Sergot, M
影响因子：
14.9
作者：
Wang J;Xia Q;He X;Dai M;Ruan J;Chen J;Yu G;Yuan H;Hu Y;Li R;Feng T;Ye C;Lu C;Wang J;Li S;Wong GK;Yang H;Wang J;Xiang Z;Zhou Z;Yu J
通讯作者：
Yu J
影响因子：
3
作者：
Nègre V;Hôtelier T;Volkoff AN;Gimenez S;Cousserans F;Mita K;Sabau X;Rocher J;López-Ferber M;d'Alençon E;Audant P;Sabourault C;Bidegainberry V;Hilliou F;Fournier P
通讯作者：
Fournier P
影响因子：
14.9
作者：
Prasad MD;Muthulakshmi M;Arunkumar KP;Madhu M;Sreenu VB;Pavithra V;Bose B;Nagarajaram HA;Mita K;Shimada T;Nagaraju J
通讯作者：
Nagaraju J
影响因子：
14.9
作者：
Benson, G
通讯作者：
Benson, G