SilkPathDB: a comprehensive resource for the study of silkworm pathogens.
SilkPathDB: a comprehensive resource for the study of silkworm pathogens.
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SilkPathDB：家蚕病原体研究的综合资源
DOI：
10.1093/database/bax001
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发表时间：
2017-01-01
期刊：
影响因子：
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通讯作者：
Zhou ZY
中科院分区：
文献类型：
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作者：
Li T;Pan GQ;Vossbrinck CR;Xu JS;Li CF;Chen J;Long MX;Yang M;Xu XF;Xu C;Debrunner-Vossbrinck BA;Zhou ZY
蚕病原体严重阻碍了蚕桑产业的发展，并且在鳞翅目生态学中起着重要作用，其中一些还被用作生物杀虫剂。蚕病原体组学研究的快速进展产生了大量数据，这些数据需要以一种连贯且系统的方式集中整合起来。这将有助于这些数据的再利用以进行进一步分析。我们收集了来自4个分类群（真菌、微孢子虫、细菌和病毒）以及4种鳞翅目宿主的86种蚕病原体的基因组数据，并开发了开放获取的蚕病原体数据库（SilkPathDB），以使这些信息易于获取。SilkPathDB的实现涉及将Drupal和GBrowse整合为一个用于Chado关系数据库的图形界面，该数据库包含所有相关数据集。为了进行比较，对基因组进行了组装和注释，并允许对同源序列、转座元件、蛋白质亚细胞定位（包括分泌蛋白）以及基因本体进行搜索和分析。我们相信SilkPathDB将有助于研究人员识别蚕寄生虫，了解蚕感染的机制，以及蚕寄生虫（基因表达）及其宿主的发育生态学。
数据库网址：http://silkpathdb.swu.edu.cn
Silkworm pathogens have been heavily impeding the development of sericultural industry and play important roles in lepidopteran ecology, and some of which are used as biological insecticides. Rapid advances in studies on the omics of silkworm pathogens have produced a large amount of data, which need to be brought together centrally in a coherent and systematic manner. This will facilitate the reuse of these data for further analysis. We have collected genomic data for 86 silkworm pathogens from 4 taxa (fungi, microsporidia, bacteria and viruses) and from 4 lepidopteran hosts, and developed the open-access Silkworm Pathogen Database (SilkPathDB) to make this information readily available. The implementation of SilkPathDB involves integrating Drupal and GBrowse as a graphic interface for a Chado relational database which houses all of the datasets involved. The genomes have been assembled and annotated for comparative purposes and allow the search and analysis of homologous sequences, transposable elements, protein subcellular locations, including secreted proteins, and gene ontology. We believe that the SilkPathDB will aid researchers in the identification of silkworm parasites, understanding the mechanisms of silkworm infections, and the developmental ecology of silkworm parasites (gene expression) and their hosts. Database URL: http://silkpathdb.swu.edu.cn