Construction of fish mitochondrial genome database

鱼类线粒体基因组数据库的构建

基本信息

批准号：
13556028
负责人：
NISHIDA Mutsumi
金额：
$ 7.3万
依托单位：
The University of Tokyo
依托单位国家：
日本
项目类别：
Grant-in-Aid for Scientific Research (B)
财政年份：
2001
资助国家：
日本
起止时间：
2001 至 2003
项目状态：
已结题

来源：
https://kaken.nii.ac.jp/en/grant/KAKENHI-PROJECT-13556028/
关键词：
Fishes Mitochondrial genome Database On-line search Biodiversity DNA marker Species identification Phylogenetic analysis mtDNA 塩基配列

项目摘要

For organizing protection or management measures for biodiversity and biological resources in the aquatic ecosystems, indispensable is detailed genetic information on variability of populations, population structure, species identification of eggs, larvae, or other various kinds of materials, and so forth. However, only few facilities, such as online databases, have been available so far for genetic information on organisms in the wild.This project focused on the mitochondrial genome, which is known as a source of rich genetic information for such purposes, and aimed to construct an on-line database of the genome of fishes. Much data on the complete nucleotide sequence of the mitochondrial genome in fishes have been successfully generated and submitted to the international DNA database system by this project. On the basis of those and previously submitted data, the fish mitochondrial genome database was constructed as an international on-line database (http://mitofish.ori.u-tokyo.ac.jp/)This database "MitoFish" allows the users to know data.availability of complete nucleotide sequence of mitochondrial genome of fishes in the international DNA database system (DDBJ/GenBank/EMBL). If the users have partial nucleotide sequence data from fish mitochondrial genome, "MitoFish" also allows them to conduct homology search of the nucleotide sequence against the fish complete mitochondrial genome data in it. Using this search option, users can find what fish species or group(s) in the database is the most closely related to the material in their hand. This database has a lot of interlinks to useful international databases so that users are able to easily obtain various information on reference, specimen, taxonomy, and biology for the fish concerned. Through continuous update following the growth of the/international DNA databases, "MitoFish" will also grow into more and more unique and useful database of fish mitochondrial genome.

为了组织水生生态系统中生物多样性和生物资源的保护或管理措施，种群变异、种群结构、卵、幼虫或其他各种物质的物种鉴定等详细的遗传信息是必不可少的。然而，迄今为止，只有很少的设施，例如在线数据库，可用于野生生物的遗传信息。该项目重点关注线粒体基因组，众所周知，线粒体基因组是用于此类目的的丰富遗传信息的来源，旨在建立鱼类基因组在线数据库。该项目已成功生成大量鱼类线粒体基因组完整核苷酸序列数据，并提交至国际DNA数据库系统。在这些数据和之前提交的数据的基础上，鱼类线粒体基因组数据库被构建为国际在线数据库（http://mitofish.ori.u-tokyo.ac.jp/）该数据库“MitoFish”允许用户了解国际DNA数据库系统（DDBJ/GenBank/EMBL）中鱼类线粒体基因组完整核苷酸序列的数据可用性。如果用户有鱼类线粒体基因组的部分核苷酸序列数据，“MitoFish”还允许用户将核苷酸序列与其中鱼类完整的线粒体基因组数据进行同源性搜索。使用此搜索选项，用户可以找到数据库中与他们手中的材料最密切相关的鱼种或鱼群。该数据库与有用的国际数据库有很多链接，以便用户能够轻松获得有关鱼类的参考、标本、分类和生物学的各种信息。随着国际DNA数据库的发展不断更新，“MitoFish”也将成长为越来越独特、有用的鱼类线粒体基因组数据库。