National Institute for Basic Biology, National Institutes of Natural Sciences, Nishigonaka 38, Myodaiji, Okazaki, Aichi 444-8585, Japan.
Nucleic Acids Res. 2010 Jan;38(Database issue):D361-5. doi: 10.1093/nar/gkp948. Epub 2009 Nov 11.
The microbial genome database (MBGD) for comparative analysis is a platform for microbial comparative genomics based on automated ortholog group identification. A prominent feature of MBGD is that it allows users to create ortholog groups using a specified subgroup of organisms. The database is constantly updated and now contains almost 1000 genomes. To utilize the MBGD database as a comprehensive resource for investigating microbial genome diversity, we have developed the following advanced functionalities: (i) enhanced assignment of functional annotation, including external database links to each orthologous group, (ii) interface for choosing a set of genomes to compare based on phenotypic properties, (iii) the addition of more eukaryotic microbial genomes (fungi and protists) and some higher eukaryotes as references and (iv) enhancement of the MyMBGD mode, which allows users to add their own genomes to MBGD and now accepts raw genomic sequences without any annotation (in such a case, it runs a gene-finding procedure before identifying the orthologs). Some analysis functions, such as the function to find orthologs with similar phylogenetic patterns, have also been improved. MBGD is accessible at http://mbgd.genome.ad.jp/.
微生物基因组数据库（MBGD）是一个用于微生物比较基因组学的平台，它基于自动化的直系同源群识别。MBGD 的一个突出特点是，它允许用户使用指定的生物体亚群来创建直系同源群。该数据库不断更新，现在包含近 1000 个基因组。为了将 MBGD 数据库用作调查微生物基因组多样性的综合资源，我们开发了以下高级功能：（i）增强功能注释的分配，包括每个直系同源群的外部数据库链接，（ii）用于根据表型特性选择一组要比较的基因组的接口，（iii）添加更多真核微生物基因组（真菌和原生生物）和一些高等真核生物作为参考，以及（iv）增强 MyMBGD 模式，该模式允许用户将自己的基因组添加到 MBGD 中，现在接受没有任何注释的原始基因组序列（在这种情况下，它会在识别直系同源物之前运行基因发现程序）。一些分析功能，如查找具有相似系统发育模式的直系同源物的功能，也得到了改进。MBGD 可在 http://mbgd.genome.ad.jp/ 访问。
