Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Rama 6 Road, Ratchathewi District, Bangkok 10400, Thailand.
Research Center, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Rama 6 Road, Ratchathewi District, Bangkok 10400, Thailand.
Database (Oxford). 2019 Jan 1;2019. doi: 10.1093/database/baz082.
Oomycetes form a unique group of the fungal-like, aquatic, eukaryotic microorganisms. Lifestyle and pathogenicity of the oomycetes are diverse. Many pathogenic oomycetes affect a broad range of plants and cause enormous economic loss annually. Some pathogenic oomycetes cause destructive and deadly diseases in a variety of animals, including humans. No effective antimicrobial agent against the oomycetes is available. Genomic data of many oomycetes are currently available. Comparative analyses of the oomycete genomes must be performed to better understand the oomycete biology and virulence, as well as to identify conserved and biologically important proteins that are potential diagnostic and therapeutic targets of these organisms. However, a tool that facilitates comparative genomic studies of the oomycetes is lacking. Here, we described in detail the Oomycete Gene Table, which is an online user-friendly bioinformatic tool, designed to search, analyze, compare and visualize gene contents of 20 oomycetes in a customizable table. Genomic contents of other oomycete species, when available, can be added to the existing database. Some of the applications of the Oomycete Gene Table include investigations of phylogenomic relationships, as well as identifications of biologically important and pathogenesis-related genes of oomycetes. In summary, the Oomycete Gene Table is a simple and useful tool for comparative genomic analyses of oomycetes.
卵菌形成了真菌样、水生、真核微生物的独特群体。卵菌的生活方式和致病性多种多样。许多致病性卵菌会影响广泛的植物，并导致每年巨大的经济损失。一些致病性卵菌会在多种动物中引起破坏性和致命性疾病，包括人类。目前还没有针对卵菌的有效抗菌剂。许多卵菌的基因组数据目前可用。必须对卵菌基因组进行比较分析，以更好地了解卵菌的生物学和毒力，并鉴定保守且具有生物学意义的蛋白质，这些蛋白质可能是这些生物体的潜在诊断和治疗靶点。然而，缺乏一种方便进行卵菌比较基因组研究的工具。在这里，我们详细描述了卵菌基因表，这是一个在线用户友好的生物信息学工具，旨在通过可定制的表格搜索、分析、比较和可视化 20 种卵菌的基因内容。当其他卵菌物种的基因组内容可用时，可以将其添加到现有数据库中。卵菌基因表的一些应用包括对系统发育关系的调查，以及鉴定卵菌中具有生物学意义和与发病机制相关的基因。总之，卵菌基因表是进行卵菌比较基因组分析的简单而有用的工具。
