OriV-Finder：用于细菌质粒复制起点分析的综合网络服务器。
OriV-Finder: a comprehensive web server for bacterial plasmid replication origin analysis.
作者信息
Li Yujie, Gao Feng
机构信息
Department of Physics, School of Science, Tianjin University, Tianjin 300072, China.
State Key Laboratory of Synthetic Biology, Tianjin University, Tianjin 300072, China.
出版信息
Nucleic Acids Res. 2025 Jul 7;53(W1):W451-W456. doi: 10.1093/nar/gkaf341.
To rapidly identify and systematically analyse the vegetative replication origins (oriVs) of bacterial plasmids, we present OriV-Finder, a comprehensive web server for bacterial plasmid replication origin analysis. To fulfil this purpose, we collected 470 replication initiation proteins (RIPs) reported in the literature, identified 35 conserved domains associated with RIPs, and summarized conserved features of oriVs for various replication initiation mechanisms. Therefore, OriV-Finder could accurately identify the homologous genes of RIPs and then assess the likelihood of each intergenic sequence as a potential oriV based on the information of RIPs and conserved features. Consequently, the potential oriVs could be designated using a priority-based scoring system. As a user-friendly web server, OriV-Finder integrates visualization modules of oriVs, RIPs, and genomes, which facilitates the analysis and validation of oriVs. OriV-Finder is freely available to all users without any login requirement at https://tubic.org/OriV-Finder/.
为了快速识别并系统分析细菌质粒的复制起点（oriV），我们推出了OriV-Finder，这是一个用于细菌质粒复制起点分析的综合性网络服务器。为实现这一目的，我们收集了文献中报道的470种复制起始蛋白（RIP），鉴定了35个与RIP相关的保守结构域，并总结了不同复制起始机制下oriV的保守特征。因此，OriV-Finder可以准确识别RIP的同源基因，然后根据RIP的信息和保守特征评估每个基因间序列作为潜在oriV的可能性。因此，可以使用基于优先级的评分系统来指定潜在的oriV。作为一个用户友好的网络服务器，OriV-Finder集成了oriV、RIP和基因组的可视化模块，这有助于oriV的分析和验证。所有用户均可免费使用OriV-Finder，无需登录，网址为https://tubic.org/OriV-Finder/ 。
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