oriTDB: A Database of Bacterial Mobile Genetic Elements
Author Information
Author(s): Liu Guitian, Li Xiaobin, Guan Jiahao, Tai Cui, Weng Yuqing, Chen Xiaohua, Ou Hong-Yu
Primary Institution: Shanghai Jiao Tong University School of Medicine
Conclusion
The oriTDB database provides a comprehensive collection of origin-of-transfer regions and associated elements in bacterial mobile genetic elements.
Supporting Evidence
- The database includes 122 experimentally validated and 22,927 predicted oriTs.
- oriTDB provides details about associated relaxases, auxiliary proteins, and type IV coupling proteins.
- The enhanced oriT prediction pipeline, oriTfinder2, integrates a functional annotation module for cargo genes.
Takeaway
This study created a database that helps scientists understand how bacteria share important genes with each other.
Methodology
The database was created through text mining and manual curation of literature, incorporating experimentally validated and predicted oriT regions.
Limitations
The database may not cover all possible oriT regions and their associated elements due to the limitations of current bioinformatics resources.
Digital Object Identifier (DOI)
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