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Nucleic Acids Research 2006 34(Database Issue):D398-D401; doi:10.1093/nar/gkj033
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Nucleic Acids Research, 2006, Vol. 34, Database issue D398-D401
© The Author 2006. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oxfordjournals.org

Article

ShiBASE: an integrated database for comparative genomics of Shigella

Jian Yang, Lihong Chen, Jun Yu1, Lilian Sun and Qi Jin*

State Key Laboratory for Molecular Virology and Genetic Engineering Beijing 100176, China 1The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus Hinxton, Cambridge CB10 1SA, UK

*To whom correspondence should be addressed: Tel: +86 10 6787 7732; Fax: +86 10 6787 7736; Email: zdsys{at}sina.com

Received August 14, 2005. Revised September 26, 2005. Accepted September 26, 2005.

Among the major enteric bacterial pathogens, Shigella is found to display extreme genome diversity and dynamics, which imposes a challenge in comparative genomic studies. To facilitate further studies in this area, we have constructed an integrated online database, ShiBASE (http://www.mgc.ac.cn/ShiBASE/),which contains Shigella genomic sequences of four species and additional comparative genomic hybridization (CGH) data of 43 serotypes. ShiBASE offers online comparative analysis on DNA sequences, gene orders, metabolic pathways and virulence factors. In addition, ShiBASE has a newly developed online comparative visualization service, Shi-align, which enables the alignment of any query sequence with the reference genome sequences.


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