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mlstdbNet – distributed multi-locus sequence typing (MLST) databases
Open accessAbstract
BACKGROUND: Multi-locus sequence typing (MLST) is a method of typing that facilitates the discrimination of microbial isolates by comparing the sequences of housekeeping gene fragments. The mlstdbNet software enables the implementation of distributed web-accessible MLST databases that can be linked widely over the Internet. RESULTS: The software enables multiple isolate databases to query a single profiles database that contains allelic profile and sequence definitions. This separation enables isolate databases to be established by individual laboratories, each customized to the needs of the particular project and with appropriate access restrictions, while maintaining the benefits of a single definitive source of profile and sequence information. Databases are described by an XML file that is parsed by a Perl CGI script. The software offers a large number of ways to query the databases and to further break down and export the results generated. Additional features can be enabled by installing third-party (freely available) tools. CONCLUSION: Development of a distributed structure for MLST databases offers scalability and flexibility, allowing participating centres to maintain ownership of their own data, without introducing duplication and data integrity issues.
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Cited by
Jolley, K. A., Bray, J. E., & Maiden, M. C. J. (2018) · Wellcome Open Research · doi:10.12688/wellcomeopenres.14826.1 · Cited by 3,551
Self-citationBIGSdb: Scalable analysis of bacterial genome variation at the population level
Jolley, K. A., & Maiden, M. C. (2010) · BMC Bioinformatics · doi:10.1186/1471-2105-11-595 · Cited by 2,368
Self-citationMultilocus Sequence Typing of Total-Genome-Sequenced Bacteria
Larsen, M. V., Cosentino, S., Rasmussen, S., Friis, C., Hasman, H., Marvig, R. L., Jelsbak, L., Sicheritz-Pontén, T., Ussery, D. W., Aarestrup, F. M., et al. (2012) · Journal of Clinical Microbiology · doi:10.1128/jcm.06094-11 · Cited by 2,328
Multilocus Sequence Typing of Bacteria
Maiden, M. C. J. (2006) · Annual Review of Microbiology · doi:10.1146/annurev.micro.59.030804.121325 · Cited by 915
Self-citationMultilocus Sequence Typing System for the Endosymbiont Wolbachia pipientis
Baldo, L., Dunning Hotopp, J. C., Jolley, K. A., Bordenstein, S. R., Biber, S. A., Choudhury, R. R., Hayashi, C., Maiden, M. C. J., Tettelin, H., & Werren, J. H. (2006) · Applied and Environmental Microbiology · doi:10.1128/aem.00731-06 · Cited by 870
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Metadata
- Authors
- Jolley, K. A., Chan, M.-S., & Maiden, M. C.
- Venue
- BMC Bioinformatics
- Published
- 2004-07-01
- Volume
- 5
- Issue
- 1
- Pages
- 86-86
- ISSN
- 1471-2105 (ISSN-L)
- OpenAlex
- W2166642025
- Cited by
- 501
- References
- 0
- FWCI
- 5.90
- Type
- journal article
- Language
- en
- Open access
- gold
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- Jolley, K. A., Chan, M.-S., & Maiden, M. C. (2004). mlstdbNet – distributed multi-locus sequence typing (MLST) databases. BMC Bioinformatics. https://doi.org/10.1186/1471-2105-5-86
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
