Rapid assignment of nucleotide sequence data to allele types for multi-locus sequence analysis (MLSA) of bacteria using an adapted database and modified alignment program.

M A Diggle; S C Clarke

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PubMed · 12432950

Rapid assignment of nucleotide sequence data to allele types for multi-locus sequence analysis (MLSA) of bacteria using an adapted database and modified alignment program.

M A Diggle·S C Clarke

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Abstract

A novel database and modified alignment program is described which provides a fast and accurate procedure for assigning nucleotide sequences to allele types for multi-locus sequence analysis (MLSA). The database has between 40 and 160 alleles per organism including Neisseria meningitidis, Streptococcus pneumoniae, Staphylococcus aureus and Haemophilus influenzae. The database directly compares the query nucleotide sequence against all alleles within the database and this system reduces the time taken for the analysis of nucleotide sequence data and assignment of alleles for subsequent sequence analysis.

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Alleles Bacteria Bacterial Typing Techniques Base Sequence Computational Biology Databases, Nucleic Acid Humans Molecular Sequence Data Sequence Alignment Sequence Analysis, DNA Software Time Factors Evaluation Study Journal Article Research Support, Non-U.S. Gov't

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M A Diggle, S C Clarke. 2002. Rapid assignment of nucleotide sequence data to allele types for multi-locus sequence analysis (MLSA) of bacteria using an adapted database and modified alignment program.. https://pubmed.ncbi.nlm.nih.gov/12432950/

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