Bioinformatics: use in bacterial vaccine discovery.
Bioinformatics has now become a common laboratory name for groups studying genomic sequences. It is composed of many different, yet interrelated scientific fields such as genomics, proteomics, and transcriptional profiling. The availability of complete genomic sequences, especially prokaryotic organisms, allows one to rapidly identify, analyze, and clone genes of interest. For bacterial vaccine discovery, one can "mine" the genomic sequence for potential surface targets using various algorithms, characterize these gene targets, and produce primers for cloning, all before one enters the wet laboratory. This review will focus on various genomic mining tools/algorithms available for predicting open reading frames and their associated annotation (if known), physical and functional characterization, and cellular localization. Finally, examples are given of how all of this is being used for the identification of potential bacterial vaccine candidates.
Zagursky
R J
RJ
Wyeth Lederle Vaccines, West Henrietta, NY 14586, USA. zagursrj@war.wyeth.com
Russell
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D000818:Animals; D001419:Bacteria / Q000276:immunology / Q000648:ultrastructure; D001426:Bacterial Proteins / Q000032:analysis / Q000235:genetics; D001428:Bacterial Vaccines; D001483:Base Sequence; D019295:Computational Biology; D004269:DNA, Bacterial; D019992:Databases as Topic; D015195:Drug Design; D023281:Genomics; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis; D016366:Open Reading Frames; D020543:Proteome; D012333:RNA, Messenger / Q000032:analysis; D017422:Sequence Analysis, DNA; D017385:Sequence Homology; D012984:Software
D001426:Bacterial Proteins; D001428:Bacterial Vaccines; D004269:DNA, Bacterial; D020543:Proteome; D012333:RNA, Messenger