title: An MLSA-based online scheme for the rapid identification of Stenotrophomonas isolates.
abstract: An online scheme to assign Stenotrophomonas isolates to genomic groups was developed using the multilocus sequence analysis (MLSA), which is based on the DNA sequencing of selected fragments of the housekeeping genes ATP synthase alpha subunit (atpA), the recombination repair protein (recA), the RNA polymerase alpha subunit (rpoA) and the excision repair beta subunit (uvrB). This MLSA-based scheme was validated using eight of the 10 Stenotrophomonas species that have been previously described. The environmental and nosocomial Stenotrophomonas strains were characterised using MLSA, 16S rRNA sequencing and DNA-DNA hybridisation (DDH) analyses. Strains of the same species were found to have greater than 95% concatenated sequence similarity and specific strains formed cohesive readily recognisable phylogenetic groups. Therefore, MLSA appeared to be an effective alternative methodology to amplified fragment length polymorphism fingerprint and DDH techniques. Strains of Stenotrophomonas can be readily assigned through the open database resource that was developed in the current study (www.steno.lncc.br/).
authors: Departamento de Pediatria, Faculdade de Medicina, Instituto de Ciências Biomédicas, Universidade de São Paulo, São Paulo, SP, Brasil. locosque@usp.br
authors: Patrícia Locosque
authors: PL
authors: Ramos
authors: Carlos Alberto
authors: CA
authors: Moreira-Filho
authors: Stefanie
authors: S
authors: Van Trappen
authors: Jean
authors: J
authors: Swings
authors: Paul
authors: P
authors: De Vos
authors: Heloiza Ramos
authors: HR
authors: Barbosa
authors: Cristiane Carneiro
authors: CC
authors: Thompson
authors: Ana Tereza Ribeiro
authors: AT
authors: Vasconcelos
authors: Fabiano Lopes
authors: FL
authors: Thompson
mesh_terms: D015373:Bacterial Typing Techniques; D004269:DNA, Bacterial / Q000235:genetics*; D012321:DNA-Directed RNA Polymerases / Q000235:genetics; D006801:Humans; D058885:Multilocus Sequence Typing / Q000379:methods*; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics*; D020588:Stenotrophomonas / Q000235:genetics*
chemical_list: D004269:DNA, Bacterial; D012336:RNA, Ribosomal, 16S; D012321:DNA-Directed RNA Polymerases