Phylogenetic Relationships Between Environmental and Clinical Isolates of Pseudomonas fluorescens and Related Species Deduced from 16S rRNA Gene and OprF Protein Sequences
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Identification, subtyping, and tracking of dairy spoilage-associated Pseudomonas by sequencing the ileS gene
2021, Journal of Dairy ScienceA cultivation-independent PCR-RFLP assay targeting oprF gene for detection and identification of Pseudomonas spp. in samples from fibrocystic pediatric patients
2015, Journal of Microbiological MethodsCitation Excerpt :We have already tested the utility of the oprF gene, encoding a non-specific outer membrane porin, to specifically monitor Pseudomonas populations in soil and plant root samples (Agaras et al., 2012). Although oprF is conserved in the genus Pseudomonas, its sequence shows enough diversity to be used as a genetic marker to explore its allelic variation among different species (Bodilis and Barray, 2006; Bodilis et al., 2004; Bodilis et al., 2006). Based on this, we have developed a PCR-RFLP protocol targeting the oprF gene that allows species level differentiation in environmental pseudomonad isolates (Agaras et al., 2012).
Occurrence of multi-antibiotic resistant Pseudomonas spp. in drinking water produced from karstic hydrosystems
2014, Science of the Total EnvironmentCitation Excerpt :E. coli and Pseudomonas spp. densities were investigated, and the antibiotic resistance of the Pseudomonas isolates was determined. The Pseudomonas spp. isolated in the drinking water reservoir were identified at the species level or related species level by sequencing the rpoD and oprF genes (Bodilis et al., 2004, 2011; Mulet et al., 2009). In order to evaluate potential resistance transferability, we carried out a preliminary investigation into the possible presence of plasmids by transformation assays.
Evaluation of oprI and oprL genes as molecular markers for the genus Pseudomonas and their use in studying the biodiversity of a small Belgian River
2013, Research in MicrobiologyCitation Excerpt :Based on sequencing of conserved housekeeping genes, including 16S rRNA, gacA, gyrB, recA, rpoB and rpoD, different intrageneric clusters, lineages and groups have been described (Anzai et al., 2000; de Souza et al., 2003; Hilario et al., 2004; Moore et al., 1996; Tayeb et al., 2005; Yamamoto et al., 2000). In addition, outer membrane proteins such as lipoproteins OprI, peptidoglycan-associated OprL and the non-specific porin OprF, have also been used as taxonomic tools (Bodilis et al., 2004; De Vos et al., 1997, 1998; Jaffe et al., 2001; Pirnay et al., 2000, 2002). OprF is a structural protein (Rawling et al., 1998).
Specific enumeration and analysis of the community structure of culturable pseudomonads in agricultural soils under no-till management in Argentina
2012, Applied Soil EcologyCitation Excerpt :To meet these goals, we rely on specific detection methods. For pseudomonads, three genes have been utilized for phylogenetic diversity studies at the genus levels: 16S rDNA, gacA and oprF (Bodilis et al., 2004; de Souza et al., 2003; Pesaro and Widmer, 2006). gacA encodes the cognate transcriptional regulator of the membrane associated sensor protein GacS.