scholarly journals Genome-wide identification of Pseudomonas aeruginosa exported proteins using a consensus computational strategy combined with a laboratory-based PhoA fusion screen

2005 ◽  
Vol 15 (2) ◽  
pp. 321-329 ◽  
Author(s):  
S. Lewenza
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Genome Wide ◽  
Computational Strategy ◽  
Phoa Fusion

scholarly journals Genome-wide association study of signature genetic alterations among pseudomonas aeruginosa cystic fibrosis isolates

2021 ◽  
Vol 17 (6) ◽  
pp. e1009681
Author(s):  
Wontae Hwang ◽  
Ji Hyun Yong ◽  
Kyung Bae Min ◽  
Kang-Mu Lee ◽  
Ben Pascoe ◽  
...  
Keyword(s):  
Cystic Fibrosis ◽  
Pseudomonas Aeruginosa ◽  
Association Study ◽  
Genome Wide Association Study ◽  
Genetic Alterations ◽  
Genome Wide Association ◽  
Small Scale ◽  
Outer Membrane Receptor ◽  
Genome Wide ◽  
A Genome

Pseudomonas aeruginosa (PA) is an opportunistic pathogen that causes diverse human infections including chronic airway infection in patients with cystic fibrosis (CF). Comparing the genomes of CF and non-CF PA isolates has great potential to identify the genetic basis of pathogenicity. To gain a deeper understanding of PA adaptation in CF airways, we performed a genome-wide association study (GWAS) on 1,001 PA genomes. Genetic variations identified among CF isolates were categorized into (i) alterations in protein-coding regions, either large- or small-scale, and (ii) polymorphic variation in intergenic regions. We introduced each CF-associated genetic alteration into the genome of PAO1, a prototype PA strain, and validated the outcomes experimentally. Loci readily mutated among CF isolates included genes encoding a probable sulfatase, a probable TonB-dependent receptor (PA2332~PA2336), L-cystine transporter (YecS, PA0313), and a probable transcriptional regulator (PA5438). A promoter region of a heme/hemoglobin uptake outer membrane receptor (PhuR, PA4710) was also different between the CF and non-CF isolate groups. Our analysis highlights ways in which the PA genome evolves to survive and persist within the context of chronic CF infection.

scholarly journals Integrated Genome-Wide Analysis of an Isogenic Pair of Pseudomonas aeruginosa Clinical Isolates with Differential Antimicrobial Resistance to Ceftolozane/Tazobactam, Ceftazidime/Avibactam, and Piperacillin/Tazobactam

2020 ◽  
Vol 21 (3) ◽  
pp. 1026 ◽  
Author(s):  
Weihua Huang ◽  
Joelle El Hamouche ◽  
Guiqing Wang ◽  
Melissa Smith ◽  
Changhong Yin ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Pseudomonas Aeruginosa ◽  
Antimicrobial Resistance ◽  
Multidrug Resistant ◽  
Clinical Isolates ◽  
Epigenetic Mechanism ◽  
Phenotypic Change ◽  
Genome Wide ◽  
Family Protein ◽  
Significant Difference

Multidrug-resistant (MDR) Pseudomonas aeruginosa is one of the main causes of morbidity and mortality in hospitalized patients and the leading cause of nosocomial infections. We investigated, here, two MDR P. aeruginosa clinical isolates from a hospitalized patient with differential antimicrobial resistance to ceftazidime/avibactam (CZA), ceftolozane/tazobactam (C/T), and piperacillin/tazobactam (P/T). Their assembled complete genomes revealed they belonged to ST235, a widespread MDR clone; and were isogenic with only a single nucleotide variant, causing G183D mutation in AmpC β-lactamase, responsible for a phenotypic change from susceptible to resistant to CZA and C/T. Further epigenomic profiling uncovered two conserved DNA methylation motifs targeted by two distinct putative methyltransferase-containing restriction-modification systems, respectively; more intriguingly, there was a significant difference between the paired isolates in the pattern of genomic DNA methylation and modifications. Moreover, genome-wide gene expression profiling demonstrated the inheritable genomic methylation and modification induced 14 genes being differentially regulated, of which only toxR (downregulated), a regulatory transcription factor, had its promoter region differentially methylate and modified. Since highly expressed opdQ encodes an OprD porin family protein, therefore, we proposed an epigenetic regulation of opdQ expression pertinent to the phenotypic change of P. aeruginosa from resistant to susceptible to P/T. The disclosed epigenetic mechanism controlling phenotypic antimicrobial resistance deserves further experimental investigation.

scholarly journals Unravelling the Genome-Wide Contributions of Specific 2-Alkyl-4-Quinolones and PqsE to Quorum Sensing in Pseudomonas aeruginosa

2016 ◽  
Vol 12 (11) ◽  
pp. e1006029 ◽  
Author(s):  
Giordano Rampioni ◽  
Marilena Falcone ◽  
Stephan Heeb ◽  
Emanuela Frangipani ◽  
Matthew P. Fletcher ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Quorum Sensing ◽  
Genome Wide

A Genome-Wide Mutant Library of Pseudomonas aeruginosa

Pseudomonas ◽  
2006 ◽  
pp. 121-138 ◽  
Author(s):  
Michael A. Jacobs ◽  
Colin Manoil
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Mutant Library ◽  
Genome Wide ◽  
A Genome

scholarly journals Genome wide identification and experimental validation of Pseudomonas aeruginosa Tat substrates

2018 ◽  
Vol 8 (1) ◽  
Author(s):  
Maxime Rémi Gimenez ◽  
Govind Chandra ◽  
Perrine Van Overvelt ◽  
Romé Voulhoux ◽  
Sophie Bleves ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Experimental Validation ◽  
Genome Wide

scholarly journals Genome-wide Screen of Pseudomonas aeruginosa in Saccharomyces cerevisiae Identifies New Virulence Factors

2015 ◽  
Vol 5 ◽  
Author(s):  
Rafat Zrieq ◽  
Thibault G. Sana ◽  
Sandra Vergin ◽  
Steve Garvis ◽  
Irina Volfson ◽  
...  
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Pseudomonas Aeruginosa ◽  
Virulence Factors ◽  
Genome Wide

scholarly journals Genome-Wide Identification of Pseudomonas aeruginosa Virulence-Related Genes Using a Caenorhabditis elegans Infection Model

2012 ◽  
Vol 8 (7) ◽  
pp. e1002813 ◽  
Author(s):  
Rhonda L. Feinbaum ◽  
Jonathan M. Urbach ◽  
Nicole T. Liberati ◽  
Slavica Djonovic ◽  
Allison Adonizio ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Caenorhabditis Elegans ◽  
Infection Model ◽  
Genome Wide

COMPUTATIONAL STRATEGY FOR DISCOVERING DRUGGABLE GENE NETWORKS FROM GENOME-WIDE RNA EXPRESSION PROFILES

2005 ◽  
Author(s):  
SEIYA IMOTO ◽  
YOSHINORI TAMADA ◽  
HIROMITSU ARAKI ◽  
KAORI YASUDA ◽  
CRISTIN G. PRINT ◽  
...  
Keyword(s):  
Gene Networks ◽  
Expression Profiles ◽  
Rna Expression ◽  
Genome Wide ◽  
Computational Strategy
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