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References from Genetic determinants of Pseudomonas aeruginosa fitness during biofilm growth. Local targets link to admitted publications; unresolved targets remain external evidence.
Biofilm matrix proteins
10.1128/microbiolspec.mb-0004-2014 · 2015 · External reference
Molecular mechanisms of biofilm-based antibiotic resistance and tolerance in pathogenic bacteria
10.1093/femsre/fux010 · 2017 · External reference
Bacterial extracellular polysaccharides in biofilm formation and function
10.1128/microbiolspec.mb-0011-2014 · 2015 · External reference
Biofilm formation and dispersal and the transmission of human pathogens
10.1016/j.tim.2004.11.004 · 2005 · External reference
The clinical impact of bacterial biofilms
10.4248/ijos11026 · 2011 · External reference
Biofilm infections, their resilience to therapy and innovative treatment strategies
10.1111/joim.12004 · 2012 · External reference
Pseudomonas aeruginosa lifestyle: a paradigm for adaptation, survival, and persistence
10.3389/fcimb.2017.00039 · 2017 · External reference
The TraDIS toolkit: sequencing and analysis for dense transposon mutant libraries
10.1093/bioinformatics/btw022 · 2016 · External reference
Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants
10.1101/gr.097097.109 · 2009 · External reference
Approaches to querying bacterial genomes with transposon-insertion sequencing
10.4161/rna.24765 · 2013 · External reference
A genetic determinant of persister cell formation in bacterial pathogens
10.1128/jb.00303-18 · 2018 · External reference
Genome-scale identification of resistance functions in Pseudomonas aeruginosa using Tn-seq
10.1128/mbio.00315-10 · 2011 · External reference
Importance of flagella in acute and chronic Pseudomonas aeruginosa infections
10.1111/1462-2920.14468 · 2019 · External reference
Requirements for Pseudomonas aeruginosa acute burn and chronic surgical wound infection
10.1371/journal.pgen.1004518 · 2014 · External reference
A global genomic approach uncovers novel components for twitching motility-mediated biofilm expansion in Pseudomonas aeruginosa
2018 · External reference
General and condition-specific essential functions of Pseudomonas aeruginosa
10.1073/pnas.1422186112 · 2015 · External reference
Identification of fitness determinants during energy-limited growth arrest in Pseudomonas aeruginosa
10.1128/mbio.01170-17 · 2017 · External reference
The design and analysis of transposon insertion sequencing experiments
10.1038/nrmicro.2015.7 · 2016 · External reference
An ordered, nonredundant library of Pseudomonas aeruginosa strain PA14 transposon insertion mutants
2006 · External reference
Transposon mutagenesis
10.1007/978-1-4939-0473-0_39 · 2014 · External reference
A 96-well-plate–based optical method for the quantitative and qualitative evaluation of Pseudomonas aeruginosa biofilm formation and its application to susceptibility testing
2010 · External reference
Unresolved reference
2006 · External reference
Quantification of Pseudomonas aeruginosa in multispecies biofilms using PMA-qPCR
10.7717/peerj.787 · 2015 · External reference
Cutadapt removes adapter sequences from high-throughput sequencing reads
2011 · External reference
SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing
10.1089/cmb.2012.0021 · 2012 · External reference
Fighting antimicrobial resistance in Pseudomonas aeruginosa with machine learning-enabled molecular diagnostics
2019 · External reference
Prokka: rapid prokaryotic genome annotation
10.1093/bioinformatics/btu153 · 2014 · External reference
Unresolved reference
2019 · External reference
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
10.1093/bioinformatics/btp616 · 2010 · External reference
InteractiVenn: a web-based tool for the analysis of sets through Venn diagrams
10.1186/s12859-015-0611-3 · 2015 · External reference
Parallel evolutionary paths to produce more than one Pseudomonas aeruginosa biofilm phenotype
10.1038/s41522-019-0113-6 · 2020 · External reference
Comparison of sequencing utility programs
10.2174/1875036201307010001 · 2013 · External reference
Fast gapped-read alignment with Bowtie 2
10.1038/nmeth.1923 · 2012 · External reference
Genome project data processing S: the sequence alignment/map format and SAMtools
10.1093/bioinformatics/btp352 · 2009 · External reference
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
10.1093/bioinformatics/btt656 · 2014 · External reference
A scaling normalization method for differential expression analysis of RNA-seq data
10.1186/gb-2010-11-3-r25 · 2010 · External reference
Controlling the false discovery rate: a practical and powerful approach to multiple testing
1995 · External reference
Stampy: a statistical algorithm for sensitive and fast mapping of Illumina sequence reads
10.1101/gr.111120.110 · 2011 · External reference
ppGpp binding to a site at the RNAP-DksA interface accounts for its dramatic effects on transcription initiation during the stringent response
10.1016/j.molcel.2016.04.029 · 2016 · External reference
The Pseudomonas aeruginosa pyochelin-iron uptake pathway and its metal specificity
10.1128/jb.00010-09 · 2009 · External reference
The Pseudomonas aeruginosa nirE gene encodes the S-adenosyl-L-methionine-dependent uroporphyrinogen III methyltransferase required for heme d(1) biosynthesis
10.1111/j.1742-4658.2009.07306.x · 2009 · External reference
The promise and peril of transcriptional profiling in biofilm communities
10.1016/j.mib.2007.05.011 · 2007 · External reference
The core proteome of biofilm-grown clinical Pseudomonas aeruginosa isolates
10.3390/cells8101129 · 2019 · External reference
Comparative microarray analysis reveals that the core biofilm-associated transcriptome of Pseudomonas aeruginosa comprises relatively few genes
10.1111/j.1758-2229.2010.00158.x · 2010 · External reference
Characterization of temporal protein production in Pseudomonas aeruginosa biofilms
10.1128/jb.187.23.8114-8126.2005 · 2005 · External reference
The genomics and proteomics of biofilm formation
10.1186/gb-2003-4-6-219 · 2003 · External reference
Pseudomonas aeruginosa displays multiple phenotypes during development as a biofilm
10.1128/jb.184.4.1140-1154.2002 · 2002 · External reference
Biofilm development
10.1128/microbiolspec.mb-0001-2014 · 2015 · External reference
Insights on Escherichia coli biofilm formation and inhibition from whole-transcriptome profiling
10.1111/j.1462-2920.2008.01768.x · 2009 · External reference
Genome-wide transcription profiling of aerobic and anaerobic Escherichia coli biofilm and planktonic cultures
2017 · External reference
Temporal gene-expression in Escherichia coli K-12 biofilms
10.1111/j.1462-2920.2006.01143.x · 2007 · External reference
Global impact of mature biofilm lifestyle on Escherichia coli K-12 gene expression
10.1046/j.1365-2958.2003.03865.x · 2004 · External reference
Global gene expression in Escherichia coli biofilms
10.1046/j.1365-2958.2003.03432.x · 2003 · External reference
Contribution of stress responses to antibiotic tolerance in Pseudomonas aeruginosa biofilms
10.1128/aac.00433-15 · 2015 · External reference
Expression and functional profiling reveal distinct gene classes involved in fatty acid metabolism
10.1038/msb4100051 · 2006 · External reference
Ex vivo transcriptional profiling reveals a common set of genes important for the adaptation of Pseudomonas aeruginosa to chronically infected host sites
10.1111/1462-2920.12024 · 2013 · External reference
Antibiotics disrupt coordination between transcriptional and phenotypic stress responses in pathogenic bacteria
10.1016/j.celrep.2017.07.062 · 2017 · External reference
An aerobic exercise: defining the roles of Pseudomonas aeruginosa terminal oxidases
10.1128/jb.02336-14 · 2014 · External reference
Differences in two Pseudomonas aeruginosa cbb3 cytochrome oxidases
10.1046/j.1365-2958.2003.03904.x · 2004 · External reference
Differential expression of multiple terminal oxidases for aerobic respiration in Pseudomonas aeruginosa
10.1111/j.1462-2920.2009.02109.x · 2010 · External reference
Identification of AlgR-regulated genes in Pseudomonas aeruginosa by use of microarray analysis
10.1128/jb.186.17.5672-5684.2004 · 2004 · External reference
The Pseudomonas aeruginosa AlgZR two-component system coordinates multiple phenotypes
10.3389/fcimb.2014.00082 · 2014 · External reference
The sigma factor AlgU plays a key role in formation of robust biofilms by nonmucoid Pseudomonas aeruginosa
10.1128/jb.01633-09 · 2010 · External reference
Two distinct loci affecting conversion to mucoidy in Pseudomonas aeruginosa in cystic fibrosis encode homologs of the serine protease HtrA
10.1128/jb.178.2.511-523.1996 · 1996 · External reference
Independent regulation of MucD, an HtrA-like protease in Pseudomonas aeruginosa, and the role of its proteolytic motif in alginate gene regulation
10.1128/jb.188.8.3134-3137.2006 · 2006 · External reference
The roles of mucD and alginate in the virulence of Pseudomonas aeruginosa in plants, nematodes and mice
10.1046/j.1365-2958.2001.02580.x · 2001 · External reference
Microbial pathogenesis in cystic fibrosis: mucoid Pseudomonas aeruginosa and Burkholderia cepacia
10.1128/mr.60.3.539-574.1996 · 1996 · External reference
Motility of Pseudomonas aeruginosa contributes to SOS-inducible biofilm formation
10.1016/j.resmic.2013.10.001 · 2013 · External reference
The stringent response promotes antibiotic resistance dissemination by regulating integron integrase expression in biofilms
10.1128/mbio.00868-16 · 2016 · External reference
tRNA modification enzymes GidA and MnmE: potential role in virulence of bacterial pathogens
10.3390/ijms151018267 · 2014 · External reference
Bacterial transfer RNAs
10.1093/femsre/fuv004 · 2015 · External reference
The LasB elastase of Pseudomonas aeruginosa acts in concert with alkaline protease AprA to prevent flagellin-mediated immune recognition
10.1128/iai.00939-15 · 2016 · External reference
The role of rpoS gene and quorum-sensing system in ofloxacin tolerance in Pseudomonas aeruginosa
10.1111/j.1574-6968.2009.01717.x · 2009 · External reference
Regulation of quorum sensing by RpoS in Pseudomonas aeruginosa
10.1128/jb.182.15.4356-4360.2000 · 2000 · External reference
Identification, timing, and signal specificity of Pseudomonas aeruginosa quorum-controlled genes: a transcriptome analysis
10.1128/jb.185.7.2066-2079.2003 · 2003 · External reference
The Pseudomonas aeruginosa sensor RetS switches type III and type VI secretion via c-di-GMP signalling
10.1111/j.1462-2920.2011.02595.x · 2011 · External reference
Direct interaction between sensor kinase proteins mediates acute and chronic disease phenotypes in a bacterial pathogen
10.1101/gad.1739009 · 2009 · External reference
Global regulatory pathways and cross-talk control Pseudomonas aeruginosa environmental lifestyle and virulence phenotype
2012 · External reference
Loss of sigma factor RpoN increases intestinal colonization of Vibrio parahaemolyticus in an adult mouse model
10.1128/iai.01210-13 · 2014 · External reference
