Published in BMC Microbiol on February 19, 2009
The Plant-Associated Microbe Gene Ontology (PAMGO) Consortium: community development of new Gene Ontology terms describing biological processes involved in microbe-host interactions. BMC Microbiol (2009) 3.14
Protein secretion systems in bacterial-host associations, and their description in the Gene Ontology. BMC Microbiol (2009) 2.35
What we can learn about Escherichia coli through application of Gene Ontology. Trends Microbiol (2009) 1.40
A "repertoire for repertoire" hypothesis: repertoires of type three effectors are candidate determinants of host specificity in Xanthomonas. PLoS One (2009) 1.23
Common and contrasting themes in host cell-targeted effectors from bacterial, fungal, oomycete and nematode plant symbionts described using the Gene Ontology. BMC Microbiol (2009) 1.14
Programmed cell death in host-symbiont associations, viewed through the Gene Ontology. BMC Microbiol (2009) 0.95
Unifying themes in microbial associations with animal and plant hosts described using the gene ontology. Microbiol Mol Biol Rev (2010) 0.91
Ontology-based representation and analysis of host-Brucella interactions. J Biomed Semantics (2015) 0.80
Anti-microbial principles of selected remedial plants from Southern India. Asian Pac J Trop Biomed (2011) 0.78
Development of an Ontology for Periodontitis. J Biomed Semantics (2015) 0.75
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet (2000) 336.52
The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000. Proc Natl Acad Sci U S A (2003) 5.62
Use and misuse of the gene ontology annotations. Nat Rev Genet (2008) 5.01
An extensive repertoire of type III secretion effectors in Escherichia coli O157 and the role of lambdoid phages in their dissemination. Proc Natl Acad Sci U S A (2006) 3.89
An injected bacterial effector targets chromatin access for transcription factor NF-kappaB to alter transcription of host genes involved in immune responses. Nat Immunol (2006) 3.41
A Pseudomonas syringae effector inactivates MAPKs to suppress PAMP-induced immunity in plants. Cell Host Microbe (2007) 3.15
Programmed cell death: a way of life for plants. Proc Natl Acad Sci U S A (1996) 3.01
Specific bacterial suppressors of MAMP signaling upstream of MAPKKK in Arabidopsis innate immunity. Cell (2006) 2.78
Type III secretion systems and disease. Clin Microbiol Rev (2007) 2.61
A bacterial E3 ubiquitin ligase targets a host protein kinase to disrupt plant immunity. Nature (2007) 2.28
Enteropathogen Resource Integration Center (ERIC): bioinformatics support for research on biodefense-relevant enterobacteria. Nucleic Acids Res (2007) 2.25
Type III secretion effectors of the IpaH family are E3 ubiquitin ligases. Cell Host Microbe (2007) 2.08
Enterohemorrhagic Escherichia coli O157:H7 produces Tir, which is translocated to the host cell membrane but is not tyrosine phosphorylated. Infect Immun (1999) 2.04
Type III effector AvrPtoB requires intrinsic E3 ubiquitin ligase activity to suppress plant cell death and immunity. Proc Natl Acad Sci U S A (2006) 1.71
Type III effector diversification via both pathoadaptation and horizontal transfer in response to a coevolutionary arms race. PLoS Genet (2006) 1.62
Proposed guidelines for a unified nomenclature and phylogenetic analysis of type III Hop effector proteins in the plant pathogen Pseudomonas syringae. Mol Plant Microbe Interact (2005) 1.59
Closing the circle on the discovery of genes encoding Hrp regulon members and type III secretion system effectors in the genomes of three model Pseudomonas syringae strains. Mol Plant Microbe Interact (2006) 1.58
Recruitment of cytoskeletal and signaling proteins to enteropathogenic and enterohemorrhagic Escherichia coli pedestals. Infect Immun (2001) 1.55
Terminal reassortment drives the quantum evolution of type III effectors in bacterial pathogens. PLoS Pathog (2006) 1.52
YopJ targets TRAF proteins to inhibit TLR-mediated NF-kappaB, MAPK and IRF3 signal transduction. Cell Microbiol (2007) 1.49
Plant pathogenic bacterial type III effectors subdue host responses. Curr Opin Microbiol (2008) 1.48
Rhizobium type III secretion systems: legume charmers or alarmers? Curr Opin Plant Biol (2001) 1.30
Biofilm formation and cellulose expression among diverse environmental Pseudomonas isolates. Environ Microbiol (2006) 1.30
NopP, a phosphorylated effector of Rhizobium sp. strain NGR234, is a major determinant of nodulation of the tropical legumes Flemingia congesta and Tephrosia vogelii. Mol Microbiol (2005) 1.28
A Salmonella type III secretion effector interacts with the mammalian serine/threonine protein kinase PKN1. Cell Microbiol (2006) 1.27
Characterization of type IV pilus genes in Pseudomonas syringae pv. tomato DC3000. Mol Plant Microbe Interact (1998) 1.16
Enteropathogenic Escherichia coli Tir translocation and pedestal formation requires membrane cholesterol in the absence of bundle-forming pili. Cell Microbiol (2006) 0.98
Enteropathogenic Escherichia coli (EPEC) Tir receptor molecule does not undergo full modification when introduced into host cells by EPEC-independent mechanisms. Infect Immun (2001) 0.95
Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res (2004) 28.63
progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement. PLoS One (2010) 24.31
Escherichia coli K-12: a cooperatively developed annotation snapshot--2005. Nucleic Acids Res (2006) 7.93
Genome sequence of Yersinia pestis KIM. J Bacteriol (2002) 7.14
Reordering contigs of draft genomes using the Mauve aligner. Bioinformatics (2009) 6.97
The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000. Proc Natl Acad Sci U S A (2003) 5.62
ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res (2003) 3.99
Type III secretion system effector proteins: double agents in bacterial disease and plant defense. Annu Rev Phytopathol (2004) 3.67
Systematic mutagenesis of the Escherichia coli genome. J Bacteriol (2004) 3.30
Genomic mining for Aspergillus natural products. Chem Biol (2006) 3.22
The Plant-Associated Microbe Gene Ontology (PAMGO) Consortium: community development of new Gene Ontology terms describing biological processes involved in microbe-host interactions. BMC Microbiol (2009) 3.14
Gene replacement without selection: regulated suppression of amber mutations in Escherichia coli. Gene (2003) 2.73
Whole-genome sequence analysis of Pseudomonas syringae pv. phaseolicola 1448A reveals divergence among pathovars in genes involved in virulence and transposition. J Bacteriol (2005) 2.38
Regulatory network of Escherichia coli: consistency between literature knowledge and microarray profiles. Genome Res (2003) 2.37
Genomewide identification of proteins secreted by the Hrp type III protein secretion system of Pseudomonas syringae pv. tomato DC3000. Proc Natl Acad Sci U S A (2002) 2.27
Enteropathogen Resource Integration Center (ERIC): bioinformatics support for research on biodefense-relevant enterobacteria. Nucleic Acids Res (2007) 2.25
ASAP: a resource for annotating, curating, comparing, and disseminating genomic data. Nucleic Acids Res (2006) 2.20
Identification and characterization of lpfABCC'DE, a fimbrial operon of enterohemorrhagic Escherichia coli O157:H7. Infect Immun (2002) 2.18
Genome-scale analysis of the uses of the Escherichia coli genome: model-driven analysis of heterogeneous data sets. J Bacteriol (2003) 2.10
Modelling regulatory pathways in E. coli from time series expression profiles. Bioinformatics (2002) 2.01
HecA, a member of a class of adhesins produced by diverse pathogenic bacteria, contributes to the attachment, aggregation, epidermal cell killing, and virulence phenotypes of Erwinia chrysanthemi EC16 on Nicotiana clevelandii seedlings. Proc Natl Acad Sci U S A (2002) 1.95
GRIL: genome rearrangement and inversion locator. Bioinformatics (2004) 1.95
Pseudomonas syringae type III secretion system targeting signals and novel effectors studied with a Cya translocation reporter. J Bacteriol (2004) 1.90
Identification of Pseudomonas syringae type III effectors that can suppress programmed cell death in plants and yeast. Plant J (2004) 1.86
Host range and molecular phylogenies of the soft rot enterobacterial genera pectobacterium and dickeya. Phytopathology (2007) 1.81
Genomewide identification of Pseudomonas syringae pv. tomato DC3000 promoters controlled by the HrpL alternative sigma factor. Proc Natl Acad Sci U S A (2002) 1.81
Pseudomonas syringae type III effector repertoires: last words in endless arguments. Trends Microbiol (2012) 1.72
Pseudomonas syringae type III secretion system effectors: repertoires in search of functions. Curr Opin Microbiol (2009) 1.71
Strains of Escherichia coli O157:H7 differ primarily by insertions or deletions, not single-nucleotide polymorphisms. J Bacteriol (2002) 1.68
A whole-genome shotgun optical map of Yersinia pestis strain KIM. Appl Environ Microbiol (2002) 1.68
Genome-wide detection and analysis of homologous recombination among sequenced strains of Escherichia coli. Genome Biol (2006) 1.66
Genomic variability of O islands encoding tellurite resistance in enterohemorrhagic Escherichia coli O157:H7 isolates. J Bacteriol (2002) 1.63
Description of the transcriptomes of immune response-activated hemocytes from the mosquito vectors Aedes aegypti and Armigeres subalbatus. Infect Immun (2004) 1.62
Directed evolution of ionizing radiation resistance in Escherichia coli. J Bacteriol (2009) 1.60
Proposed guidelines for a unified nomenclature and phylogenetic analysis of type III Hop effector proteins in the plant pathogen Pseudomonas syringae. Mol Plant Microbe Interact (2005) 1.59
A Pseudomonas syringae pv. tomato DC3000 mutant lacking the type III effector HopQ1-1 is able to cause disease in the model plant Nicotiana benthamiana. Plant J (2007) 1.59
Closing the circle on the discovery of genes encoding Hrp regulon members and type III secretion system effectors in the genomes of three model Pseudomonas syringae strains. Mol Plant Microbe Interact (2006) 1.58
Comparative whole-genome hybridization reveals genomic islands in Brucella species. J Bacteriol (2004) 1.52
Deletions in the repertoire of Pseudomonas syringae pv. tomato DC3000 type III secretion effector genes reveal functional overlap among effectors. PLoS Pathog (2009) 1.52
A draft genome sequence of Pseudomonas syringae pv. tomato T1 reveals a type III effector repertoire significantly divergent from that of Pseudomonas syringae pv. tomato DC3000. Mol Plant Microbe Interact (2009) 1.52
Analysis of the Lactobacillus casei supragenome and its influence in species evolution and lifestyle adaptation. BMC Genomics (2012) 1.42
Genetic disassembly and combinatorial reassembly identify a minimal functional repertoire of type III effectors in Pseudomonas syringae. Proc Natl Acad Sci U S A (2011) 1.37
Annotation and overview of the Pseudomonas savastanoi pv. savastanoi NCPPB 3335 draft genome reveals the virulence gene complement of a tumour-inducing pathogen of woody hosts. Environ Microbiol (2010) 1.34
Regulation of iron transport in Streptococcus pneumoniae by RitR, an orphan response regulator. J Bacteriol (2004) 1.34
GacA, the response regulator of a two-component system, acts as a master regulator in Pseudomonas syringae pv. tomato DC3000 by controlling regulatory RNA, transcriptional activators, and alternate sigma factors. Mol Plant Microbe Interact (2003) 1.33
Analyzing patterns of microbial evolution using the mauve genome alignment system. Methods Mol Biol (2007) 1.32
The evolution of metabolic networks of E. coli. BMC Syst Biol (2011) 1.32
Roadmap to new virulence determinants in Pseudomonas syringae: insights from comparative genomics and genome organization. Mol Plant Microbe Interact (2008) 1.32
Characterization of Cah, a calcium-binding and heat-extractable autotransporter protein of enterohaemorrhagic Escherichia coli. Mol Microbiol (2002) 1.32
Multiple approaches to a complete inventory of Pseudomonas syringae pv. tomato DC3000 type III secretion system effector proteins. Mol Plant Microbe Interact (2006) 1.31
A Pseudomonas syringae pv. tomato avrE1/hopM1 mutant is severely reduced in growth and lesion formation in tomato. Mol Plant Microbe Interact (2006) 1.28
Whole-genome expression profiling defines the HrpL regulon of Pseudomonas syringae pv. tomato DC3000, allows de novo reconstruction of the Hrp cis clement, and identifies novel coregulated genes. Mol Plant Microbe Interact (2006) 1.25
Evolution of extreme resistance to ionizing radiation via genetic adaptation of DNA repair. Elife (2014) 1.22
Genome-wide identification of plant-upregulated genes of Erwinia chrysanthemi 3937 using a GFP-based IVET leaf array. Mol Plant Microbe Interact (2004) 1.21
Methods to study PAMP-triggered immunity using tomato and Nicotiana benthamiana. Mol Plant Microbe Interact (2010) 1.21
Bioinformatics-enabled identification of the HrpL regulon and type III secretion system effector proteins of Pseudomonas syringae pv. phaseolicola 1448A. Mol Plant Microbe Interact (2006) 1.19
The evolution of Pseudomonas syringae host specificity and type III effector repertoires. Mol Plant Pathol (2009) 1.19
Genome sequence of the plant-pathogenic bacterium Dickeya dadantii 3937. J Bacteriol (2011) 1.18
Common and contrasting themes in host cell-targeted effectors from bacterial, fungal, oomycete and nematode plant symbionts described using the Gene Ontology. BMC Microbiol (2009) 1.14
Phylogeny and virulence of naturally occurring type III secretion system-deficient Pectobacterium strains. Appl Environ Microbiol (2009) 1.12
Insight into the transmission biology and species-specific functional capabilities of tsetse (Diptera: glossinidae) obligate symbiont Wigglesworthia. MBio (2012) 1.12
hrp genes of Erwinia chrysanthemi 3937 are important virulence factors. Mol Plant Microbe Interact (2002) 1.12
Identification of Mom7, a novel modifier of Apc(Min/+) on mouse chromosome 18. Genetics (2007) 1.12
HopPtoN is a Pseudomonas syringae Hrp (type III secretion system) cysteine protease effector that suppresses pathogen-induced necrosis associated with both compatible and incompatible plant interactions. Mol Microbiol (2004) 1.11
Using comparative genomics for inquiry-based learning to dissect virulence of Escherichia coli O157:H7 and Yersinia pestis. CBE Life Sci Educ (2012) 1.11
Identification of harpins in Pseudomonas syringae pv. tomato DC3000, which are functionally similar to HrpK1 in promoting translocation of type III secretion system effectors. J Bacteriol (2007) 1.11
Analysis of Erwinia chrysanthemi EC16 pelE::uidA, pelL::uidA, and hrpN::uidA mutants reveals strain-specific atypical regulation of the Hrp type III secretion system. Mol Plant Microbe Interact (2004) 1.08
Pseudomonas syringae pv. tomato DC3000 HopPtoM (CEL ORF3) is important for lesion formation but not growth in tomato and is secreted and translocated by the Hrp type III secretion system in a chaperone-dependent manner. Mol Microbiol (2003) 1.08
A survey of the Pseudomonas syringae pv. tomato DC3000 type III secretion system effector repertoire reveals several effectors that are deleterious when expressed in Saccharomyces cerevisiae. Mol Plant Microbe Interact (2008) 1.06
Components of the Pseudomonas syringae type III secretion system can suppress and may elicit plant innate immunity. Mol Plant Microbe Interact (2010) 1.06
Pseudomonas syringae lytic transglycosylases coregulated with the type III secretion system contribute to the translocation of effector proteins into plant cells. J Bacteriol (2007) 1.05
The Erwinia chrysanthemi EC16 hrp/hrc gene cluster encodes an active Hrp type III secretion system that is flanked by virulence genes functionally unrelated to the Hrp system. Mol Plant Microbe Interact (2004) 1.05
Identification of Nicotiana benthamiana genes involved in pathogen-associated molecular pattern-triggered immunity. Mol Plant Microbe Interact (2010) 1.04
Analyzing the dose-dependence of the Saccharomyces cerevisiae global transcriptional response to methyl methanesulfonate and ionizing radiation. BMC Genomics (2006) 1.02
Transcriptomics-based screen for genes induced by flagellin and repressed by pathogen effectors identifies a cell wall-associated kinase involved in plant immunity. Genome Biol (2013) 1.01
Mutations in γ-aminobutyric acid (GABA) transaminase genes in plants or Pseudomonas syringae reduce bacterial virulence. Plant J (2010) 0.99
The HopPtoF locus of Pseudomonas syringae pv. tomato DC3000 encodes a type III chaperone and a cognate effector. Mol Plant Microbe Interact (2004) 0.99
Urease of enterohemorrhagic Escherichia coli: evidence for regulation by fur and a trans-acting factor. Infect Immun (2002) 0.98
A bacterial cysteine protease effector protein interferes with photosynthesis to suppress plant innate immune responses. Cell Microbiol (2012) 0.98
Applying the Gene Ontology in microbial annotation. Trends Microbiol (2009) 0.97
Pseudomonas syringae exchangeable effector loci: sequence diversity in representative pathovars and virulence function in P. syringae pv. syringae B728a. J Bacteriol (2003) 0.97
Programmed cell death in host-symbiont associations, viewed through the Gene Ontology. BMC Microbiol (2009) 0.95
Insertions, deletions, and single-nucleotide polymorphisms at rare restriction enzyme sites enhance discriminatory power of polymorphic amplified typing sequences, a novel strain typing system for Escherichia coli O157:H7. J Clin Microbiol (2004) 0.94
PeerGAD: a peer-review-based and community-centric web application for viewing and annotating prokaryotic genome sequences. Nucleic Acids Res (2004) 0.94
Studying plant-pathogen interactions in the genomics era: beyond molecular Koch's postulates to systems biology. Annu Rev Phytopathol (2010) 0.93
A pseudomonas syringae pv. tomato DC3000 Hrp (Type III secretion) deletion mutant expressing the Hrp system of bean pathogen P. syringae pv. syringae 61 retains normal host specificity for tomato. Mol Plant Microbe Interact (2003) 0.93