Pathogenic Escherichia coli, Nature Reviews Microbiology, vol.63, issue.2, pp.123-140, 2004. ,
DOI : 10.1128/IAI.69.1.315-324.2001
Adhesive threads of extraintestinal pathogenic Escherichia coli, Gut Pathogens, vol.1, issue.1, pp.10-1186, 2009. ,
DOI : 10.1186/1757-4749-1-22
Antigen 43-Mediated Autotransporter Display, a Versatile Bacterial Cell Surface Presentation System, Journal of Bacteriology, vol.184, issue.15, pp.4197-42044197, 2002. ,
DOI : 10.1128/JB.184.15.4197-4204.2002
URL : http://jb.asm.org/content/184/15/4197.full.pdf
Antigen-43-mediated autoaggregation impairs motility in Escherichia coli, Microbiology, vol.152, issue.7, pp.2101-2110, 2006. ,
DOI : 10.1099/mic.0.28607-0
URL : http://mic.microbiologyresearch.org/deliver/fulltext/micro/152/9/2865.pdf?itemId=/content/journal/micro/10.1099/mic.0.29296-0&mimeType=pdf&isFastTrackArticle=
Self-associating autotransporters, SAATs: Functional and structural similarities, International Journal of Medical Microbiology, vol.296, issue.4-5, pp.187-195002, 2006. ,
DOI : 10.1016/j.ijmm.2005.10.002
URL : http://orbit.dtu.dk/en/publications/selfassociating-autotransporters-saats(e0e9d4b9-8759-49d5-9936-e31ee92182de).html
UpaG, a New Member of the Trimeric Autotransporter Family of Adhesins in Uropathogenic Escherichia coli, Journal of Bacteriology, vol.190, issue.12, pp.4147-416110, 2008. ,
DOI : 10.1128/JB.00122-08
URL : https://hal.archives-ouvertes.fr/pasteur-01380586
Autotransporters of Escherichia coli: a sequence-based characterization, Microbiology, vol.156, issue.8, pp.2459-2469, 2010. ,
DOI : 10.1099/mic.0.039024-0
The sweet connection: Solving the riddle of multiple sugar-binding fimbrial adhesins in Escherichia coli, BioEssays, vol.7, issue.4, pp.300-31110, 2011. ,
DOI : 10.2174/138955707782795610
URL : https://hal.archives-ouvertes.fr/pasteur-01393506
Combined Inactivation and Expression Strategy To Study Gene Function under Physiological Conditions: Application to Identification of New Escherichia coli Adhesins, Journal of Bacteriology, vol.187, issue.3, pp.1001-1013, 2005. ,
DOI : 10.1128/JB.187.3.1001-1013.2005
Escherichia coli K-12 possesses multiple cryptic but functional chaperone-usher fimbriae with distinct surface specificities, Environmental Microbiology, vol.93, issue.7, 1957. ,
DOI : 10.1128/jb.177.3.621-627.1995
URL : https://hal.archives-ouvertes.fr/pasteur-01393508
Yad fimbriae reveals their potential role in environmental persistence, Environmental Microbiology, vol.113, issue.12, pp.5228-524810, 2016. ,
DOI : 10.1016/S0092-8674(03)00351-9
Autotransporter secretion: varying on a theme, Research in Microbiology, vol.164, issue.6, pp.562-582010, 2013. ,
DOI : 10.1016/j.resmic.2013.03.010
Virulence Functions of Autotransporter Proteins, Infection and Immunity, vol.69, issue.3, pp.1231-1243, 2001. ,
DOI : 10.1128/IAI.69.3.1231-1243.2001
Functional Analysis of Antigen 43 in Uropathogenic Escherichia coli Reveals a Role in Long-Term Persistence in the Urinary Tract, Infection and Immunity, vol.75, issue.7, pp.3233-324410, 2007. ,
DOI : 10.1128/IAI.01952-06
URL : https://hal.archives-ouvertes.fr/pasteur-00331433
Ag43 Promotes Persistence of Uropathogenic Escherichia coli Isolates in the Urinary Tract, Journal of Clinical Microbiology, vol.48, issue.6, pp.2316-231710, 2010. ,
DOI : 10.1128/JCM.00611-10
Type V protein secretion: simplicity gone awry?, Current issues in molecular biology, vol.6, pp.111-124, 2004. ,
Intimin and Invasin Export Their C-Terminus to the Bacterial Cell Surface Using an Inverse Mechanism Compared to Classical Autotransport, PLoS ONE, vol.7, 2012. ,
The Bacterial Intimins and Invasins: A Large and Novel Family of Secreted Proteins, PLoS ONE, vol.198, issue.12, 2010. ,
DOI : 10.1371/journal.pone.0014403.s017
Identification of a novel genetic locus that is required for in vitro adhesion of a clinical isolate of enterohaemorrhagic Escherichia coli to epithelial cells, Molecular Microbiology, vol.166, issue.2, pp.275-288, 2000. ,
DOI : 10.1093/infdis/166.4.797
The Intimin periplasmic domain mediates dimerisation and binding to peptidoglycan. Molecular microbiology 95, pp.80-10012840, 2015. ,
The inverse autotransporter family: Intimin, invasin and related proteins, International Journal of Medical Microbiology, vol.305, issue.2, pp.276-282, 2015. ,
DOI : 10.1016/j.ijmm.2014.12.011
Biofilm-associated proteins, Comptes Rendus Biologies, vol.329, issue.11, pp.849-857008, 2006. ,
DOI : 10.1016/j.crvi.2006.07.008
Bap, a Staphylococcus aureus Surface Protein Involved in Biofilm Formation, Journal of Bacteriology, vol.183, issue.9, pp.2888-2896, 2001. ,
DOI : 10.1128/JB.183.9.2888-2896.2001
Bap: A family of surface proteins involved in biofilm formation, Research in Microbiology, vol.157, issue.2, pp.99-107, 2006. ,
DOI : 10.1016/j.resmic.2005.11.003
Staphylococcal Bap Proteins Build Amyloid Scaffold Biofilm Matrices in Response to Environmental Signals, PLOS Pathogens, vol.78, issue.6, 2016. ,
DOI : 10.1371/journal.ppat.1005711.s021
The Enterococcal Surface Protein, Esp, Is Involved in Enterococcus faecalis Biofilm Formation, Applied and Environmental Microbiology, vol.67, issue.10, pp.4538-45454538, 2001. ,
DOI : 10.1128/AEM.67.10.4538-4545.2001
Transition from reversible to irreversible attachment during biofilm formation by Pseudomonas fluorescens WCS365 requires an ABC transporter and a large secreted protein, Molecular Microbiology, vol.46, issue.4, pp.905-918, 2003. ,
DOI : 10.1094/MPMI-9-0600
the second largest Pseudomonas putida protein, contributes to plant ro ot colonizat ion and deter mines biof i lm archite c ture. Molecular microbiolog y 77, pp.549-561, 2010. ,
Functional dissection of SiiE, a giant non-fimbrial adhesin of Salmonella enterica, Cellular Microbiology, vol.1461, issue.8, pp.1286-1301, 2011. ,
DOI : 10.1016/S0005-2736(99)00158-3
Molecular Analysis of the Acinetobacter baumannii Biofilm-Associated Protein Applied and environmental microbiology 79, pp.6535-654310, 2013. ,
The Giant Adhesin SiiE of Salmonella enterica, Molecules, vol.715, issue.1, pp.1134-1150, 2015. ,
DOI : 10.1107/S1744309111032039
BapA, a large secreted protein required for biofilm formation and host colonization of Salmonella enterica serovar Enteritidis, Molecular Microbiology, vol.39, issue.5, pp.1322-1339, 2005. ,
DOI : 10.1007/978-94-010-0095-6
Targeting the bacteria???host interface, Virulence, vol.13, issue.4, pp.284-29410, 2013. ,
DOI : 10.1007/s00249-011-0784-2
URL : http://www.tandfonline.com/doi/pdf/10.4161/viru.24606?needAccess=true
Improved tools for biological sequence comparison., Proceedings of the National Academy of Sciences, vol.85, issue.8, pp.2444-2448, 1988. ,
DOI : 10.1073/pnas.85.8.2444
URL : http://www.pnas.org/content/85/8/2444.full.pdf
phylo-typing method revisited: improvement of specificity and detection of new phylo-groups, Environmental Microbiology Reports, vol.1, issue.1, pp.58-6510, 2013. ,
DOI : 10.1128/AEM.01262-09
Clustal W and Clustal X version 2.0, Bioinformatics, vol.15, issue.1, pp.2947-2948, 2007. ,
DOI : 10.1093/bioinformatics/15.1.87
URL : https://hal.archives-ouvertes.fr/hal-00206210
CDD: NCBI's conserved domain database. Nucleic acids research 43, pp.222-22610, 2014. ,
DOI : 10.1093/nar/gku1221
URL : https://academic.oup.com/nar/article-pdf/43/D1/D222/7330270/gku1221.pdf
The Phyre2 web portal for protein modeling, prediction and analysis, Nature Protocols, vol.1, issue.6, pp.845-858, 2015. ,
DOI : 10.1093/bioinformatics/btl677
The InterPro protein families database: the classification resource after 15 years. Nucleic acids research 43, pp.213-22110, 2015. ,
URL : https://hal.archives-ouvertes.fr/hal-01222896
SignalP 4.0: discriminating signal peptides from transmembrane regions, Nature Methods, vol.6, issue.10, pp.785-786, 2011. ,
DOI : 10.1016/0005-2795(75)90109-9
Easyfig: a genome comparison visualizer, Bioinformatics, vol.24, issue.4, pp.1009-1010, 2011. ,
DOI : 10.1096/fj.09-144972
URL : https://academic.oup.com/bioinformatics/article-pdf/27/7/1009/624276/btr039.pdf
Screening of Escherichia coli Species Biodiversity Reveals New Biofilm-Associated Antiadhesion Polysaccharides, mBio, vol.2, issue.3, pp.43-54, 2011. ,
DOI : 10.1128/mBio.00043-11
Standard reference strains of Escherichia coli from natural populations, Journal of bacteriology, vol.157, pp.690-693, 1984. ,
A short course in bacterial genetics: a laboratory manual and handbook for Escherichia coli and related bacteria, 1992. ,
biofilm development, Molecular Microbiology, vol.18, issue.2, pp.295-304, 1998. ,
DOI : 10.1111/j.1365-2958.1995.mmi_18030547.x
Global gene expression in Escherichia coli biofilms, Molecular Microbiology, vol.413, issue.1, pp.253-267, 2003. ,
DOI : 10.1128/jb.178.4.1094-1098.1996
URL : http://onlinelibrary.wiley.com/doi/10.1046/j.1365-2958.2003.03432.x/pdf
The Peptidoglycan-Binding Protein FimV Promotes Assembly of the Pseudomonas aeruginosa Type IV Pilus Secretin, Journal of Bacteriology, vol.193, issue.2, pp.540-55001048, 1128. ,
DOI : 10.1128/JB.01048-10
ABSTRACT, Applied and Environmental Microbiology, vol.80, issue.23, pp.7337-734710, 2014. ,
DOI : 10.1128/AEM.02114-14
Tight modulation of Escherichia coli bacterial biofilm formation through controlled expression of adhesion factors, Applied and environmental microbiology, vol.73, pp.3391-3403, 2007. ,
URL : https://hal.archives-ouvertes.fr/pasteur-00331439
The link between phylogeny and virulence in Escherichia coli extraintestinal infection, Infection and immunity, vol.67, pp.546-553, 1999. ,
A Specific Genetic Background Is Required for Acquisition and Expression of Virulence Factors in Escherichia coli, Molecular Biology and Evolution, vol.21, issue.6, pp.1085-1094, 2004. ,
DOI : 10.1128/JCM.40.11.3951-3955.2002
Effect of human vicinity on antimicrobial resistance and integrons in animal faecal Escherichia coli, Journal of Antimicrobial Chemotherapy, vol.57, issue.6, pp.1215-121910, 2006. ,
DOI : 10.1093/jac/dkl122
Identification of forces shaping the commensal Escherichia coli genetic structure by comparing animal and human isolates, Environmental Microbiology, vol.165, issue.11, 1975. ,
DOI : 10.1093/infdis/165.1.46
LysM, a widely distributed protein motif for binding to (peptido)glycans, Molecular Microbiology, vol.152, issue.4, pp.838-847, 2008. ,
DOI : 10.1104/pp.107.097097
Identification of a Francisella tularensis LVS outer membrane protein that confers adherence to A549 human lung cells. FEMS microbiology letters 263, pp.102-108, 2006. ,
T-cell stimulating protein A (TspA) of Neisseria meningitidis is required for optimal adhesion to human cells, Cellular Microbiology, vol.135, issue.2, pp.463-478, 2007. ,
DOI : 10.1128/IAI.73.9.5554-5567.2005
FdeC, a Novel Broadly Conserved Escherichia coli Adhesin Eliciting Protection against Urinary Tract Infections, mBio, vol.3, issue.2, pp.10-12, 2012. ,
DOI : 10.1128/mBio.00010-12
The Structural Basis for Carbohydrate Recognition By Lectins, Advances in Experimental Medicine and Biology, pp.1-1610, 2001. ,
DOI : 10.1007/978-1-4615-1267-7_1
Proteomics characterization of outer membrane vesicles from the extraintestinal pathogenic Escherichia coli ?tolR IHE3034 mutant. Molecular & cellular proteomics, pp.473-48510, 2008. ,
Comparative analysis of the uropathogenic Escherichia coli surface proteome by tandem mass-spectrometry of artificially induced outer membrane vesicles, Journal of Proteomics, vol.115, pp.93-106005, 2015. ,
DOI : 10.1016/j.jprot.2014.12.005
Comparative proteomics of uropathogenic Escherichia coli during growth in human urine identify UCA-like (UCL) fimbriae as an adherence factor involved in biofilm formation and binding to uroepithelial cells, Journal of Proteomics, vol.131, pp.177-189, 2016. ,
DOI : 10.1016/j.jprot.2015.11.001
PNPase is a key player in the regulation of small RNAs that control the expression of outer membrane proteins, RNA, vol.14, issue.3, pp.543-551, 2008. ,
DOI : 10.1261/rna.683308
The RNA processing enzyme polynucleotide phosphorylase negatively controls biofilm formation by repressing poly-N-acetylglucosamine (PNAG) production in Escherichia coli C, BMC Microbiology, vol.12, issue.270, pp.10-1186, 2012. ,
Pathogenicity Islands and the Evolution of Microbes, Annual Review of Microbiology, vol.54, issue.1, pp.641-679, 2000. ,
DOI : 10.1146/annurev.micro.54.1.641
Pathogenicity Islands in Bacterial Pathogenesis, Clinical Microbiology Reviews, vol.19, issue.1, pp.257-257, 2006. ,
DOI : 10.1128/CMR.19.1.257.2006
URL : http://cmr.asm.org/content/19/1/257.full.pdf
Characterization of a large chromosomal "high-pathogenicity island" in biotype 1B Yersinia enterocolitica., Journal of Bacteriology, vol.178, issue.23, pp.6743-6751, 1996. ,
DOI : 10.1128/jb.178.23.6743-6751.1996
strains isolated from diverse hosts, FEMS Microbiology Letters, vol.33, issue.2, pp.57-60, 2001. ,
DOI : 10.1111/j.1574-6968.2001.tb10540.x
URL : https://academic.oup.com/femsle/article-pdf/196/1/57/19107576/196-1-57.pdf
is involved in synthesis of siderophore yersiniabactin, World Journal of Gastroenterology, vol.11, issue.37, pp.5816-5820, 2005. ,
DOI : 10.1128/IAI.70.4.1832-1841.2002
A genomic island, termed high-pathogenicity island, is present in certain non-O157 Shiga toxin-producing Escherichia coli clonal lineages, Infection and immunity, vol.67, pp.5994-6001, 1999. ,
Yersinia High-Pathogenicity Island Contributes to Virulence in Escherichia coli Causing Extraintestinal Infections, Infection and Immunity, vol.70, issue.9, pp.5335-5337, 2002. ,
DOI : 10.1128/IAI.70.9.5335-5337.2002
Prevalence of the " high-pathogenicity island " of Yersinia species among Escherichia coli strains that are pathogenic to humans, Infection and immunity, vol.66, pp.480-485, 1998. ,
UpaH Is a Newly Identified Autotransporter Protein That Contributes to Biofilm Formation and Bladder Colonization by Uropathogenic Escherichia coli CFT073, Infection and Immunity, vol.78, issue.4, pp.1659-166901010, 2010. ,
DOI : 10.1128/IAI.01010-09
Functional Heterogeneity of the UpaH Autotransporter Protein from Uropathogenic Escherichia coli, Journal of Bacteriology, vol.194, issue.21, pp.5769-578201264, 1128. ,
DOI : 10.1128/JB.01264-12
URL : https://hal.archives-ouvertes.fr/pasteur-01371661
Type V Protein Secretion Pathway: the Autotransporter Story, Microbiology and Molecular Biology Reviews, vol.68, issue.4, pp.692-744, 2004. ,
DOI : 10.1128/MMBR.68.4.692-744.2004
URL : http://mmbr.asm.org/content/68/4/692.full.pdf
The meningococcal autotransporter AutA is implicated in autoaggregation and biofilm formation, Environmental Microbiology, vol.72, issue.4, pp.1321-133710, 2015. ,
DOI : 10.1128/IAI.72.10.6132-6138.2004
Interaction of Yersinia enterocolitica with epithelial cells: invasin beyond invasion, International Journal of Medical Microbiology, vol.293, issue.1, pp.41-5410, 2003. ,
DOI : 10.1078/1438-4221-00243
Molecular basis for bacterial peptidoglycan recognition by LysM domains, Nature Communications, vol.4, issue.4269, pp.10-1038, 2014. ,
DOI : 10.1039/B511866B
URL : http://www.nature.com/articles/ncomms5269.pdf
Identification and characterization of TspA, a major CD4(+) T-cell-and B-cell-stimulating Neisseria-specific antigen, Infection and immunity, vol.67, pp.3533-3541, 1999. ,
Polynucleotide phosphorylase can participate in decay of mRNA in Escherichia coli in the absence of ribonuclease II, MGG Molecular & General Genetics, vol.247, issue.4, pp.357-362, 1975. ,
DOI : 10.1007/BF00267975
Genomic analysis in Escherichia coli demonstrates differential roles for polynucleotide phosphorylase and RNase II in mRNA abundance and decay, Molecular Microbiology, vol.20, issue.2, pp.645-658, 2003. ,
DOI : 10.1128/jb.173.8.2488-2497.1991
ABSTRACT, Journal of Bacteriology, vol.198, issue.24, pp.3309-331710, 2016. ,
DOI : 10.1128/JB.00624-16
Defects in polynucleotide phosphorylase impairs virulence in Escherichia coli O157:H7, Frontiers in Microbiology, vol.7, issue.e31308, p.806, 2015. ,
DOI : 10.1371/journal.pone.0031308
Neisseria meningitidis Polynucleotide Phosphorylase Affects Aggregation, Adhesion, and Virulence, Infection and Immunity, vol.84, issue.5, pp.1501-151310, 2016. ,
DOI : 10.1128/IAI.01463-15
URL : http://iai.asm.org/content/84/5/1501.full.pdf
Polynucleotide Phosphorylase Regulates Multiple Virulence Factors and the Stabilities of Small RNAs RsmY/Z in Pseudomonas aeruginosa, Frontiers in Microbiology, vol.8, issue.81, p.247, 2016. ,
DOI : 10.1371/journal.ppat.1002945
Clonal Group, New England Journal of Medicine, vol.345, issue.14, pp.1007-101310, 2001. ,
DOI : 10.1056/NEJMoa011265
Development and maturation of Escherichia coli K-12 biofilms, Molecular Microbiology, vol.97, issue.4, pp.933-946, 2003. ,
DOI : 10.1128/jb.175.5.1375-1383.1993
Novel Roles for the AIDA Adhesin from Diarrheagenic Escherichia coli: Cell Aggregation and Biofilm Formation, Journal of Bacteriology, vol.186, issue.23, pp.8058-8065, 2004. ,
DOI : 10.1128/JB.186.23.8058-8065.2004
pACYC184-derived cloning vectors containing the multiple cloning site and lacZ?? reporter gene of pUC8/9 and pUC18/19 plasmids, Gene, vol.68, issue.1, pp.159-162, 1988. ,
DOI : 10.1016/0378-1119(88)90608-7
Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I1-I2 regulatory elements, Nucleic Acids Research, vol.25, issue.6, pp.1203-1210, 1997. ,
DOI : 10.1093/nar/25.6.1203
Mutants (ompA) Affecting a Major Outer Membrane Protein of Escherichia coli K12, European Journal of Biochemistry, vol.40, issue.2, pp.491-498, 1978. ,
DOI : 10.1016/0304-4157(75)90013-1