Examining bacterial species under the specter of gene transfer and exchange, Proceedings of the National Academy of Sciences, vol.102, issue.Supplement 1, pp.6595-6599, 2005. ,
DOI : 10.1073/pnas.0502035102
URL : https://hal.archives-ouvertes.fr/hal-00427799
Horizontal gene transfer and the origin of species: lessons from bacteria, Trends in Microbiology, vol.8, issue.3, pp.128-133, 2000. ,
DOI : 10.1016/S0966-842X(00)01703-0
Prokaryotic Evolution in Light of Gene Transfer, Molecular Biology and Evolution, vol.19, issue.12, pp.2226-2238, 2002. ,
DOI : 10.1093/oxfordjournals.molbev.a004046
Conjugative Plasmid Transfer in Gram-Positive Bacteria, Microbiology and Molecular Biology Reviews, vol.67, issue.2, pp.277-301, 2003. ,
DOI : 10.1128/MMBR.67.2.277-301.2003
Biological Diversity of Prokaryotic Type IV Secretion Systems, Microbiology and Molecular Biology Reviews, vol.73, issue.4, pp.775-808, 2009. ,
DOI : 10.1128/MMBR.00023-09
Mobility of Plasmids, Microbiology and Molecular Biology Reviews, vol.74, issue.3, pp.434-452, 2010. ,
DOI : 10.1128/MMBR.00020-10
URL : https://hal.archives-ouvertes.fr/pasteur-01374958
Conjugative DNA metabolism in Gram-negative bacteria, FEMS Microbiology Reviews, vol.34, issue.1, pp.18-40, 2010. ,
DOI : 10.1111/j.1574-6976.2009.00195.x
The Repertoire of ICE in Prokaryotes Underscores the Unity, Diversity, and Ubiquity of Conjugation, PLoS Genetics, vol.22, issue.8, p.1002222, 2011. ,
DOI : 10.1371/journal.pgen.1002222.s002
URL : https://hal.archives-ouvertes.fr/pasteur-00647077
The structural biology of type IV secretion systems, Nature Reviews Microbiology, vol.179, issue.10, pp.703-714, 2009. ,
DOI : 10.1038/nrmicro2218
TcpA, an FtsK/SpoIIIE Homolog, Is Essential for Transfer of the Conjugative Plasmid pCW3 in Clostridium perfringens, Journal of Bacteriology, vol.189, issue.21, pp.7782-7790, 2007. ,
DOI : 10.1128/JB.00783-07
Evolution of Conjugation and Type IV Secretion Systems, Molecular Biology and Evolution, vol.30, issue.2, pp.315-331, 2013. ,
DOI : 10.1093/molbev/mss221
URL : https://hal.archives-ouvertes.fr/pasteur-01374951
TrwB, the coupling protein involved in DNA transport during bacterial conjugation, is a DNA-dependent ATPase, Proceedings of the National Academy of Sciences, vol.102, issue.23, pp.8156-8161, 2005. ,
DOI : 10.1073/pnas.0503402102
Type IV secretion: the Agrobacterium VirB/D4 and related conjugation systems, Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, vol.1694, issue.1-3, pp.1694-219, 2004. ,
DOI : 10.1016/j.bbamcr.2004.02.013
Type IVB Secretion Systems of Legionella and Other Gram-Negative Bacteria, Frontiers in Microbiology, vol.2, p.136, 2011. ,
DOI : 10.3389/fmicb.2011.00136
Conjugative DNA transfer into human cells by the VirB/VirD4 type IV secretion system of the bacterial pathogen Bartonella henselae, Proceedings of the National Academy of Sciences, vol.108, issue.35, pp.14643-14648, 2011. ,
DOI : 10.1073/pnas.1019074108
Natural transformation competence in Helicobacter pylori is mediated by the basic components of a type IV secretion system, Molecular Microbiology, vol.63, issue.2, pp.379-391, 2001. ,
DOI : 10.1046/j.1365-2958.2001.02502.x
secretes chromosomal DNA via a novel type IV secretion system, Molecular Microbiology, vol.163, issue.Suppl. 1, pp.1704-1721, 2005. ,
DOI : 10.1111/j.1365-2958.2005.04521.x
B operon, Nucleic Acids Research, vol.16, issue.10, pp.4621-4636, 1988. ,
DOI : 10.1093/nar/16.10.4621
Structure of a bacterial type IV secretion core complex at subnanometre resolution, The EMBO Journal, vol.58, issue.8, pp.1195-1204, 2013. ,
DOI : 10.1186/1471-2105-9-40
The expanding bacterial type IV secretion lexicon, Research in Microbiology, vol.164, issue.6, pp.620-639, 2013. ,
DOI : 10.1016/j.resmic.2013.03.012
Molecular characterization of the Agrobacterium tumefaciens DNA transfer protein VirB6, Microbiology, vol.151, issue.11, pp.3483-3492, 2005. ,
DOI : 10.1099/mic.0.28337-0
Agrobacterium tumefaciens Type IV Secretion Protein VirB3 Is an Inner Membrane Protein and Requires VirB4, VirB7, and VirB8 for Stabilization, Journal of Bacteriology, vol.192, issue.11, pp.2830-2838, 2010. ,
DOI : 10.1128/JB.01331-09
Evidence for VirB4-Mediated Dislocation of Membrane-Integrated VirB2 Pilin during Biogenesis of the Agrobacterium VirB/VirD4 Type IV Secretion System, Journal of Bacteriology, vol.192, issue.19, pp.4923-4934, 2010. ,
DOI : 10.1128/JB.00557-10
Genetic complementation analysis of the Agrobacterium tumefaciens virB operon: virB2 through virB11 are essential virulence genes., Journal of Bacteriology, vol.176, issue.12, pp.3646-3660, 1994. ,
DOI : 10.1128/jb.176.12.3646-3660.1994
Functional and Mutational Analysis of P19, a DNA Transfer Protein with Muramidase Activity, Journal of Bacteriology, vol.183, issue.10, pp.3176-3183, 2001. ,
DOI : 10.1128/JB.183.10.3176-3183.2001
Phylogenomics Reveals a Diverse Rickettsiales Type IV Secretion System, Infection and Immunity, vol.78, issue.5, pp.1809-1823, 2010. ,
DOI : 10.1128/IAI.01384-09
Novel Type IV Secretion System Involved in Propagation of Genomic Islands, Journal of Bacteriology, vol.189, issue.3, pp.761-771, 2007. ,
DOI : 10.1128/JB.01327-06
The transfer region of IncI1 plasmid R64: similarities between R64 tra and Legionella icm/dot genes, Molecular Microbiology, vol.181, issue.6, pp.1348-1359, 2000. ,
DOI : 10.1046/j.1365-2958.2000.01769.x
The diversity of conjugative relaxases and its application in plasmid classification, FEMS Microbiology Reviews, vol.33, issue.3, pp.657-687, 2009. ,
DOI : 10.1111/j.1574-6976.2009.00168.x
Ultra-fast sequence clustering from similarity networks with SiLiX, BMC Bioinformatics, vol.12, issue.1, pp.10-1186, 2011. ,
DOI : 10.1186/1471-2105-8-396
URL : https://hal.archives-ouvertes.fr/hal-00698365
MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucleic Acids Research, vol.32, issue.5, pp.1792-1797, 2004. ,
DOI : 10.1093/nar/gkh340
New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0, Syst. Biol, vol.59, pp.307-321, 2010. ,
URL : https://hal.archives-ouvertes.fr/lirmm-00511784
Accelerated Profile HMM Searches, PLoS Computational Biology, vol.21, issue.10, p.1002195, 2011. ,
DOI : 10.1371/journal.pcbi.1002195.g006
Protein homology detection by HMM-HMM comparison, Bioinformatics, vol.21, issue.7, pp.951-960, 2005. ,
DOI : 10.1093/bioinformatics/bti125
The Pfam protein families database, Nucleic Acids Research, vol.36, issue.Database, pp.281-288, 2008. ,
DOI : 10.1093/nar/gkm960
URL : https://hal.archives-ouvertes.fr/hal-01294685
An Anomalous Type IV Secretion System in Rickettsia Is Evolutionarily Conserved, PLoS ONE, vol.1774, issue.3, p.4833, 2009. ,
DOI : 10.1371/journal.pone.0004833.s011
A Type IV-Secretion-Like System Is Required for Conjugative DNA Transport of Broad-Host-Range Plasmid pIP501 in Gram-Positive Bacteria, Journal of Bacteriology, vol.189, issue.6, pp.2487-2496, 2007. ,
DOI : 10.1128/JB.01491-06
F conjugation: Back to the beginning, Plasmid, vol.70, issue.1, pp.18-32, 2013. ,
DOI : 10.1016/j.plasmid.2013.03.010
Evidence that F-plasmid proteins TraV, TraK and TraB assemble into an envelope-spanning structure in Escherichia coli, Molecular Microbiology, vol.274, issue.3, pp.757-766, 2001. ,
DOI : 10.1046/j.1365-2958.2001.02667.x
Structure of the outer membrane complex of a type IV secretion system, Nature, vol.58, issue.7276, pp.1011-1015, 2009. ,
DOI : 10.1038/nature08588
URL : https://hal.archives-ouvertes.fr/cea-00909632
Genetic analysis of the role of the transfer gene, traN, of the F and R100?1 plasmids in mating pair stabilization during conjugation, J. Bacteriol, vol.180, pp.4036-4043, 1998. ,
The mating pair stabilization protein, TraN, of the F plasmid is an outer-membrane protein with two regions that are important for its function in conjugation, Microbiology, vol.151, issue.11, pp.3527-3540, 2005. ,
DOI : 10.1099/mic.0.28025-0
Bacterial conjugation mediated by plasmid RP4: RSF1010 mobilization, donor-specific phage propagation, and pilus production require the same Tra2 core components of a proposed DNA transport complex., Journal of Bacteriology, vol.177, issue.16, pp.4779-4791, 1995. ,
DOI : 10.1128/jb.177.16.4779-4791.1995
F factor conjugation is a true type IV secretion system, FEMS Microbiology Letters, vol.224, issue.1, pp.1-15, 2003. ,
DOI : 10.1016/S0378-1097(03)00430-0
F Plasmid TraF and TraH Are Components of an Outer Membrane Complex Involved in Conjugation, Journal of Bacteriology, vol.192, issue.6, pp.1730-1734, 2010. ,
DOI : 10.1128/JB.00726-09
Structure and function of the F factor and mechanisms of conjugationEscherichia coli and Salmonella: cellular and molecular biology, pp.2377-2401, 1996. ,
Construction and characterization of derivatives carrying insertion mutations in F plasmid transfer region genes, trbA, artA, traQ, and trbB, Plasmid, vol.26, issue.1, pp.40-54, 1991. ,
DOI : 10.1016/0147-619X(91)90035-U
Comparison of proteins involved in pilus synthesis and mating pair stabilization from the related plasmids F and R100?1: insights into the mechanism of conjugation, J. Bacteriol, vol.181, pp.5149-5159, 1999. ,
Characterization of traX, the F plasmid locus required for acetylation of F-pilin subunits., Journal of Bacteriology, vol.177, issue.11, pp.2957-2964, 1995. ,
DOI : 10.1128/jb.177.11.2957-2964.1995
The Escherichia coli K-12 F plasmid gene traX is required for acetylation of F pilin., Journal of Bacteriology, vol.175, issue.5, pp.1375-1383, 1993. ,
DOI : 10.1128/jb.175.5.1375-1383.1993
Interaction between the F plasmid TraA (F-pilin) and TraQ proteins, Molecular Microbiology, vol.171, issue.4, pp.780-791, 1999. ,
DOI : 10.1073/pnas.93.19.10315
Identification of the core transmembrane complex of the Legionella Dot/Icm type IV secretion system, Molecular Microbiology, vol.175, issue.5, pp.1278-1291, 2006. ,
DOI : 10.1128/IAI.73.11.7578-7587.2005
Complete genome sequence of the incompatibility group I1 plasmid R64, Plasmid, vol.64, issue.2, pp.92-103, 2010. ,
DOI : 10.1016/j.plasmid.2010.05.005
Sequence and functional analyses of Haemophilus spp. genomic islands, Genome Biology, vol.8, issue.11, p.237, 2007. ,
DOI : 10.1186/gb-2007-8-11-r237
Structure, Diversity, and Mobility of the Salmonella Pathogenicity Island 7 Family of Integrative and Conjugative Elements within Enterobacteriaceae, Journal of Bacteriology, vol.194, issue.6, pp.1494-1504, 2012. ,
DOI : 10.1128/JB.06403-11
Transfer Region of a Bacteroides Conjugative Transposon Contains Regulatory as Well as Structural Genes, Plasmid, vol.46, issue.3, pp.202-209, 2001. ,
DOI : 10.1006/plas.2001.1545
The Bacteroides fragilis Pathogenicity Island Is Contained in a Putative Novel Conjugative Transposon, Journal of Bacteriology, vol.186, issue.18, pp.6077-6092, 2004. ,
DOI : 10.1128/JB.186.18.6077-6092.2004
Transfer Region of a Bacteroides Conjugative Transposon, CTnDOT, Plasmid, vol.45, issue.1, pp.41-51, 2001. ,
DOI : 10.1006/plas.2000.1495
Transfer of a genetic marker from a megaplasmid of Anabaena sp. strain PCC 7120 to a megaplasmid of a different Anabaena strain., Journal of Bacteriology, vol.176, issue.4, pp.1093-1098, 1994. ,
DOI : 10.1128/jb.176.4.1093-1098.1994
A modular master on the move: the Tn916 family of mobile genetic elements, Trends in Microbiology, vol.17, issue.6, pp.251-258, 2009. ,
DOI : 10.1016/j.tim.2009.03.002
Genetic organization of the bacterial conjugative transposon Tn916., Journal of Bacteriology, vol.170, issue.1, pp.245-249, 1988. ,
DOI : 10.1128/jb.170.1.245-249.1988
The Integrase of the Conjugative Transposon Tn916 Directs Strand- and Sequence-Specific Cleavage of the Origin of Conjugal Transfer, oriT, by the Endonuclease Orf20, Journal of Bacteriology, vol.188, issue.6, pp.2207-2213, 2006. ,
DOI : 10.1128/JB.188.6.2207-2213.2006
The conjugation protein TcpC from Clostridium perfringens is structurally related to the type IV secretion system protein VirB8 from Gram-negative bacteria, Molecular Microbiology, vol.12, issue.2, pp.275-288, 2012. ,
DOI : 10.1111/j.1365-2958.2011.07930.x
Functional Characterization and Localization of the TcpH Conjugation Protein from Clostridium perfringens, Journal of Bacteriology, vol.190, issue.14, pp.5075-5086, 2008. ,
DOI : 10.1128/JB.00386-08
The peptidoglycan hydrolase TcpG is required for efficient conjugative transfer of pCW3 in Clostridium perfringens, Plasmid, vol.67, issue.2, pp.139-147, 2012. ,
DOI : 10.1016/j.plasmid.2011.12.016
The Orf18 Gene Product from Conjugative Transposon Tn916 Is an ArdA Antirestriction Protein that Inhibits Type I DNA Restriction???Modification Systems, Journal of Molecular Biology, vol.383, issue.5, pp.970-981, 2008. ,
DOI : 10.1016/j.jmb.2008.06.005
Tn6198, a novel transposon containing the trimethoprim resistance gene dfrG embedded into a Tn916 element in Listeria monocytogenes, Journal of Antimicrobial Chemotherapy, vol.68, issue.5, pp.986-991, 2013. ,
DOI : 10.1093/jac/dks531
Diversity of the tetracycline resistance gene tet(M) and identification of Tn916- and Tn5801-like (Tn6014) transposons in Staphylococcus aureus from humans and animals, Journal of Antimicrobial Chemotherapy, vol.64, issue.3, pp.490-500, 2009. ,
DOI : 10.1093/jac/dkp214
DNA sequence and units of transcription of the conjugative transfer gene complex (trs) of Staphylococcus aureus plasmid pGO1., Journal of Bacteriology, vol.175, issue.14, pp.4436-4447, 1993. ,
DOI : 10.1128/jb.175.14.4436-4447.1993
Complete nucleotide sequence of pGO1, the prototype conjugative plasmid from the staphylococci, Plasmid, vol.62, issue.1, pp.35-38, 2009. ,
DOI : 10.1016/j.plasmid.2009.03.001
Enterococcus faecalis PcfC, a Spatially Localized Substrate Receptor for Type IV Secretion of the pCF10 Transfer Intermediate, Journal of Bacteriology, vol.190, issue.10, pp.3632-3645, 2008. ,
DOI : 10.1128/JB.01999-07
Enterococcus faecalis PrgJ, a VirB4-Like ATPase, Mediates pCF10 Conjugative Transfer through Substrate Binding, Journal of Bacteriology, vol.194, issue.15, pp.4041-4051, 2012. ,
DOI : 10.1128/JB.00648-12
Genetic Organisation, Mobility and Predicted Functions of Genes on Integrated, Mobile Genetic Elements in Sequenced Strains of Clostridium difficile, PLoS ONE, vol.44, issue.8, p.23014, 2011. ,
DOI : 10.1371/journal.pone.0023014.s004
A Novel Integrative Conjugative Element Mediates Genetic Transfer from Group G Streptococcus to Other ??-Hemolytic Streptococci, Journal of Bacteriology, vol.191, issue.7, pp.2257-2265, 2009. ,
DOI : 10.1128/JB.01624-08
Complete genome sequence and comparative genomic analysis of an emerging human pathogen, serotype V Streptococcus agalactiae, Proceedings of the National Academy of Sciences, vol.99, issue.19, pp.12391-12396, 2002. ,
DOI : 10.1073/pnas.182380799
The 2.5 A Structure of the Enterococcus Conjugation Protein TraM resembles VirB8 Type IV Secretion Proteins, Journal of Biological Chemistry, vol.288, issue.3, pp.2018-2028, 2013. ,
DOI : 10.1074/jbc.M112.428847
TraG Encoded by the pIP501 Type IV Secretion System Is a Two-Domain Peptidoglycan-Degrading Enzyme Essential for Conjugative Transfer, Journal of Bacteriology, vol.195, issue.19, pp.4436-4444, 2013. ,
DOI : 10.1128/JB.02263-12
PrgK, a Multidomain Peptidoglycan Hydrolase, Is Essential for Conjugative Transfer of the Pheromone-Responsive Plasmid pCF10, Journal of Bacteriology, vol.196, issue.3, pp.527-539, 2013. ,
DOI : 10.1128/JB.00950-13
The peptide pheromone-inducible conjugation system of Enterococcus faecalis plasmid pCF10: cell-cell signalling, gene transfer, complexity and evolution, Philosophical Transactions of the Royal Society B: Biological Sciences, vol.172, issue.5, pp.1185-1193, 2007. ,
DOI : 10.1128/JB.186.8.2393-2401.2004
ATPase Activity and Oligomeric State of TrwK, the VirB4 Homologue of the Plasmid R388 Type IV Secretion System, Journal of Bacteriology, vol.190, issue.15, pp.5472-5479, 2008. ,
DOI : 10.1128/JB.00321-08
Mechanism and structure of the bacterial type IV secretion systems, Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, vol.1843, issue.8, 2014. ,
DOI : 10.1016/j.bbamcr.2013.12.019
ExcA proteins of IncI1 plasmid R64 and IncI?? plasmid R621a recognize different segments of their cognate TraY proteins in entry exclusion, Plasmid, vol.69, issue.2, pp.138-145, 2013. ,
DOI : 10.1016/j.plasmid.2012.11.004
Why is entry exclusion an essential feature of conjugative plasmids?, Plasmid, vol.60, issue.1, pp.1-18, 2008. ,
DOI : 10.1016/j.plasmid.2008.03.002
VirB8: a conserved type IV secretion system assembly factor and drug targetThis paper is one of a selection of papers published in this Special Issue, entitled CSBMCB ??? Membrane Proteins in Health and Disease., Biochemistry and Cell Biology, vol.84, issue.6, pp.890-899, 2006. ,
DOI : 10.1139/o06-148
PrgK, a Multidomain Peptidoglycan Hydrolase, Is Essential for Conjugative Transfer of the Pheromone-Responsive Plasmid pCF10, Journal of Bacteriology, vol.196, issue.3, pp.527-539, 2014. ,
DOI : 10.1128/JB.00950-13
The Putative Coupling Protein TcpA Interacts with Other pCW3-Encoded Proteins To Form an Essential Part of the Conjugation Complex, Journal of Bacteriology, vol.191, issue.9, pp.2926-2933, 2009. ,
DOI : 10.1128/JB.00032-09
Conjugal type IV macromolecular transfer systems of Gram-negative bacteria: organismal distribution, structural constraints and evolutionary conclusions, Microbiology, vol.147, issue.12, pp.3201-3214, 2001. ,
DOI : 10.1099/00221287-147-12-3201
Phylogeny of genes for secretion NTPases: Identification of the widespread tadA subfamily and development of a diagnostic key for gene classification, Proceedings of the National Academy of Sciences, vol.98, issue.5, pp.2503-2508, 2001. ,
DOI : 10.1073/pnas.051436598
The plasmid R64 thin pilus identified as a type IV pilus., Journal of Bacteriology, vol.179, issue.11, pp.3594-3603, 1997. ,
DOI : 10.1128/jb.179.11.3594-3603.1997
Type-IVC Secretion System: A Novel Subclass of Type IV Secretion System (T4SS) Common Existing in Gram-Positive Genus Streptococcus, PLoS ONE, vol.7, issue.10, p.46390, 2012. ,
DOI : 10.1371/journal.pone.0046390.s005
SecReT4: a web-based bacterial type IV secretion system resource, Nucleic Acids Research, vol.41, issue.D1, pp.660-665, 2013. ,
DOI : 10.1093/nar/gks1248
AtlasT4SS: A curated database for type IV secretion systems, BMC Microbiology, vol.12, issue.1, p.172, 2012. ,
DOI : 10.1016/S0960-9822(01)00069-0