Mechanisms of, and barriers to, horizontal gene transfer between bacteria, Nat Rev Microbiol, vol.3, pp.711-732, 2005. ,
Mobile genetic elements: the agents of open source evolution, Nat Rev Microbiol, vol.3, pp.722-754, 2005. ,
Integrative and conjugative elements: mosaic mobile genetic elements enabling dynamic lateral gene flow, Nat Rev Microbiol, vol.8, pp.552-63, 2010. ,
Conjugative and mobilizable genomic islands in bacteria: evolution and diversity, FEMS Microbiol Rev, vol.38, pp.720-60, 2014. ,
URL : https://hal.archives-ouvertes.fr/hal-01474898
Conjugative transposons: the tip of the iceberg, Mol Microbiol, vol.46, pp.601-611, 2002. ,
URL : https://hal.archives-ouvertes.fr/hal-01659089
Tn 916 -like genetic elements: a diverse group of modular mobile elements conferring antibiotic resistance, FEMS Microbiol Rev, vol.35, pp.856-71, 2011. ,
The repertoire of ICE in prokaryotes underscores the Unity, diversity, and ubiquity of conjugation, PLoS Genet, vol.7, 2011. ,
URL : https://hal.archives-ouvertes.fr/pasteur-00647077
Emergence of CC17 Enterococcus faecium: from commensal to hospital-adapted pathogen, FEMS Immunol Med Microbiol, vol.52, pp.297-308, 2008. ,
Emergence of a vanG -carrying and multidrug resistant ICE in zoonotic pathogen Streptococccus suis, Vet Microbiol, vol.222, pp.109-122, 2018. ,
, Antimicrobial Resistance in Streptococcus spp. Microbiol Spectr, vol.6, 2018.
Staphylococci on ICE: overlooked agents of horizontal gene transfer, Mob Genet Elem, vol.7, pp.1-10, 2017. ,
Genetic organisation, mobility and predicted functions of genes on integrated, mobile genetic elements in sequenced strains of Clostridium difficile ,
, PLoS One, vol.6, 2011.
Antibiotic resistance plasmids and mobile genetic elements of Clostridium perfringens, Plasmid, 2018. ,
Variation on a theme; an overview of the Tn916/Tn1545 family of mobile genetic elements in the oral and nasopharyngeal streptococci, Front Microbiol, vol.5, 2014. ,
New insights into the classification and integration specificity of Streptococcus integrative conjugative elements through extensive genome exploration, Front Microbiol, vol.6, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-01262284
Macrolide Resistance in Streptococcus pneumoniae, Front Cell Infect Microbiol, vol.6, 2016. ,
Conjugative DNA metabolism in gram-negative bacteria, FEMS Microbiol Rev, vol.34, pp.18-40, 2010. ,
Type IV secretion in gram-negative and gram-positive bacteria, pp.93-113, 2017. ,
Towards an integrated model of bacterial conjugation, FEMS Microbiol Rev, vol.39, pp.81-95, 2014. ,
Site-specific recombinase and integrase activities of a conjugative relaxase in recipient cells, Proc Natl Acad Sci, vol.102, pp.16385-90, 2005. ,
Breaking and joining single-stranded DNA: the HUH endonuclease superfamily, Nat Rev Microbiol, vol.11, pp.525-563, 2013. ,
URL : https://hal.archives-ouvertes.fr/hal-00944976
Discovery of a new family of relaxases in Firmicutes bacteria, PLoS Genet, vol.13, 2017. ,
The diversity of conjugative relaxases and its application in plasmid classification, FEMS Microbiol Rev, vol.33, pp.657-87, 2009. ,
Conserved sequence motifs in the initiator proteins for rolling circle DNA replication encoded by diverse replicons from eubacteria, eucaryotes and archaebacteria, Nucleic Acids Res, vol.20, pp.3279-85, 1992. ,
A novel relaxase homologue is involved in chromosomal DNA processing for type IV secretion in Neisseria gonorrhoeae, Mol Microbiol, vol.66, pp.930-977, 2007. ,
Catalytic domain of plasmid pAD1 relaxase TraX defines a group of relaxases related to restriction endonucleases, Proc Natl Acad Sci, vol.110, pp.13606-13617, 2013. ,
TcpM: a novel relaxase that mediates transfer of large conjugative plasmids from Clostridium perfringens: the novel relaxase TcpM, Mol Microbiol, vol.99, pp.884-96, 2016. ,
The Bacillus subtilis conjugative transposon ICEBs1 mobilizes plasmids lacking dedicated mobilization functions, J Bacteriol, vol.194, pp.3165-72, 2012. ,
A glimpse into the world of integrative and Mobilizable elements in streptococci reveals an unexpected diversity and novel families of mobilization proteins, Front Microbiol, vol.8, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01580789
Host specificity in the diversity and transfer of lsa resistance genes in group B Streptococcus, J Antimicrob Chemother, p.277, 2015. ,
The integrase of the conjugative transposon Tn916 directs strand-and sequence-specific cleavage of the origin of conjugal transfer, oriT, by the endonuclease Orf20, J Bacteriol, vol.188, pp.2207-2220, 2006. ,
Autonomous replication of the conjugative transposon Tn916. Zhulin IB, editor, J Bacteriol, vol.198, pp.3355-66, 2016. ,
Identification of the origin of transfer (oriT) and DNA relaxase required for conjugation of the integrative and conjugative element ICEBs1 of Bacillus subtilis, J Bacteriol, vol.189, pp.7254-61, 2007. ,
Structures of replication initiation proteins from staphylococcal antibiotic resistance plasmids reveal protein asymmetry and flexibility are necessary for replication, Nucleic Acids Res, vol.44, pp.2417-2445, 2016. ,
The mechanism and control of DNA transfer by the conjugative relaxase of resistance plasmid pCU1, Nucleic Acids Res, vol.38, pp.5929-5972, 2010. ,
Structural insights into single-stranded DNA binding and cleavage by F factor TraI, Structure, vol.11, pp.1369-79, 2003. ,
Cryo-EM structure of a Relaxase reveals the molecular basis of DNA unwinding during bacterial conjugation, Cell, vol.169, pp.708-721, 2017. ,
Molecular basis of antibiotic multiresistance transfer in Staphylococcus aureus, Proc Natl Acad Sci, vol.110, pp.2804-2813, 2013. ,
Structural basis of a histidine-DNA nicking/joining mechanism for gene transfer and promiscuous spread of antibiotic resistance, Proc Natl Acad Sci, vol.114, pp.6526-6561, 2017. ,
Characterization of a new CAMP factor carried by an integrative and conjugative element in Streptococcus agalactiae and spreading in streptococci. Biswas I, editor, PLoS One, vol.7, 2012. ,
URL : https://hal.archives-ouvertes.fr/hal-01637786
The VanE operon in Enterococcus faecalis N00-410 is found on a putative integrative and conjugative element, Tn6202, J Antimicrob Chemother, vol.68, pp.294-303, 2013. ,
Functional analysis of a bacitracin resistance determinant located on ICE Cp1 , a novel Tn 916 -like element from a conjugative plasmid in Clostridium perfringens, Antimicrob Agents Chemother, vol.59, pp.6855-65, 2015. ,
Molecular description and industrial potential of Tn 6098 conjugative transfer conferring alpha-Galactoside metabolism in Lactococcus lactis, Appl Environ Microbiol, vol.77, pp.555-63, 2011. ,
Characterization of the novel nisin-sucrose conjugative transposon Tn5276 and its insertion in Lactococcus lactis, J Bacteriol, vol.174, pp.1280-1287, 1992. ,
Transposasemediated excision, conjugative transfer, and diversity of ICE 6013 elements in Staphylococcus aureus, J Bacteriol, vol.199, 2017. ,
Staphylococcal plasmids and their replication, Annu Rev Microbiol, vol.43, pp.537-65, 1989. ,
The Phyre2 web portal for protein modeling, prediction and analysis, Nat Protoc, vol.10, pp.845-58, 2015. ,
I-TASSER: a unified platform for automated protein structure and function prediction, Nat Protoc, vol.5, pp.725-763, 2010. ,
In vitro studies of the initation of staphylococcal plasmid replication, J Biol Chem, vol.265, pp.5519-5549, 1990. ,
Differential regulation of two closely related integrative and conjugative elements from Streptococcus thermophilus, BMC Microbiol, vol.11, p.238, 2011. ,
URL : https://hal.archives-ouvertes.fr/hal-01659072
Conjugative transfer of the integrative conjugative elements ICESt1 and ICESt3 from Streptococcus thermophilus, J Bacteriol, vol.191, pp.2764-75, 2009. ,
URL : https://hal.archives-ouvertes.fr/hal-01659303
Analysis of Streptococcus agalactiae pan-genome for prevalence, diversity and functionality of integrative and conjugative or mobilizable elements integrated in the tRNALys CTT gene, Mol Gen Genomics, vol.290, pp.1727-1767, 2015. ,
Using circular dichroism spectra to estimate protein secondary structure, Nat Protoc, vol.1, pp.2876-90, 2007. ,
The MobM relaxase domain of plasmid pMV158: thermal stability and activity upon Mn2+ and specific DNA binding, Nucleic Acids Res, vol.39, pp.4315-4344, 2011. ,
TraA and its N-terminal relaxase domain of the gram-positive plasmid pIP501 show specific oriT binding and behave as dimers in solution, Biochem J, vol.387, pp.401-410, 2005. ,
Recognition and processing of the origin of transfer DNA by relaxase TrwC, Nat Struct Biol, vol.10, pp.1002-1012, 2003. ,
The structure of the minimal Relaxase domain of MobA at 2.1 Å resolution, J Mol Biol, vol.366, pp.165-78, 2007. ,
The replication initiator protein of plasmid pT181 has sequence-specific endonuclease and topoisomerase-like activities, Proc Natl Acad Sci, vol.82, pp.6845-6854, 1985. ,
Autonomous plasmid-like replication of a conjugative transposon, Mol Microbiol, vol.75, pp.268-79, 2010. ,
The mobilization protein, MobM, of the streptococcal plasmid pMV158 specifically cleaves supercoiled DNA at the plasmid oriT, J Mol Biol, vol.266, pp.688-702, 1997. ,
Functional domains in protein TrwC of plasmid R388: dissected DNA strand transferase and DNA helicase activities reconstitute protein function, J Mol Biol, vol.264, pp.56-67, 1996. ,
DNA processing reactions in bacterial conjugation, Annu Rev Biochem, vol.64, pp.141-69, 1995. ,
Effect of divalent ions on the minimal relaxase domain of MobA, Arch Biochem Biophys, vol.488, pp.42-49, 2009. ,
Roles of active site residues and the HUH motif of the F plasmid TraI relaxase, J Biol Chem, vol.282, pp.33707-33720, 2007. ,
Multiple sequence alignment with hierarchical clustering, Nucleic Acids Res, vol.16, pp.10881-90, 1988. ,
New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0, Syst Biol, vol.59, pp.307-328, 2010. ,
URL : https://hal.archives-ouvertes.fr/lirmm-00511784
The rapid generation of mutation data matrices from protein sequences, Bioinformatics, vol.8, pp.275-82, 1992. ,
CDART: protein homology by domain architecture, Genome Res, vol.12, pp.1619-1642, 2002. ,
CD-HIT suite: a web server for clustering and comparing biological sequences, Bioinformatics, vol.26, pp.680-682, 2010. ,
MUSCLE: a multiple sequence alignment method with reduced time and space complexity, BMC Bioinf, vol.5, p.113, 2004. ,
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice, Nucleic Acids Res, vol.22, issue.22, pp.4673-80, 1994. ,
A Sequence Logo Generator, Genome Res, vol.14, pp.1188-90, 2004. ,
New thermosensitive plasmid for gram-positive bacteria, J Bacteriol, vol.174, pp.5633-5641, 1992. ,
High-efficiency gene inactivation and replacement system for gram-positive bacteria, J Bacteriol, vol.175, pp.3628-3663, 1993. ,
Expression of Staphylococcus aureus clumping factor a in Lactococcus lactis subsp. cremoris using a new shuttle vector, Infect Immun, vol.68, pp.3516-3538, 2000. ,
Diversity of integrative and conjugative elements of Streptococcus salivarius and their intra-and interspecies transfer, Appl Environ Microbiol, vol.83, pp.337-354, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01543490
The PSIPRED protein structure prediction server, Bioinformatics, vol.16, pp.404-409, 2000. ,
Combining prediction of secondary structure and solvent accessibility in proteins, Proteins, vol.59, pp.467-75, 2005. ,
JPred4: a protein secondary structure prediction server, Nucleic Acids Res, vol.43, pp.389-94, 2015. ,
PredictProtein--an open resource for online prediction of protein structural and functional features, Nucleic Acids Res, vol.42, pp.337-380, 2014. ,
APSSP2: A combination method for protein secondary structure prediction based on neural network and example based learning ,
, Mobile DNA, vol.10, p.18, 2019.
Estimation of protein secondary structure from circular dichroism spectra: comparison of CONTIN, SELCON, and CDSSTR methods with an expanded reference set, Anal Biochem, vol.287, pp.252-60, 2000. ,
DICHROWEB, an online server for protein secondary structure analyses from circular dichroism spectroscopic data, Nucleic Acids Res, vol.32, pp.668-73, 2004. ,
Quantitative analysis of protein far UV circular dichroism spectra by neural networks, Protein Eng Des Sel, vol.5, pp.191-196, 1992. ,
, Comparative Protein Structure Modeling Using MODELLER: Comparative Protein Structure Modeling Using Modeller, 2016.
Statistical potential for assessment and prediction of protein structures, Protein Sci, vol.15, pp.2507-2531, 2006. ,
Scalable molecular dynamics with NAMD, J Comput Chem, vol.26, pp.1781-802, 2005. ,
CHARMM36 all-atom additive protein force field: validation based on comparison to NMR data, J Comput Chem, vol.34, pp.2135-2180, 2013. ,
Evolution of genomic islands by deletion and tandem accretion by site-specific recombination: ICESt1-related elements from Streptococcus thermophilus, Microbiology, vol.150, pp.759-74, 2004. ,
URL : https://hal.archives-ouvertes.fr/hal-01659488
Complete nucleotide sequence of pSTK1, a cryptic plasmid from Bacillus stearothermophilus TK015, Biotechnol Lett, vol.15, pp.1013-1019, 1993. ,