New Insights into the Classification and Integration Specificity of Streptococcus Integrative Conjugative Elements through Extensive Genome Exploration
Identifieur interne : 000091 ( Main/Exploration ); précédent : 000090; suivant : 000092New Insights into the Classification and Integration Specificity of Streptococcus Integrative Conjugative Elements through Extensive Genome Exploration
Auteurs : Chloé Ambroset [France] ; Charles Coluzzi [France] ; Gérard Guédon [France] ; Marie-Dominique Devignes [France] ; Valentin Loux [France] ; Thomas Lacroix [France] ; Sophie Payot [France] ; Nathalie Leblond-Bourget [France]Source :
English descriptors
Abstract
Recent genome analyses suggest that integrative and conjugative elements (ICEs) are widespread in bacterial genomes and therefore play an essential role in horizontal transfer. However, only a few of these elements are precisely characterized and correctly delineated within sequenced bacterial genomes. Even though previous analysis showed the presence of ICEs in some species of Streptococci, the global prevalence and diversity of ICEs was not analyzed in this genus. In this study, we searched for ICEs in the completely sequenced genomes of 124 strains belonging to 27 streptococcal species. These exhaustive analyses revealed 105 putative ICEs and 26 slightly decayed elements whose limits were assessed and whose insertion site was identified. These ICEs were grouped in seven distinct unrelated or distantly related families, according to their conjugation modules. Integration of these streptococcal ICEs is catalyzed either by a site-specific tyrosine integrase, a low-specificity tyrosine integrase, a site-specific single serine integrase, a triplet of site-specific serine integrases or a DDE transposase. Analysis of their integration site led to the detection of 18 target-genes for streptococcal ICE insertion including eight that had not been identified previously (ftsK, guaA, lysS, mutT, rpmG, rpsI, traG, and ebfC). It also suggests that all specificities have evolved to minimize the impact of the insertion on the host. This overall analysis of streptococcal ICEs emphasizes their prevalence and diversity and demonstrates that exchanges or acquisitions of conjugation and recombination modules are frequent.
Url:
DOI: 10.3389/fmicb.2015.01483
Affiliations:
- France
- Grand Est, Languedoc-Roussillon, Lorraine (région), Occitanie (région administrative)
- Metz, Montpellier, Nancy
- PRES Sud de France, Université Montpellier 1, Université de Lorraine
Links toward previous steps (curation, corpus...)
- to stream Hal, to step Corpus: 003563
- to stream Hal, to step Curation: 003563
- to stream Hal, to step Checkpoint: 000093
- to stream Main, to step Merge: 000091
- to stream Main, to step Curation: 000091
Le document en format XML
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CS 25233 - 54052 Nancy cedex</addrLine><country key="FR"></country></address><ref type="url">http://www.univ-lorraine.fr/</ref></desc></org></tutelle><tutelle name="UMR7503" active="#struct-441569" type="indirect"><org type="institution" xml:id="struct-441569" status="VALID"><idno type="ISNI">0000000122597504</idno><idno type="IdRef">02636817X</idno><orgName>Centre National de la Recherche Scientifique</orgName><orgName type="acronym">CNRS</orgName><date type="start">1939-10-19</date><desc><address><country key="FR"></country></address><ref type="url">http://www.cnrs.fr/</ref></desc></org></tutelle></tutelles></hal:affiliation><country>France</country><placeName><settlement type="city">Nancy</settlement><settlement type="city">Metz</settlement><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Université de Lorraine</orgName></affiliation></author><author><name sortKey="Loux, Valentin" sort="Loux, Valentin" uniqKey="Loux V" first="Valentin" last="Loux">Valentin Loux</name><affiliation wicri:level="1"><hal:affiliation type="laboratory" xml:id="struct-43295" status="VALID"><orgName>Unité Mathématique, Informatique et Génome</orgName><orgName type="acronym">MIG</orgName><desc><address><addrLine>MIG - INRA (Bâtiment 233) Domaine de Vilvert 78352 Jouy en Josas Cedex</addrLine><country key="FR"></country></address><ref type="url">http://mig.jouy.inra.fr/</ref></desc><listRelation><relation name="UR1077" active="#struct-92114" type="direct"></relation></listRelation><tutelles><tutelle name="UR1077" active="#struct-92114" type="direct"><org type="institution" xml:id="struct-92114" status="VALID"><orgName>Institut National de la Recherche Agronomique</orgName><orgName type="acronym">INRA</orgName><desc><address><country key="FR"></country></address><ref type="url">http://www.inra.fr</ref></desc></org></tutelle></tutelles></hal:affiliation><country>France</country></affiliation></author><author><name sortKey="Lacroix, Thomas" sort="Lacroix, Thomas" uniqKey="Lacroix T" first="Thomas" last="Lacroix">Thomas Lacroix</name><affiliation wicri:level="1"><hal:affiliation type="department" xml:id="struct-426348" status="VALID"><idno type="RNSR">201521778L</idno><orgName>Mathématiques et Informatique Appliquées du Génome à l'Environnement [Jouy-En-Josas]</orgName><orgName type="acronym">MaIAGE</orgName><date type="start">2015</date><desc><address><addrLine>Bât. 233, Domaine de Vilvert - 78352 Jouy-en-Josas Cedex</addrLine><country key="FR"></country></address><ref type="url">http://maiage.jouy.inra.fr/</ref></desc><listRelation><relation name="UPR 1404" active="#struct-92114" type="direct"></relation></listRelation><tutelles><tutelle name="UPR 1404" active="#struct-92114" type="direct"><org type="institution" xml:id="struct-92114" status="VALID"><orgName>Institut National de la Recherche Agronomique</orgName><orgName type="acronym">INRA</orgName><desc><address><country key="FR"></country></address><ref type="url">http://www.inra.fr</ref></desc></org></tutelle></tutelles></hal:affiliation><country>France</country></affiliation></author><author><name sortKey="Payot, Sophie" sort="Payot, Sophie" uniqKey="Payot S" first="Sophie" last="Payot">Sophie Payot</name><affiliation wicri:level="1"><hal:affiliation type="laboratory" xml:id="struct-37902" status="OLD"><orgName>Génétique et Microbiologie</orgName><orgName type="acronym">LGM</orgName><date type="end">2011-12-31</date><desc><address><addrLine>Université Henri Poincaré, Faculté des Sciences et Technologies, Bd des Aiguillettes, BP 70239, 54506 Vandoeuvre-les-Nancy Cedex </addrLine><country key="FR"></country></address></desc><listRelation><relation name="UMRA1128" active="#struct-92114" type="direct"></relation><relation active="#struct-300291" type="direct"></relation></listRelation><tutelles><tutelle name="UMRA1128" active="#struct-92114" type="direct"><org type="institution" xml:id="struct-92114" status="VALID"><orgName>Institut National de la Recherche Agronomique</orgName><orgName type="acronym">INRA</orgName><desc><address><country key="FR"></country></address><ref type="url">http://www.inra.fr</ref></desc></org></tutelle><tutelle active="#struct-300291" type="direct"><org type="institution" xml:id="struct-300291" status="OLD"><orgName>Université Henri Poincaré - Nancy 1</orgName><orgName type="acronym">UHP</orgName><date type="end">2011-12-31</date><desc><address><addrLine>24-30 rue Lionnois, BP 60120, 54 003 NANCY cedex, France</addrLine><country key="FR"></country></address></desc></org></tutelle></tutelles></hal:affiliation><country>France</country></affiliation></author><author><name sortKey="Leblond Bourget, Nathalie" sort="Leblond Bourget, Nathalie" uniqKey="Leblond Bourget N" first="Nathalie" last="Leblond-Bourget">Nathalie Leblond-Bourget</name><affiliation wicri:level="1"><hal:affiliation type="laboratory" xml:id="struct-37902" status="OLD"><orgName>Génétique et Microbiologie</orgName><orgName type="acronym">LGM</orgName><date type="end">2011-12-31</date><desc><address><addrLine>Université Henri Poincaré, Faculté des Sciences et Technologies, Bd des Aiguillettes, BP 70239, 54506 Vandoeuvre-les-Nancy Cedex </addrLine><country key="FR"></country></address></desc><listRelation><relation name="UMRA1128" active="#struct-92114" type="direct"></relation><relation active="#struct-300291" type="direct"></relation></listRelation><tutelles><tutelle name="UMRA1128" active="#struct-92114" type="direct"><org type="institution" xml:id="struct-92114" status="VALID"><orgName>Institut National de la Recherche Agronomique</orgName><orgName type="acronym">INRA</orgName><desc><address><country key="FR"></country></address><ref type="url">http://www.inra.fr</ref></desc></org></tutelle><tutelle active="#struct-300291" type="direct"><org type="institution" xml:id="struct-300291" status="OLD"><orgName>Université Henri Poincaré - Nancy 1</orgName><orgName type="acronym">UHP</orgName><date type="end">2011-12-31</date><desc><address><addrLine>24-30 rue Lionnois, BP 60120, 54 003 NANCY cedex, France</addrLine><country key="FR"></country></address></desc></org></tutelle></tutelles></hal:affiliation><country>France</country></affiliation></author></analytic><idno type="DOI">10.3389/fmicb.2015.01483</idno></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="mix" xml:lang="en"><term>Streptococcus</term><term>T4SS</term><term>integrase</term><term>integration site</term><term>integrative and conjugative elements</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Recent genome analyses suggest that integrative and conjugative elements (ICEs) are widespread in bacterial genomes and therefore play an essential role in horizontal transfer. However, only a few of these elements are precisely characterized and correctly delineated within sequenced bacterial genomes. Even though previous analysis showed the presence of ICEs in some species of Streptococci, the global prevalence and diversity of ICEs was not analyzed in this genus. In this study, we searched for ICEs in the completely sequenced genomes of 124 strains belonging to 27 streptococcal species. These exhaustive analyses revealed 105 putative ICEs and 26 slightly decayed elements whose limits were assessed and whose insertion site was identified. These ICEs were grouped in seven distinct unrelated or distantly related families, according to their conjugation modules. Integration of these streptococcal ICEs is catalyzed either by a site-specific tyrosine integrase, a low-specificity tyrosine integrase, a site-specific single serine integrase, a triplet of site-specific serine integrases or a DDE transposase. Analysis of their integration site led to the detection of 18 target-genes for streptococcal ICE insertion including eight that had not been identified previously (ftsK, guaA, lysS, mutT, rpmG, rpsI, traG, and ebfC). It also suggests that all specificities have evolved to minimize the impact of the insertion on the host. This overall analysis of streptococcal ICEs emphasizes their prevalence and diversity and demonstrates that exchanges or acquisitions of conjugation and recombination modules are frequent.</div></front></TEI><affiliations><list><country><li>France</li></country><region><li>Grand Est</li><li>Languedoc-Roussillon</li><li>Lorraine (région)</li><li>Occitanie (région administrative)</li></region><settlement><li>Metz</li><li>Montpellier</li><li>Nancy</li></settlement><orgName><li>PRES Sud de France</li><li>Université Montpellier 1</li><li>Université de Lorraine</li></orgName></list><tree><country name="France"><region name="Occitanie (région administrative)"><name sortKey="Ambroset, Chloe" sort="Ambroset, Chloe" uniqKey="Ambroset C" first="Chloé" last="Ambroset">Chloé Ambroset</name></region><name sortKey="Coluzzi, Charles" sort="Coluzzi, Charles" uniqKey="Coluzzi C" first="Charles" last="Coluzzi">Charles Coluzzi</name><name sortKey="Devignes, Marie Dominique" sort="Devignes, Marie Dominique" uniqKey="Devignes M" first="Marie-Dominique" last="Devignes">Marie-Dominique Devignes</name><name sortKey="Guedon, Gerard" sort="Guedon, Gerard" uniqKey="Guedon G" first="Gérard" last="Guédon">Gérard Guédon</name><name sortKey="Lacroix, Thomas" sort="Lacroix, Thomas" uniqKey="Lacroix T" first="Thomas" last="Lacroix">Thomas Lacroix</name><name sortKey="Leblond Bourget, Nathalie" sort="Leblond Bourget, Nathalie" uniqKey="Leblond Bourget N" first="Nathalie" last="Leblond-Bourget">Nathalie Leblond-Bourget</name><name sortKey="Loux, Valentin" sort="Loux, Valentin" uniqKey="Loux V" first="Valentin" last="Loux">Valentin Loux</name><name sortKey="Payot, Sophie" sort="Payot, Sophie" uniqKey="Payot S" first="Sophie" last="Payot">Sophie Payot</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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