Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment

Autores
Antelo, Verónica; Giménez, Matías; Azziz, Gastón; Valdespino Castillo, Patricia; Falcón, Luisa I.; Ruberto, Lucas Adolfo Mauro; MacCormack, Walter P.; Mazel, Didier; Batista, Silvia
Año de publicación
2021
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
The objective of this study is to identify and analyze integrons and antibiotic resistance genes (ARGs) in samples collected from diverse sites in terrestrial Antarctica. Integrons were studied using two independent methods. One involved the construction and analysis of intI gene amplicon libraries. In addition, we sequenced 17 metagenomes of microbial mats and soil by high-throughput sequencing and analyzed these data using the IntegronFinder program. As expected, the metagenomic analysis allowed for the identification of novel predicted intI integrases and gene cassettes (GCs), which mostly encode unknown functions. However, some intI genes are similar to sequences previously identified by amplicon library analysis in soil samples collected from non-Antarctic sites. ARGs were analyzed in the metagenomes using ABRIcate with CARD database and verified if these genes could be classified as GCs by IntegronFinder. We identified 53 ARGs in 15 metagenomes, but only four were classified as GCs, one in MTG12 metagenome (Continental Antarctica), encoding an aminoglycoside-modifying enzyme (AAC(6´)acetyltransferase) and the other three in CS1 metagenome (Maritime Antarctica). One of these genes encodes a class D β-lactamase (blaOXA-205) and the other two are located in the same contig. One is part of a gene encoding the first 76 amino acids of aminoglycoside adenyltransferase (aadA6), and the other is a qacG2 gene.
Fil: Antelo, Verónica. Instituto de Investigaciones Biológicas "Clemente Estable"; Uruguay
Fil: Giménez, Matías. Instituto de Investigaciones Biológicas "Clemente Estable"; Uruguay
Fil: Azziz, Gastón. Universidad de la Republica. Facultad de Agricultura; Uruguay
Fil: Valdespino Castillo, Patricia. Lawrence Berkeley National Laboratory; Estados Unidos
Fil: Falcón, Luisa I.. Universidad Nacional Autónoma de México; México
Fil: Ruberto, Lucas Adolfo Mauro. Ministerio de Relaciones Exteriores, Comercio Interno y Culto. Dirección Nacional del Antártico. Instituto Antártico Argentino; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Nanobiotecnología. Universidad de Buenos Aires. Facultad de Farmacia y Bioquímica. Instituto de Nanobiotecnología; Argentina
Fil: MacCormack, Walter P.. Ministerio de Relaciones Exteriores, Comercio Interno y Culto. Dirección Nacional del Antártico. Instituto Antártico Argentino; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Nanobiotecnología. Universidad de Buenos Aires. Facultad de Farmacia y Bioquímica. Instituto de Nanobiotecnología; Argentina
Fil: Mazel, Didier. Institut Pasteur de Paris.; Francia
Fil: Batista, Silvia. Instituto de Investigaciones Biológicas "Clemente Estable"; Uruguay
Materia
ANTIBIOTIC RESISTANCE
BIOINFORMATICS
HORIZONTAL GENE TRANSFER
MICROBIAL GENOMICS
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/170722
Acceder
id CONICETDig_f155322adf21ce618cae29dc3713f3e4
oai_identifier_str oai:ri.conicet.gov.ar:11336/170722
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environmentAntelo, VerónicaGiménez, MatíasAzziz, GastónValdespino Castillo, PatriciaFalcón, Luisa I.Ruberto, Lucas Adolfo MauroMacCormack, Walter P.Mazel, DidierBatista, SilviaANTIBIOTIC RESISTANCEBIOINFORMATICSHORIZONTAL GENE TRANSFERMICROBIAL GENOMICShttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1The objective of this study is to identify and analyze integrons and antibiotic resistance genes (ARGs) in samples collected from diverse sites in terrestrial Antarctica. Integrons were studied using two independent methods. One involved the construction and analysis of intI gene amplicon libraries. In addition, we sequenced 17 metagenomes of microbial mats and soil by high-throughput sequencing and analyzed these data using the IntegronFinder program. As expected, the metagenomic analysis allowed for the identification of novel predicted intI integrases and gene cassettes (GCs), which mostly encode unknown functions. However, some intI genes are similar to sequences previously identified by amplicon library analysis in soil samples collected from non-Antarctic sites. ARGs were analyzed in the metagenomes using ABRIcate with CARD database and verified if these genes could be classified as GCs by IntegronFinder. We identified 53 ARGs in 15 metagenomes, but only four were classified as GCs, one in MTG12 metagenome (Continental Antarctica), encoding an aminoglycoside-modifying enzyme (AAC(6´)acetyltransferase) and the other three in CS1 metagenome (Maritime Antarctica). One of these genes encodes a class D β-lactamase (blaOXA-205) and the other two are located in the same contig. One is part of a gene encoding the first 76 amino acids of aminoglycoside adenyltransferase (aadA6), and the other is a qacG2 gene.Fil: Antelo, Verónica. Instituto de Investigaciones Biológicas "Clemente Estable"; UruguayFil: Giménez, Matías. Instituto de Investigaciones Biológicas "Clemente Estable"; UruguayFil: Azziz, Gastón. Universidad de la Republica. Facultad de Agricultura; UruguayFil: Valdespino Castillo, Patricia. Lawrence Berkeley National Laboratory; Estados UnidosFil: Falcón, Luisa I.. Universidad Nacional Autónoma de México; MéxicoFil: Ruberto, Lucas Adolfo Mauro. Ministerio de Relaciones Exteriores, Comercio Interno y Culto. Dirección Nacional del Antártico. Instituto Antártico Argentino; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Nanobiotecnología. Universidad de Buenos Aires. Facultad de Farmacia y Bioquímica. Instituto de Nanobiotecnología; ArgentinaFil: MacCormack, Walter P.. Ministerio de Relaciones Exteriores, Comercio Interno y Culto. Dirección Nacional del Antártico. Instituto Antártico Argentino; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Nanobiotecnología. Universidad de Buenos Aires. Facultad de Farmacia y Bioquímica. Instituto de Nanobiotecnología; ArgentinaFil: Mazel, Didier. Institut Pasteur de Paris.; FranciaFil: Batista, Silvia. Instituto de Investigaciones Biológicas "Clemente Estable"; UruguayJohn Wiley & Sons Inc.2021-10info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/170722Antelo, Verónica; Giménez, Matías; Azziz, Gastón; Valdespino Castillo, Patricia; Falcón, Luisa I.; et al.; Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment; John Wiley & Sons Inc.; MicrobiologyOpen; 10; 5; 10-2021; 1-142045-88272045-8827CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://onlinelibrary.wiley.com/doi/10.1002/mbo3.1219info:eu-repo/semantics/altIdentifier/doi/10.1002/mbo3.1219info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-10T13:22:53Zoai:ri.conicet.gov.ar:11336/170722instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-10 13:22:53.608CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment
title Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment
spellingShingle Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment
Antelo, Verónica
ANTIBIOTIC RESISTANCE
BIOINFORMATICS
HORIZONTAL GENE TRANSFER
MICROBIAL GENOMICS
title_short Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment
title_full Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment
title_fullStr Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment
title_full_unstemmed Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment
title_sort Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment
dc.creator.none.fl_str_mv Antelo, Verónica
Giménez, Matías
Azziz, Gastón
Valdespino Castillo, Patricia
Falcón, Luisa I.
Ruberto, Lucas Adolfo Mauro
MacCormack, Walter P.
Mazel, Didier
Batista, Silvia
author Antelo, Verónica
author_facet Antelo, Verónica
Giménez, Matías
Azziz, Gastón
Valdespino Castillo, Patricia
Falcón, Luisa I.
Ruberto, Lucas Adolfo Mauro
MacCormack, Walter P.
Mazel, Didier
Batista, Silvia
author_role author
author2 Giménez, Matías
Azziz, Gastón
Valdespino Castillo, Patricia
Falcón, Luisa I.
Ruberto, Lucas Adolfo Mauro
MacCormack, Walter P.
Mazel, Didier
Batista, Silvia
author2_role author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv ANTIBIOTIC RESISTANCE
BIOINFORMATICS
HORIZONTAL GENE TRANSFER
MICROBIAL GENOMICS
topic ANTIBIOTIC RESISTANCE
BIOINFORMATICS
HORIZONTAL GENE TRANSFER
MICROBIAL GENOMICS
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv The objective of this study is to identify and analyze integrons and antibiotic resistance genes (ARGs) in samples collected from diverse sites in terrestrial Antarctica. Integrons were studied using two independent methods. One involved the construction and analysis of intI gene amplicon libraries. In addition, we sequenced 17 metagenomes of microbial mats and soil by high-throughput sequencing and analyzed these data using the IntegronFinder program. As expected, the metagenomic analysis allowed for the identification of novel predicted intI integrases and gene cassettes (GCs), which mostly encode unknown functions. However, some intI genes are similar to sequences previously identified by amplicon library analysis in soil samples collected from non-Antarctic sites. ARGs were analyzed in the metagenomes using ABRIcate with CARD database and verified if these genes could be classified as GCs by IntegronFinder. We identified 53 ARGs in 15 metagenomes, but only four were classified as GCs, one in MTG12 metagenome (Continental Antarctica), encoding an aminoglycoside-modifying enzyme (AAC(6´)acetyltransferase) and the other three in CS1 metagenome (Maritime Antarctica). One of these genes encodes a class D β-lactamase (blaOXA-205) and the other two are located in the same contig. One is part of a gene encoding the first 76 amino acids of aminoglycoside adenyltransferase (aadA6), and the other is a qacG2 gene.
Fil: Antelo, Verónica. Instituto de Investigaciones Biológicas "Clemente Estable"; Uruguay
Fil: Giménez, Matías. Instituto de Investigaciones Biológicas "Clemente Estable"; Uruguay
Fil: Azziz, Gastón. Universidad de la Republica. Facultad de Agricultura; Uruguay
Fil: Valdespino Castillo, Patricia. Lawrence Berkeley National Laboratory; Estados Unidos
Fil: Falcón, Luisa I.. Universidad Nacional Autónoma de México; México
Fil: Ruberto, Lucas Adolfo Mauro. Ministerio de Relaciones Exteriores, Comercio Interno y Culto. Dirección Nacional del Antártico. Instituto Antártico Argentino; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Nanobiotecnología. Universidad de Buenos Aires. Facultad de Farmacia y Bioquímica. Instituto de Nanobiotecnología; Argentina
Fil: MacCormack, Walter P.. Ministerio de Relaciones Exteriores, Comercio Interno y Culto. Dirección Nacional del Antártico. Instituto Antártico Argentino; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Nanobiotecnología. Universidad de Buenos Aires. Facultad de Farmacia y Bioquímica. Instituto de Nanobiotecnología; Argentina
Fil: Mazel, Didier. Institut Pasteur de Paris.; Francia
Fil: Batista, Silvia. Instituto de Investigaciones Biológicas "Clemente Estable"; Uruguay
description The objective of this study is to identify and analyze integrons and antibiotic resistance genes (ARGs) in samples collected from diverse sites in terrestrial Antarctica. Integrons were studied using two independent methods. One involved the construction and analysis of intI gene amplicon libraries. In addition, we sequenced 17 metagenomes of microbial mats and soil by high-throughput sequencing and analyzed these data using the IntegronFinder program. As expected, the metagenomic analysis allowed for the identification of novel predicted intI integrases and gene cassettes (GCs), which mostly encode unknown functions. However, some intI genes are similar to sequences previously identified by amplicon library analysis in soil samples collected from non-Antarctic sites. ARGs were analyzed in the metagenomes using ABRIcate with CARD database and verified if these genes could be classified as GCs by IntegronFinder. We identified 53 ARGs in 15 metagenomes, but only four were classified as GCs, one in MTG12 metagenome (Continental Antarctica), encoding an aminoglycoside-modifying enzyme (AAC(6´)acetyltransferase) and the other three in CS1 metagenome (Maritime Antarctica). One of these genes encodes a class D β-lactamase (blaOXA-205) and the other two are located in the same contig. One is part of a gene encoding the first 76 amino acids of aminoglycoside adenyltransferase (aadA6), and the other is a qacG2 gene.
publishDate 2021
dc.date.none.fl_str_mv 2021-10
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/170722
Antelo, Verónica; Giménez, Matías; Azziz, Gastón; Valdespino Castillo, Patricia; Falcón, Luisa I.; et al.; Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment; John Wiley & Sons Inc.; MicrobiologyOpen; 10; 5; 10-2021; 1-14
2045-8827
2045-8827
CONICET Digital
CONICET
url http://hdl.handle.net/11336/170722
identifier_str_mv Antelo, Verónica; Giménez, Matías; Azziz, Gastón; Valdespino Castillo, Patricia; Falcón, Luisa I.; et al.; Metagenomic strategies identify diverse integron-integrase and antibiotic resistance genes in the Antarctic environment; John Wiley & Sons Inc.; MicrobiologyOpen; 10; 5; 10-2021; 1-14
2045-8827
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/https://onlinelibrary.wiley.com/doi/10.1002/mbo3.1219
info:eu-repo/semantics/altIdentifier/doi/10.1002/mbo3.1219
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv John Wiley & Sons Inc.
publisher.none.fl_str_mv John Wiley & Sons Inc.
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 12.48226

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