Whole-genome assembly of Klebsiella pneumoniae coproducing NDM-1 and OXA-232 carbapenemases using single-molecule, real-time sequencing.
Identifieur interne : 000800 ( Main/Exploration ); précédent : 000799; suivant : 000801Whole-genome assembly of Klebsiella pneumoniae coproducing NDM-1 and OXA-232 carbapenemases using single-molecule, real-time sequencing.
Auteurs : Yohei Doi [États-Unis] ; Tracy H. Hazen [États-Unis] ; Matthew Boitano [États-Unis] ; Yu-Chih Tsai [États-Unis] ; Tyson A. Clark [États-Unis] ; Jonas Korlach [États-Unis] ; David A. Rasko [États-Unis]Source :
- Antimicrobial agents and chemotherapy [ 1098-6596 ] ; 2014.
Descripteurs français
- KwdFr :
- Antibactériens (pharmacologie), Génome bactérien (génétique), Klebsiella pneumoniae (), Klebsiella pneumoniae (enzymologie), Klebsiella pneumoniae (génétique), Opéron (génétique), Plasmides (génétique), Protéines bactériennes (génétique), Protéines bactériennes (métabolisme), Tests de sensibilité microbienne, bêta-Lactamases (génétique), bêta-Lactamases (métabolisme).
- MESH :
- enzymologie : Klebsiella pneumoniae.
- génétique : Génome bactérien, Klebsiella pneumoniae, Opéron, Plasmides, Protéines bactériennes, bêta-Lactamases.
- métabolisme : Protéines bactériennes, bêta-Lactamases.
- pharmacologie : Antibactériens.
- Klebsiella pneumoniae, Tests de sensibilité microbienne.
English descriptors
- KwdEn :
- Anti-Bacterial Agents (pharmacology), Bacterial Proteins (genetics), Bacterial Proteins (metabolism), Genome, Bacterial (genetics), Klebsiella pneumoniae (drug effects), Klebsiella pneumoniae (enzymology), Klebsiella pneumoniae (genetics), Microbial Sensitivity Tests, Operon (genetics), Plasmids (genetics), beta-Lactamases (genetics), beta-Lactamases (metabolism).
- MESH :
- chemical , genetics : Bacterial Proteins, beta-Lactamases.
- chemical , metabolism : Bacterial Proteins, beta-Lactamases.
- chemical , pharmacology : Anti-Bacterial Agents.
- drug effects : Klebsiella pneumoniae.
- enzymology : Klebsiella pneumoniae.
- genetics : Genome, Bacterial, Klebsiella pneumoniae, Operon, Plasmids.
- Microbial Sensitivity Tests.
Abstract
The whole-genome sequence of a carbapenem-resistant Klebsiella pneumoniae strain, PittNDM01, which coproduces NDM-1 and OXA-232 carbapenemases, was determined in this study. The use of single-molecule, real-time (SMRT) sequencing provided a closed genome in a single sequencing run. K. pneumoniae PittNDM01 has a single chromosome of 5,348,284 bp and four plasmids: pPKPN1 (283,371 bp), pPKPN2 (103,694 bp), pPKPN3 (70,814 bp), and pPKPN4 (6,141 bp). The contents of the chromosome were similar to that of the K. pneumoniae reference genome strain MGH 78578, with the exception of a large inversion spanning 23.3% of the chromosome. In contrast, three of the four plasmids are unique. The plasmid pPKPN1, an IncHI1B-like plasmid, carries the blaNDM-1, armA, and qnrB1 genes, along with tellurium and mercury resistance operons. blaNDM-1 is carried on a unique structure in which Tn125 is further bracketed by IS26 downstream of a class 1 integron. The IncFIA-like plasmid pPKPN3 also carries an array of resistance elements, including blaCTX-M-15 and a mercury resistance operon. The ColE-type plasmid pPKPN4 carrying blaOXA-232 is identical to a plasmid previously reported from France. SMRT sequencing was useful in resolving the complex bacterial genomic structures in the de novo assemblies.
DOI: 10.1128/AAC.03180-14
PubMed: 25070096
Affiliations:
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The use of single-molecule, real-time (SMRT) sequencing provided a closed genome in a single sequencing run. K. pneumoniae PittNDM01 has a single chromosome of 5,348,284 bp and four plasmids: pPKPN1 (283,371 bp), pPKPN2 (103,694 bp), pPKPN3 (70,814 bp), and pPKPN4 (6,141 bp). The contents of the chromosome were similar to that of the K. pneumoniae reference genome strain MGH 78578, with the exception of a large inversion spanning 23.3% of the chromosome. In contrast, three of the four plasmids are unique. The plasmid pPKPN1, an IncHI1B-like plasmid, carries the blaNDM-1, armA, and qnrB1 genes, along with tellurium and mercury resistance operons. blaNDM-1 is carried on a unique structure in which Tn125 is further bracketed by IS26 downstream of a class 1 integron. The IncFIA-like plasmid pPKPN3 also carries an array of resistance elements, including blaCTX-M-15 and a mercury resistance operon. The ColE-type plasmid pPKPN4 carrying blaOXA-232 is identical to a plasmid previously reported from France. SMRT sequencing was useful in resolving the complex bacterial genomic structures in the de novo assemblies.</div></front></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>Californie</li><li>Maryland</li><li>Pennsylvanie</li></region><settlement><li>College Park (Maryland)</li></settlement><orgName><li>Université du Maryland</li></orgName></list><tree><country name="États-Unis"><region name="Pennsylvanie"><name sortKey="Doi, Yohei" sort="Doi, Yohei" uniqKey="Doi Y" first="Yohei" last="Doi">Yohei Doi</name></region><name sortKey="Boitano, Matthew" sort="Boitano, Matthew" uniqKey="Boitano M" first="Matthew" last="Boitano">Matthew Boitano</name><name sortKey="Clark, Tyson A" sort="Clark, Tyson A" uniqKey="Clark T" first="Tyson A" last="Clark">Tyson A. Clark</name><name sortKey="Hazen, Tracy H" sort="Hazen, Tracy H" uniqKey="Hazen T" first="Tracy H" last="Hazen">Tracy H. Hazen</name><name sortKey="Korlach, Jonas" sort="Korlach, Jonas" uniqKey="Korlach J" first="Jonas" last="Korlach">Jonas Korlach</name><name sortKey="Rasko, David A" sort="Rasko, David A" uniqKey="Rasko D" first="David A" last="Rasko">David A. Rasko</name><name sortKey="Tsai, Yu Chih" sort="Tsai, Yu Chih" uniqKey="Tsai Y" first="Yu-Chih" last="Tsai">Yu-Chih Tsai</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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