Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient
The escalating problem of antibiotic resistance, specifically cabarpenemase and extended-spectrum β-lacatamase (ESBL) producing K. pneumoniae strains, is directly correlated with increased patient morbidity and mortality and prolonged hospitalization and costs. In this study, a comprehensive genomic...
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| مؤلفون آخرون: | , , , |
| التنسيق: | article |
| منشور في: |
2017
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| الوصول للمادة أونلاين: | http://hdl.handle.net/10725/8102 http://dx.doi.org/10.1080/20477724.2017.1314069 http://libraries.lau.edu.lb/research/laur/terms-of-use/articles.php https://www.ncbi.nlm.nih.gov/pubmed/28395597 |
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| _version_ | 1864513483876335616 |
|---|---|
| author | Tokajian, S. |
| author2 | Abboud, E. Alousi, S. Arabaghian, H. Salloum, T. |
| author2_role | author author author author |
| author_facet | Tokajian, S. Abboud, E. Alousi, S. Arabaghian, H. Salloum, T. |
| author_role | author |
| dc.creator.none.fl_str_mv | Tokajian, S. Abboud, E. Alousi, S. Arabaghian, H. Salloum, T. |
| dc.date.none.fl_str_mv | 2017 2018-06-26T10:10:38Z 2018-06-26T10:10:38Z 2018-06-26 |
| dc.identifier.none.fl_str_mv | 2047-7732 http://hdl.handle.net/10725/8102 http://dx.doi.org/10.1080/20477724.2017.1314069 Salloum, T., Arabaghian, H., Alousi, S., Abboud, E., & Tokajian, S. (2017). Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient. Pathogens and global health, 111(4), 166-175. http://libraries.lau.edu.lb/research/laur/terms-of-use/articles.php https://www.ncbi.nlm.nih.gov/pubmed/28395597 |
| dc.language.none.fl_str_mv | en |
| dc.relation.none.fl_str_mv | Pathogens and global health |
| dc.rights.*.fl_str_mv | info:eu-repo/semantics/openAccess |
| dc.title.none.fl_str_mv | Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient |
| dc.type.none.fl_str_mv | Article info:eu-repo/semantics/publishedVersion info:eu-repo/semantics/article |
| description | The escalating problem of antibiotic resistance, specifically cabarpenemase and extended-spectrum β-lacatamase (ESBL) producing K. pneumoniae strains, is directly correlated with increased patient morbidity and mortality and prolonged hospitalization and costs. In this study, a comprehensive genomic analysis encompassing the resistomics, virulence repertoire and mobile genetic elements of an NDM-1 positive ESBL-producing K. pneumoniae EA-MEH ST15 isolated from a urine sample collected from a Syrian refugee was conducted. Illumina paired-end libraries were prepared and sequenced resulting in 892,300 high-quality reads. The initial assembly produced 329 contigs with a combined 5,954,825 bp and a 56.5% G+C content. Resistome analysis revealed the presence of several β-lactamases including NDM-1, SHV-28, CTX-M-15 and OXA-1 in addition to 18 other genes encoding for resistance, among which are aph(3')-Ia, aac(6')Ib-cr, armA, strB, strA and aadA2 genes. Additionally, five plasmids IncFIB(Mar), IncHI1B, IncFIB(pKPHS1), IncFIB(K) and IncFII(K) and four integrated phages were detected. In silico MLST analysis revealed that the isolate was of sequence type ST15. To our knowledge this is the first in-depth genomic analysis of a NDM-1 positive K. pneumoniae ST15 in Lebanon associated with the recent population migration. The potential dissemination of such MDR strains is an important public health concern. |
| eu_rights_str_mv | openAccess |
| format | article |
| id | LAURepo_9b8765160d0d3c1f8b4b24ba447413f8 |
| identifier_str_mv | 2047-7732 Salloum, T., Arabaghian, H., Alousi, S., Abboud, E., & Tokajian, S. (2017). Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient. Pathogens and global health, 111(4), 166-175. |
| language_invalid_str_mv | en |
| network_acronym_str | LAURepo |
| network_name_str | Lebanese American University repository |
| oai_identifier_str | oai:laur.lau.edu.lb:10725/8102 |
| publishDate | 2017 |
| repository.mail.fl_str_mv | |
| repository.name.fl_str_mv | |
| repository_id_str | |
| spelling | Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patientTokajian, S.Abboud, E.Alousi, S.Arabaghian, H.Salloum, T.The escalating problem of antibiotic resistance, specifically cabarpenemase and extended-spectrum β-lacatamase (ESBL) producing K. pneumoniae strains, is directly correlated with increased patient morbidity and mortality and prolonged hospitalization and costs. In this study, a comprehensive genomic analysis encompassing the resistomics, virulence repertoire and mobile genetic elements of an NDM-1 positive ESBL-producing K. pneumoniae EA-MEH ST15 isolated from a urine sample collected from a Syrian refugee was conducted. Illumina paired-end libraries were prepared and sequenced resulting in 892,300 high-quality reads. The initial assembly produced 329 contigs with a combined 5,954,825 bp and a 56.5% G+C content. Resistome analysis revealed the presence of several β-lactamases including NDM-1, SHV-28, CTX-M-15 and OXA-1 in addition to 18 other genes encoding for resistance, among which are aph(3')-Ia, aac(6')Ib-cr, armA, strB, strA and aadA2 genes. Additionally, five plasmids IncFIB(Mar), IncHI1B, IncFIB(pKPHS1), IncFIB(K) and IncFII(K) and four integrated phages were detected. In silico MLST analysis revealed that the isolate was of sequence type ST15. To our knowledge this is the first in-depth genomic analysis of a NDM-1 positive K. pneumoniae ST15 in Lebanon associated with the recent population migration. The potential dissemination of such MDR strains is an important public health concern.PublishedN/A2018-06-26T10:10:38Z2018-06-26T10:10:38Z20172018-06-26Articleinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article2047-7732http://hdl.handle.net/10725/8102http://dx.doi.org/10.1080/20477724.2017.1314069Salloum, T., Arabaghian, H., Alousi, S., Abboud, E., & Tokajian, S. (2017). Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient. Pathogens and global health, 111(4), 166-175.http://libraries.lau.edu.lb/research/laur/terms-of-use/articles.phphttps://www.ncbi.nlm.nih.gov/pubmed/28395597enPathogens and global healthinfo:eu-repo/semantics/openAccessoai:laur.lau.edu.lb:10725/81022021-03-19T10:43:08Z |
| spellingShingle | Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient Tokajian, S. |
| status_str | publishedVersion |
| title | Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient |
| title_full | Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient |
| title_fullStr | Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient |
| title_full_unstemmed | Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient |
| title_short | Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient |
| title_sort | Genome sequencing and comparative analysis of an NDM-1-producing Klebsiella pneumoniae ST15 isolated from a refugee patient |
| url | http://hdl.handle.net/10725/8102 http://dx.doi.org/10.1080/20477724.2017.1314069 http://libraries.lau.edu.lb/research/laur/terms-of-use/articles.php https://www.ncbi.nlm.nih.gov/pubmed/28395597 |