Whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from Sabah, Malaysia
A Mycobacterium tuberculosis strain SBH162 was isolated from a 49-year-old male with pulmonary tuberculosis. GeneXpert MDR/ RIF identified the strain as rifampicin-resistant M. tuberculosis. The whole genome sequencing was performed using Illumina HiSeq 4000 system to further investigate and verify...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English English |
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Elsevier Ltd.
2019
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| Online Access: | https://eprints.ums.edu.my/id/eprint/30674/1/Whole%20genome%20sequencing%20data%20and%20analysis%20of%20a%20rifampicin-resistant%20Mycobacterium%20tuberculosis%20strain%20SBH162%20from%20Sabah%2C%20Malaysia-Abstract.pdf https://eprints.ums.edu.my/id/eprint/30674/2/Whole%20genome%20sequencing%20data%20and%20analysis%20of%20a%20rifampicin-resistant%C2%A0Mycobacterium%20tuberculosis%C2%A0strain%20SBH162%20from%20Sabah%2C%20Malaysia.pdf |
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| author | Jaeyres Jani Zainal Arifin Mustapha Norfazirah Jamal Cheronie Shely Stanis Chin Kai Ling Richard Avoi Naing Oo Tha Valentine Gantul Daisuke Mori Kamruddin Ahmed |
| author_facet | Jaeyres Jani Zainal Arifin Mustapha Norfazirah Jamal Cheronie Shely Stanis Chin Kai Ling Richard Avoi Naing Oo Tha Valentine Gantul Daisuke Mori Kamruddin Ahmed |
| author_sort | Jaeyres Jani |
| collection | UMS |
| description | A Mycobacterium tuberculosis strain SBH162 was isolated from a 49-year-old male with pulmonary tuberculosis. GeneXpert MDR/ RIF identified the strain as rifampicin-resistant M. tuberculosis. The whole genome sequencing was performed using Illumina HiSeq 4000 system to further investigate and verify the mutation sites of the strain through genetic analyses namely variant calling using bioinformatics tools. The de novo assembly of genome generated 100 contigs with N50 of 156,381bp. The whole genome size was 4,343,911 bp with G þ C content of 65.58% and consisted of 4,306 predicted genes. The mutation site, S450L, for rifampicin resistance was detected in the rpoB gene. Based on the phylogenetic analysis using the Maximum Likelihood method, the strain was identified as belonging to the Europe America Africa lineage (Lineage 4). The genome dataset has been deposited at DDBJ/ENA/GenBank under the accession number SMOE00000000. |
| first_indexed | 2024-03-06T03:11:12Z |
| format | Article |
| id | ums.eprints-30674 |
| institution | Universiti Malaysia Sabah |
| language | English English |
| last_indexed | 2024-03-06T03:11:12Z |
| publishDate | 2019 |
| publisher | Elsevier Ltd. |
| record_format | dspace |
| spelling | ums.eprints-306742023-05-19T02:58:50Z https://eprints.ums.edu.my/id/eprint/30674/ Whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from Sabah, Malaysia Jaeyres Jani Zainal Arifin Mustapha Norfazirah Jamal Cheronie Shely Stanis Chin Kai Ling Richard Avoi Naing Oo Tha Valentine Gantul Daisuke Mori Kamruddin Ahmed GE1-350 Environmental sciences QR1-502 Microbiology A Mycobacterium tuberculosis strain SBH162 was isolated from a 49-year-old male with pulmonary tuberculosis. GeneXpert MDR/ RIF identified the strain as rifampicin-resistant M. tuberculosis. The whole genome sequencing was performed using Illumina HiSeq 4000 system to further investigate and verify the mutation sites of the strain through genetic analyses namely variant calling using bioinformatics tools. The de novo assembly of genome generated 100 contigs with N50 of 156,381bp. The whole genome size was 4,343,911 bp with G þ C content of 65.58% and consisted of 4,306 predicted genes. The mutation site, S450L, for rifampicin resistance was detected in the rpoB gene. Based on the phylogenetic analysis using the Maximum Likelihood method, the strain was identified as belonging to the Europe America Africa lineage (Lineage 4). The genome dataset has been deposited at DDBJ/ENA/GenBank under the accession number SMOE00000000. Elsevier Ltd. 2019-08-28 Article NonPeerReviewed text en https://eprints.ums.edu.my/id/eprint/30674/1/Whole%20genome%20sequencing%20data%20and%20analysis%20of%20a%20rifampicin-resistant%20Mycobacterium%20tuberculosis%20strain%20SBH162%20from%20Sabah%2C%20Malaysia-Abstract.pdf text en https://eprints.ums.edu.my/id/eprint/30674/2/Whole%20genome%20sequencing%20data%20and%20analysis%20of%20a%20rifampicin-resistant%C2%A0Mycobacterium%20tuberculosis%C2%A0strain%20SBH162%20from%20Sabah%2C%20Malaysia.pdf Jaeyres Jani and Zainal Arifin Mustapha and Norfazirah Jamal and Cheronie Shely Stanis and Chin Kai Ling and Richard Avoi and Naing Oo Tha and Valentine Gantul and Daisuke Mori and Kamruddin Ahmed (2019) Whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from Sabah, Malaysia. https://reader.elsevier.com/reader/sd/pii/S2352340919308005?token=68C7B1F865B8FD3577BD188055908519AE0A5E3463C2E3498DCA0403DB110CB9F809DD49A55EA31545C81B6DD1B27050&originRegion=eu-west-1&originCreation=20210826075906 |
| spellingShingle | GE1-350 Environmental sciences QR1-502 Microbiology Jaeyres Jani Zainal Arifin Mustapha Norfazirah Jamal Cheronie Shely Stanis Chin Kai Ling Richard Avoi Naing Oo Tha Valentine Gantul Daisuke Mori Kamruddin Ahmed Whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from Sabah, Malaysia |
| title | Whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from Sabah, Malaysia |
| title_full | Whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from Sabah, Malaysia |
| title_fullStr | Whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from Sabah, Malaysia |
| title_full_unstemmed | Whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from Sabah, Malaysia |
| title_short | Whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from Sabah, Malaysia |
| title_sort | whole genome sequencing data and analysis of a rifampicin resistant mycobacterium tuberculosis strain sbh162 from sabah malaysia |
| topic | GE1-350 Environmental sciences QR1-502 Microbiology |
| url | https://eprints.ums.edu.my/id/eprint/30674/1/Whole%20genome%20sequencing%20data%20and%20analysis%20of%20a%20rifampicin-resistant%20Mycobacterium%20tuberculosis%20strain%20SBH162%20from%20Sabah%2C%20Malaysia-Abstract.pdf https://eprints.ums.edu.my/id/eprint/30674/2/Whole%20genome%20sequencing%20data%20and%20analysis%20of%20a%20rifampicin-resistant%C2%A0Mycobacterium%20tuberculosis%C2%A0strain%20SBH162%20from%20Sabah%2C%20Malaysia.pdf |
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