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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...

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Main Authors: Jaeyres Jani, Zainal Arifin Mustapha, Norfazirah Jamal, Cheronie Shely Stanis, Chin Kai Ling, Richard Avoi, Naing Oo Tha, Valentine Gantul, Daisuke Mori, Kamruddin Ahmed
Format: Article
Language:English
English
Published: Elsevier Ltd. 2019
Subjects:
GE1-350 Environmental sciences
QR1-502 Microbiology
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
https://eprints.ums.edu.my/id/eprint/30674/
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spelling my.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
institution Universiti Malaysia Sabah
building UMS Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Malaysia Sabah
content_source UMS Institutional Repository
url_provider http://eprints.ums.edu.my/
language English
English
topic GE1-350 Environmental sciences
QR1-502 Microbiology
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
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.
format Article
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
title 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_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_sort whole genome sequencing data and analysis of a rifampicin-resistant mycobacterium tuberculosis strain sbh162 from sabah, malaysia
publisher Elsevier Ltd.
publishDate 2019
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
https://eprints.ums.edu.my/id/eprint/30674/
https://reader.elsevier.com/reader/sd/pii/S2352340919308005?token=68C7B1F865B8FD3577BD188055908519AE0A5E3463C2E3498DCA0403DB110CB9F809DD49A55EA31545C81B6DD1B27050&originRegion=eu-west-1&originCreation=20210826075906
_version_ 1768008544540426240
score 13.244413

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