Cargando…

Comparative whole-genome sequence analysis of Mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients

Tuberculous meningitis (TBM) is a severe form of tuberculosis with a high mortality rate. The factors associated with TBM pathogenesis are still unclear. Using comparative whole-genome sequence analysis we compared Mycobacterium tuberculosis (Mtb) isolates from cerebrospinal fluid of TBM cases (n = ...

Descripción completa

Detalles Bibliográficos
Autores principales: Faksri, Kiatichai, Xia, Eryu, Ong, Rick Twee-Hee, Tan, Jun Hao, Nonghanphithak, Ditthawat, Makhao, Nampueng, Thamnongdee, Nongnard, Thanormchat, Arirat, Phurattanakornkul, Arisa, Rattanarangsee, Somcharn, Ratanajaraya, Chate, Suriyaphol, Prapat, Prammananan, Therdsak, Teo, Yik-Ying, Chaiprasert, Angkana
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5861094/
https://www.ncbi.nlm.nih.gov/pubmed/29559684
http://dx.doi.org/10.1038/s41598-018-23337-y
_version_ 1783308030781161472
author Faksri, Kiatichai
Xia, Eryu
Ong, Rick Twee-Hee
Tan, Jun Hao
Nonghanphithak, Ditthawat
Makhao, Nampueng
Thamnongdee, Nongnard
Thanormchat, Arirat
Phurattanakornkul, Arisa
Rattanarangsee, Somcharn
Ratanajaraya, Chate
Suriyaphol, Prapat
Prammananan, Therdsak
Teo, Yik-Ying
Chaiprasert, Angkana
author_facet Faksri, Kiatichai
Xia, Eryu
Ong, Rick Twee-Hee
Tan, Jun Hao
Nonghanphithak, Ditthawat
Makhao, Nampueng
Thamnongdee, Nongnard
Thanormchat, Arirat
Phurattanakornkul, Arisa
Rattanarangsee, Somcharn
Ratanajaraya, Chate
Suriyaphol, Prapat
Prammananan, Therdsak
Teo, Yik-Ying
Chaiprasert, Angkana
author_sort Faksri, Kiatichai
collection PubMed
description Tuberculous meningitis (TBM) is a severe form of tuberculosis with a high mortality rate. The factors associated with TBM pathogenesis are still unclear. Using comparative whole-genome sequence analysis we compared Mycobacterium tuberculosis (Mtb) isolates from cerebrospinal fluid of TBM cases (n = 73) with those from sputum of pulmonary tuberculosis (PulTB) patients (n = 220) from Thailand. The aim of this study was to seek genetic variants of Mtb associated with TBM. Regardless of Mtb lineage, we found 242 variants that were common to all TBM isolates. Among these variants, 28 were missense SNPs occurring mainly in the pks genes (involving polyketide synthesis) and the PE/PPE gene. Six lineage-independent SNPs were commonly found in TBM isolates, two of which were missense SNPs in Rv0532 (PE_PGRS6). Structural variant analysis revealed that PulTB isolates had 14 genomic regions containing 2–3-fold greater read depth, indicating higher copy number variants and half of these genes belonged to the PE/PPE gene family. Phylogenetic analysis revealed only two small clusters of TBM clonal isolates without support from epidemiological data. This study reported genetic variants of Mtb commonly found in TBM patients compared to PulTB patients. Variants associated with TBM disease warrant further investigation.
format Online
Article
Text
id pubmed-5861094
institution National Center for Biotechnology Information
language English
publishDate 2018
publisher Nature Publishing Group UK
record_format MEDLINE/PubMed
spelling pubmed-58610942018-03-26 Comparative whole-genome sequence analysis of Mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients Faksri, Kiatichai Xia, Eryu Ong, Rick Twee-Hee Tan, Jun Hao Nonghanphithak, Ditthawat Makhao, Nampueng Thamnongdee, Nongnard Thanormchat, Arirat Phurattanakornkul, Arisa Rattanarangsee, Somcharn Ratanajaraya, Chate Suriyaphol, Prapat Prammananan, Therdsak Teo, Yik-Ying Chaiprasert, Angkana Sci Rep Article Tuberculous meningitis (TBM) is a severe form of tuberculosis with a high mortality rate. The factors associated with TBM pathogenesis are still unclear. Using comparative whole-genome sequence analysis we compared Mycobacterium tuberculosis (Mtb) isolates from cerebrospinal fluid of TBM cases (n = 73) with those from sputum of pulmonary tuberculosis (PulTB) patients (n = 220) from Thailand. The aim of this study was to seek genetic variants of Mtb associated with TBM. Regardless of Mtb lineage, we found 242 variants that were common to all TBM isolates. Among these variants, 28 were missense SNPs occurring mainly in the pks genes (involving polyketide synthesis) and the PE/PPE gene. Six lineage-independent SNPs were commonly found in TBM isolates, two of which were missense SNPs in Rv0532 (PE_PGRS6). Structural variant analysis revealed that PulTB isolates had 14 genomic regions containing 2–3-fold greater read depth, indicating higher copy number variants and half of these genes belonged to the PE/PPE gene family. Phylogenetic analysis revealed only two small clusters of TBM clonal isolates without support from epidemiological data. This study reported genetic variants of Mtb commonly found in TBM patients compared to PulTB patients. Variants associated with TBM disease warrant further investigation. Nature Publishing Group UK 2018-03-20 /pmc/articles/PMC5861094/ /pubmed/29559684 http://dx.doi.org/10.1038/s41598-018-23337-y Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Faksri, Kiatichai
Xia, Eryu
Ong, Rick Twee-Hee
Tan, Jun Hao
Nonghanphithak, Ditthawat
Makhao, Nampueng
Thamnongdee, Nongnard
Thanormchat, Arirat
Phurattanakornkul, Arisa
Rattanarangsee, Somcharn
Ratanajaraya, Chate
Suriyaphol, Prapat
Prammananan, Therdsak
Teo, Yik-Ying
Chaiprasert, Angkana
Comparative whole-genome sequence analysis of Mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients
title Comparative whole-genome sequence analysis of Mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients
title_full Comparative whole-genome sequence analysis of Mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients
title_fullStr Comparative whole-genome sequence analysis of Mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients
title_full_unstemmed Comparative whole-genome sequence analysis of Mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients
title_short Comparative whole-genome sequence analysis of Mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients
title_sort comparative whole-genome sequence analysis of mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5861094/
https://www.ncbi.nlm.nih.gov/pubmed/29559684
http://dx.doi.org/10.1038/s41598-018-23337-y
work_keys_str_mv AT faksrikiatichai comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT xiaeryu comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT ongricktweehee comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT tanjunhao comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT nonghanphithakditthawat comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT makhaonampueng comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT thamnongdeenongnard comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT thanormchatarirat comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT phurattanakornkularisa comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT rattanarangseesomcharn comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT ratanajarayachate comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT suriyapholprapat comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT prammananantherdsak comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT teoyikying comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients
AT chaiprasertangkana comparativewholegenomesequenceanalysisofmycobacteriumtuberculosisisolatedfromtuberculousmeningitisandpulmonarytuberculosispatients