TY - JOUR
T1 - Whole-genome sequencing analysis of multidrug-resistant Mycobacterium tuberculosis from Java, Indonesia
AU - Tania, Tryna
AU - Sudarmono, Pratiwi
AU - Kusumawati, R. Lia
AU - Rukmana, Andriansjah
AU - Pratama, Wahyu Agung
AU - Regmi, Sanjib Mani
AU - Kaewprasert, Orawee
AU - Chaiprasert, Angkana
AU - Chongsuvivatwong, Virasakdi
AU - Faksri, Kiatichai
N1 - Funding Information:
We would like to thank the Final Research Indexed International Publication Grant Program (PITTA 2018) Universitas Indonesia. Some partial support for the study was also provided by the Drug Resistant Tuberculosis Fund, Siriraj Foundation under the patronage of the late HRH Princess Galyani Vadhana and the FIC, NIH grant No. 5D43TW009522. K.F. is funded by the National Research Council of Thailand and Health System Research Institute (Grant No. 60-057 and 62-003).
Publisher Copyright:
001221 © 2020 The Authors.
PY - 2020/7/1
Y1 - 2020/7/1
N2 - Introduction. Multidrug-resistant tuberculosis (MDR-TB) is a major public health problem globally, including in Indonesia. Whole-genome sequencing (WGS) analysis has rarely been used for the study of TB and MDR-TB in Indonesia.Aim. We evaluated the use of WGS for drug-susceptibility testing (DST) and to investigate the population structure of drug-resistant Mycobacterium tuberculosis in Java, Indonesia.Methodology. Thirty suspected MDR-TB isolates were subjected to MGIT 960 system (MGIT)-based DST and to WGS. Phylogenetic analysis was done using the WGS data. Results obtained using MGIT-based DST and WGS-based DST were compared.Results. Agreement between WGS and MGIT was 93.33 % for rifampicin, 83.33 % for isoniazid and 76.67 % for streptomycin but only 63.33 % for ethambutol. Moderate WGS-MGIT agreement was found for second-line drugs including amikacin, kanamycin and fluoroquinolone (73.33-76.67 %). MDR-TB was more common in isolates of the East Asian Lineage (63.3%). No evidence of clonal transmission of DR-TB was found among members of the tested population.Conclusion. Our study demonstrated the applicability of WGS for DST and molecular epidemiology of DR-TB in Java, Indonesia. We found no transmission of DR-TB in Indonesia.
AB - Introduction. Multidrug-resistant tuberculosis (MDR-TB) is a major public health problem globally, including in Indonesia. Whole-genome sequencing (WGS) analysis has rarely been used for the study of TB and MDR-TB in Indonesia.Aim. We evaluated the use of WGS for drug-susceptibility testing (DST) and to investigate the population structure of drug-resistant Mycobacterium tuberculosis in Java, Indonesia.Methodology. Thirty suspected MDR-TB isolates were subjected to MGIT 960 system (MGIT)-based DST and to WGS. Phylogenetic analysis was done using the WGS data. Results obtained using MGIT-based DST and WGS-based DST were compared.Results. Agreement between WGS and MGIT was 93.33 % for rifampicin, 83.33 % for isoniazid and 76.67 % for streptomycin but only 63.33 % for ethambutol. Moderate WGS-MGIT agreement was found for second-line drugs including amikacin, kanamycin and fluoroquinolone (73.33-76.67 %). MDR-TB was more common in isolates of the East Asian Lineage (63.3%). No evidence of clonal transmission of DR-TB was found among members of the tested population.Conclusion. Our study demonstrated the applicability of WGS for DST and molecular epidemiology of DR-TB in Java, Indonesia. We found no transmission of DR-TB in Indonesia.
KW - Indonesia
KW - MDR-TB
KW - Mycobacterium tuberculosis
KW - whole-genome sequencing
UR - http://www.scopus.com/inward/record.url?scp=85088880861&partnerID=8YFLogxK
U2 - 10.1099/jmm.0.001221
DO - 10.1099/jmm.0.001221
M3 - Article
C2 - 32579102
AN - SCOPUS:85088880861
VL - 69
SP - 1013
EP - 1019
JO - Journal of Medical Microbiology
JF - Journal of Medical Microbiology
SN - 0022-2615
IS - 7
ER -
