Systematic Review of Whole-Genome Sequencing Data To Predict Phenotypic Drug Resistance and Susceptibility in Swedish Mycobacterium tuberculosis Isolates, 2016 to 2018

被引：12

作者：

Enkirch, Theresa ^{[1
,2
]}

Werngren, Jim ^{[1
]}

Groenheit, Ramona ^{[1
]}

Alm, Erik ^{[1
,3
]}

Advani, Reza ^{[1
]}

Karlberg, Maria Lind ^{[1
]}

Mansjo, Mikael ^{[1
]}

机构：

[1] Publ Hlth Agcy Sweden, Dept Microbiol, Solna, Sweden

[2] European Ctr Dis Prevent & Control ECDC, European Programme Publ Hlth Microbiol Training E, Stockholm, Sweden

[3] European Ctr Dis Prevent & Control ECDC, Unit Surveillance & Response Support, Stockholm, Sweden

来源：

ANTIMICROBIAL AGENTS AND CHEMOTHERAPY | 2020年 / 64卷 / 05期

关键词：

drug resistance prediction; high-throughput nucleotide sequencing; microbial drug resistance; microbial sensitivity tests; tuberculosis; whole-genome sequencing;

D O I：

10.1128/AAC.02550-19

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

In this retrospective study, whole-genome sequencing (WGS) data generated on an Ion Torrent platform was used to predict phenotypic drug resistance profiles for first- and second-line drugs among Swedish clinical Mycobacterium tuberculosis isolates from 2016 to 2018. The accuracy was similar to 99% for all first-line drugs and 100% for four second-line drugs. Our analysis supports the introduction of WGS into routine diagnostics, which might, at least in Sweden, replace phenotypic drug susceptibility testing in the future.

引用

页数：4

共 8 条

[1] Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing [J].

Allix-Beguec, Caroline ;

Arandjelovic, Irena ;

Bi, Lijun ;

Beckert, Patrick ;

Bonnet, Maryline ;

Bradley, Phelim ;

Cabibbe, Andrea M. ;

Cancino-Munoz, Irving ;

Caulfield, Mark J. ;

Chaiprasert, Angkana ;

Cirillo, Daniela M. ;

Clifton, David ;

Comas, Inaki ;

Crook, Derrick W. ;

De Filippo, Maria R. ;

de Neeling, Han ;

Diel, Roland ;

Drobniewski, Francis A. ;

Faksri, Kiatichai ;

Farhat, Maha R. ;

Fleming, Joy ;

Fowler, Philip ;

Fowler, Tom A. ;

Gao, Qian ;

Gardy, Jennifer ;

Gascoyne-Binzi, Deborah ;

Gibertoni-Cruz, Ana-Luiza ;

Gil-Brusola, Ana ;

Golubchik, Tanya ;

Gonzalo, Ximena ;

Grandjean, Louis ;

He, Guangxue ;

Guthrie, Jennifer L. ;

Hoosdally, Sarah ;

Hunt, Martin ;

Iqbal, Zamin ;

Ismail, Nazir ;

Johnston, James ;

Khanzada, Faisal M. ;

Khor, Chiea C. ;

Kohl, Thomas A. ;

Kong, Clare ;

Lipworth, Sam ;

Liu, Qingyun ;

Maphalala, Gugu ;

Martinez, Elena ;

Mathys, Vanessa ;

Merker, Matthias ;

Miotto, Paolo ;

Mistry, Nerges .

NEW ENGLAND JOURNAL OF MEDICINE, 2018, 379 (15) :1403-1415

[2]

Miotto P, 2018, J CLIN MICROBIOL, V56, DOI [10.1128/jcm.01599-17, 10.1128/JCM.01599-17]

[3] Rapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study [J].

Pankhurst, Louise J. ;

Elias, Carlos del Ojo ;

Votintseva, Antonina A. ;

Walker, Timothy M. ;

Cole, Kevin ;

Davies, Jim ;

Fermont, Jilles M. ;

Gascoyne-Binzi, Deborah M. ;

Kohl, Thomas A. ;

Kong, Clare ;

Lemaitre, Nadine ;

Niemann, Stefan ;

Paul, John ;

Rogers, Thomas R. ;

Roycroft, Emma ;

Smith, E. Grace ;

Supply, Philip ;

Tang, Patrick ;

Wilcox, Mark H. ;

Wordsworth, Sarah ;

Wyllie, David ;

Xu, Li ;

Crook, Derrick W. .

LANCET RESPIRATORY MEDICINE, 2016, 4 (01) :49-58

[4] Rifampin Resistance Missed in Automated Liquid Culture System for Mycobacterium tuberculosis Isolates with Specific rpoB Mutations [J].

Rigouts, Leen ;

Gumusbog, Mourad ;

de Rijk, Willem Bram ;

Nduwamahoro, Elie ;

Uwizeye, Cecile ;

de Jong, Bouke ;

Van Deun, Armand .

JOURNAL OF CLINICAL MICROBIOLOGY, 2013, 51 (08) :2641-2645

[5] Mycobacterium tuberculosis resistance prediction and lineage classification from genome sequencing: comparison of automated analysis tools [J].

Schleusener, Viola ;

Koser, Claudio U. ;

Beckert, Patrick ;

Niemann, Stefan ;

Feuerriegel, Silke .

SCIENTIFIC REPORTS, 2017, 7

[6] Evaluation of whole genome sequencing and software tools for drug susceptibility testing of Mycobacterium tuberculosis [J].

van Beek, J. ;

Haanpera, M. ;

Smit, P. W. ;

Mentula, S. ;

Soini, H. .

CLINICAL MICROBIOLOGY AND INFECTION, 2019, 25 (01) :82-86

[7]

WHO, 2012, GLOBAL TUBERCULOSIS REPORT 2012, P1

[8]

World Health Organization, 2018, TECHN MAN DRUG SUSC

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