Literature DB >> 32122893

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

Theresa Enkirch1,2, Jim Werngren3, Ramona Groenheit1, Erik Alm1,4, Reza Advani1, Maria Lind Karlberg1, Mikael Mansjö1.   

Abstract

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 ∼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.
Copyright © 2020 American Society for Microbiology.

Entities:  

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

Mesh：

Year:  2020        PMID： 32122893      PMCID： PMC7179598          DOI： 10.1128/AAC.02550-19

Source DB:  PubMed          Journal:  Antimicrob Agents Chemother        ISSN： 0066-4804            Impact factor:   5.191


  6 in total

1.  Evaluation of whole genome sequencing and software tools for drug susceptibility testing of Mycobacterium tuberculosis.

Authors:  J van Beek; M Haanperä; P W Smit; S Mentula; H Soini
Journal:  Clin Microbiol Infect       Date:  2018-04-11       Impact factor: 8.067

2.  Mycobacterium tuberculosis resistance prediction and lineage classification from genome sequencing: comparison of automated analysis tools.

Authors:  Viola Schleusener; Claudio U Köser; Patrick Beckert; Stefan Niemann; Silke Feuerriegel
Journal:  Sci Rep       Date:  2017-04-20       Impact factor: 4.379

3.  Role of Disputed Mutations in the rpoB Gene in Interpretation of Automated Liquid MGIT Culture Results for Rifampin Susceptibility Testing of Mycobacterium tuberculosis.

Authors:  Paolo Miotto; Andrea M Cabibbe; Emanuele Borroni; Massimo Degano; Daniela M Cirillo
Journal:  J Clin Microbiol       Date:  2018-04-25       Impact factor: 5.948

4.  Rifampin resistance missed in automated liquid culture system for Mycobacterium tuberculosis isolates with specific rpoB mutations.

Authors:  Leen Rigouts; Mourad Gumusboga; Willem Bram de Rijk; Elie Nduwamahoro; Cécile Uwizeye; Bouke de Jong; Armand Van Deun
Journal:  J Clin Microbiol       Date:  2013-06-12       Impact factor: 5.948

5.  Rapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study.

Authors:  Louise J Pankhurst; Carlos Del Ojo Elias; Antonina A Votintseva; Timothy M Walker; Kevin Cole; Jim Davies; Jilles M Fermont; Deborah M Gascoyne-Binzi; Thomas A Kohl; Clare Kong; Nadine Lemaitre; Stefan Niemann; John Paul; Thomas R Rogers; Emma Roycroft; E Grace Smith; Philip Supply; Patrick Tang; Mark H Wilcox; Sarah Wordsworth; David Wyllie; Li Xu; Derrick W Crook
Journal:  Lancet Respir Med       Date:  2015-12-04       Impact factor: 102.642

6.  Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing.

Authors:  Caroline Allix-Béguec; Irena Arandjelovic; Lijun Bi; Patrick Beckert; Maryline Bonnet; Phelim Bradley; Andrea M Cabibbe; Irving Cancino-Muñoz; Mark J Caulfield; Angkana Chaiprasert; Daniela M Cirillo; David A Clifton; Iñaki Comas; Derrick W Crook; Maria R De Filippo; Han de Neeling; Roland Diel; Francis A Drobniewski; Kiatichai Faksri; Maha R Farhat; Joy Fleming; Philip Fowler; Tom A Fowler; Qian Gao; Jennifer Gardy; Deborah Gascoyne-Binzi; Ana-Luiza Gibertoni-Cruz; Ana Gil-Brusola; Tanya Golubchik; Ximena Gonzalo; Louis Grandjean; Guangxue He; Jennifer L Guthrie; Sarah Hoosdally; Martin Hunt; Zamin Iqbal; Nazir Ismail; James Johnston; Faisal M Khanzada; Chiea C Khor; Thomas A Kohl; Clare Kong; Sam Lipworth; Qingyun Liu; Gugu Maphalala; Elena Martinez; Vanessa Mathys; Matthias Merker; Paolo Miotto; Nerges Mistry; David A J Moore; Megan Murray; Stefan Niemann; Shaheed V Omar; Rick T-H Ong; Tim E A Peto; James E Posey; Therdsak Prammananan; Alexander Pym; Camilla Rodrigues; Mabel Rodrigues; Timothy Rodwell; Gian M Rossolini; Elisabeth Sánchez Padilla; Marco Schito; Xin Shen; Jay Shendure; Vitali Sintchenko; Alex Sloutsky; E Grace Smith; Matthew Snyder; Karine Soetaert; Angela M Starks; Philip Supply; Prapat Suriyapol; Sabira Tahseen; Patrick Tang; Yik-Ying Teo; Thuong N T Thuong; Guy Thwaites; Enrico Tortoli; Dick van Soolingen; A Sarah Walker; Timothy M Walker; Mark Wilcox; Daniel J Wilson; David Wyllie; Yang Yang; Hongtai Zhang; Yanlin Zhao; Baoli Zhu
Journal:  N Engl J Med       Date:  2018-09-26       Impact factor: 91.245
  6 in total
  2 in total

1.  Evaluation of whole-genome sequence to predict drug resistance of nine anti-tuberculosis drugs and characterize resistance genes in clinical rifampicin-resistant Mycobacterium tuberculosis isolates from Ningbo, China.

Authors:  Yang Che; Yi Lin; Tianchi Yang; Tong Chen; Guoxin Sang; Qin Chen; Tianfeng He
Journal:  Front Public Health       Date:  2022-08-18

2.  Epidemiological cut-off values for a 96-well broth microdilution plate for high-throughput research antibiotic susceptibility testing of M. tuberculosis.

Authors: 
Journal:  Eur Respir J       Date:  2022-10-13       Impact factor: 33.795
  2 in total

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