Autor(es):
Guimar?es, Arthur Emil dos Santos ; Sharma, Abhinav ; Furlaneto, Ismari Perini ; Rutaihwa, Liliana ; Cardoso, Jedson Ferreira ; Concei??o, Mar?lia Lima da ; Spinass?, Liz?nia Borges ; Machado, Edson ; Lopes, Maria Luiza ; Duarte, Rafael Silva ; Gagneux, Sebastien ; Suffys, Philip Noel ; Lima, Karla Val?ria Batista ; Concei??o, Emilyn Costa
Data: 2021
Origem: Oasisbr
Assunto(s): Tuberculose / tratamento farmacol?gico; Mycobacterium tuberculosis / patogenicidade; Genoma / efeitos dos f?rmacos; Sequenciamento Completo do Genoma; Resist?ncia a Medicamentos
Descrição
CNPq (207,071/2014-4), CAPES (Finance Code 001), Swiss National Science Foundation (grants 310030_166687 and IZRJZ3_164171)
Universidade do Estado do Par?. Instituto de Ci?ncias Biol?gicas e da Sa?de. P?s-Gradua??o em Biologia Parasit?ria na Amaz?nia. Bel?m, PA, Brasil / Minist?rio da Sa?de. Secretaria de Vigil?ncia em Sa?de. Instituto Evandro Chagas. Ananindeua, PA, Brasil.
International Institute of Information Technology. Department of Data Science. Bangalore, India.
Universidade do Estado do Par?. Instituto de Ci?ncias Biol?gicas e da Sa?de. P?s-Gradua??o em Biologia Parasit?ria na Amaz?nia. Bel?m, PA, Brasil.
University of Basel. Basel, Switzerland / Swiss Tropical & Public Health Institute. Basel, Switzerland.
Minist?rio da Sa?de. Secretaria de Vigil?ncia em Sa?de. Instituto Evandro Chagas. Centro de Inova??es Tecnol?gicas. Ananindeua, PA, Brasil.
Universidade do Estado do Par?. Instituto de Ci?ncias Biol?gicas e da Sa?de. P?s-Gradua??o em Biologia Parasit?ria na Amaz?nia. Bel?m, PA, Brasil / Minist?rio da Sa?de. Secretaria de Vigil?ncia em Sa?de. Instituto Evandro Chagas. Ananindeua, PA, Brasil.
Universidade Federal do Esp?rito Santo. N?cleo de Doen?as Infecciosas. Vit?ria, ES, Brasil.
Funda??o Oswaldo Cruz. Instituto Oswaldo Cruz. Laborat?rio de Gen?tica Molecular de Microrganismos. Rio de Janeiro, RJ, Brasil.
Universidade do Estado do Par?. Instituto de Ci?ncias Biol?gicas e da Sa?de. P?s-Gradua??o em Biologia Parasit?ria na Amaz?nia. Bel?m, PA, Brasil.
Universidade Federal do Rio de Janeiro. Instituto de Microbiologia Professor Paulo de G?es. Laborat?rio de Micobact?rias. Rio de Janeiro, RJ, Brasil.
University of Basel. Basel, Switzerland / Swiss Tropical & Public Health Institute. Basel, Switzerland.
Funda??o Oswaldo Cruz. Instituto Oswaldo Cruz. Laborat?rio de Biologia Molecular Aplicada a Micobact?rias. Rio de Janeiro, RJ, Brasil.
Universidade do Estado do Par?. Instituto de Ci?ncias Biol?gicas e da Sa?de. P?s-Gradua??o em Biologia Parasit?ria na Amaz?nia. Bel?m, PA, Brasil / Minist?rio da Sa?de. Secretaria de Vigil?ncia em Sa?de. Instituto Evandro Chagas. Ananindeua, PA, Brasil.
Funda??o Oswaldo Cruz. Instituto Oswaldo Cruz. Laborat?rio de Biologia Molecular Aplicada a Micobact?rias. Rio de Janeiro, RJ, Brasil / Funda??o Oswaldo Cruz. Instituto Nacional de Infectologia Evandro Chagas. Programa de P?s-Gradua??o em Pesquisa Cl?nica e Doen?as Infecciosas. Rio de Janeiro, RJ, Brasil / Funda??o Oswaldo Cruz. Instituto Nacional de Infectologia Evandro Chagas. Laborat?rio de Bacteriologia e Bioensaios em Micobact?rias. Rio de Janeiro, RJ, Brasil.
BACKGROUND The evaluation of procedures for drug susceptibility prediction of Mycobacterium tuberculosis based on genomic data against the conventional reference method test based on culture is realistic considering the scenario of growing number of tools proposals based on whole-genome sequences (WGS). OBJECTIVES This study aimed to evaluate drug susceptibility testing (DST) outcome based on WGS tools and the phenotypic methods performed on isolates of M. tuberculosis Lineage 1 from the state of Par?, Brazil, generally associated with low levels of drug resistance. METHODOLOGY Culture based DST was performed using the Proportion Method in L?wenstein-Jensen medium on 71 isolates that had been submitted to WGS. We analysed the seven main genome sequence-based tools for resistance and lineage prediction applied to M. tuberculosis and for comparison evaluation we have used the Kappa concordance test. FINDINGS When comparing the WGS-based tools against the DST, we observed the highest level of agreement using TBprofiler. Among the tools, TB-profiler, KvarQ and Mykrobe were those which identified the largest number of TB-MDR cases. Comparing the four most sensitive tools regarding resistance prediction, agreement was observed for 43 genomes. MAIN CONCLUSIONS Drug resistance profiling using next-generation sequencing offers rapid assessment of resistanceassociated mutations, therefore facilitating rapid access to effective treatment.
