A5004579706- Tuberculosis Research and Epidemiology
- Mycobacterium research and diagnosis
- Infectious Diseases and Mycology
- Infectious Diseases and Tuberculosis
- Diagnosis and treatment of tuberculosis
- vaccines and immunoinformatics approaches
- Genomics and Phylogenetic Studies
- Antibiotic Resistance in Bacteria
- Bacteriophages and microbial interactions
- HIV/AIDS drug development and treatment
- RNA and protein synthesis mechanisms
- Genomics and Rare Diseases
- Science and Education Research
- Health Education and Validation
- Actinomycetales infections and treatment
- Health, Nursing, Elderly Care
- Zoonotic diseases and public health
- Pneumocystis jirovecii pneumonia detection and treatment
- Nail Diseases and Treatments
- Biotechnology and Related Fields
- Leprosy Research and Treatment
- Infectious Disease Case Reports and Treatments
- Digital Imaging for Blood Diseases
- Hemoglobinopathies and Related Disorders
- Cholangiocarcinoma and Gallbladder Cancer Studies
Stellenbosch University
2021-2025
South African Medical Research Council
2021-2025
Instituto Evandro Chagas
2013-2024
Fundação Oswaldo Cruz
2020-2024
South African Tuberculosis Vaccine Initiative
2023-2024
National Research Foundation
2021-2024
Universidade Federal do Rio de Janeiro
2017-2022
University of Antwerp
2022
Commissariat à l'Énergie Atomique et aux Énergies Alternatives
2019
CEA Paris-Saclay
2019
The majority of investigations the epidemiology nontuberculous mycobacteria (NTM) have focused on highly developed nations with a low prevalence tuberculosis. In contrast, Para state north Brazil represents an area high tuberculosis and increasing NTM incidence. Toward goal understanding dynamics infection by all Mycobacterium species, we report patient characteristics identification strains isolated from sputum samples patients that were residents Para, in Amazon region, Northern Brazil,...
<ns3:p><ns3:bold>Background: </ns3:bold>Lineage 1 (L1) and 3 (L3) are two lineages of the<ns3:italic> Mycobacterium tuberculosis</ns3:italic> complex (MTBC) causing tuberculosis (TB) in humans. L1 L3 prevalent around the rim Indian Ocean, region that accounts for most world’s new TB cases. Despite their relevance this region, remain understudied.</ns3:p><ns3:p> <ns3:bold>Methods: </ns3:bold>We analyzed 2,938 2,030 whole genome sequences originating from 69 countries. We reconstructed...
Background: Lineage 1 (L1) and 3 (L3) are two lineages of the Mycobacterium tuberculosis complex (MTBC) causing (TB) in humans. L1 L3 prevalent around rim Indian Ocean, region that accounts for most world's new TB cases. Despite their relevance this region, remain understudied. Methods: We analyzed 2,938 2,030 whole genome sequences originating from 69 countries. reconstructed evolutionary history these identified genes under positive selection. Results: found a strongly asymmetric pattern...
Bedaquiline, an antimicrobial used to treat drug-resistant tuberculosis (DR-TB), was introduced in Brazil October 2021. Monitoring the emergence and transmission of DR-TB is crucial for implementing public health control spread DR strains Mycobacterium . To measure its impact on multi-drug treatment scheme state Pará, we aimed conduct genomic surveillance after bedaquiline Brazil. Individuals treated between 2021 December 2022, reference hospital cases from were included study. Clinical...
ABSTRACT Priestia megaterium strain AB-S79 isolated from active gold mine soil previously expressed in vitro heavy metal resistance and has a 5.7 Mb genome useful for biotechnological exploitation. This study used web-based bioinformatic resources to analyze P. genomic relatedness, decipher its secondary metabolite biosynthetic gene clusters (BGCs), better comprehend taxa. Genes were highly conserved across the 14 P . genomes examined here. The pangenome reflected total of 61,397...
The MTBseq pipeline, published in 2018, was designed to address bioinformatics challenges tuberculosis research using whole-genome sequencing data. It the first publicly available pipeline on Github perform full analysis of WGS data for M. encompassing quality control through mapping, variant calling lineage classification, drug resistance prediction, and phylogenetic inference. However, pipeline's architecture is not optimal high-performance computing or cloud environments, which often...
Rio de Janeiro is endemic for tuberculosis (TB) and presents the second largest prevalence of disease in Brazil. Here, we present bacterial population structure 218 isolates Mycobacterium tuberculosis, derived from 186 patients that were diagnosed between January 2008 December 2009. Genotypes generated by means spoligotyping, 24 MIRU-VNTR typing presence fbpC103, RDRio RD174. The results confirmed earlier data predominant genotypes are those Euro American Lineages (99%). However, observed...
Ananindeua city, State of Pará, North Brazil, is a hyperendemic area for tuberculosis (TB), with cure rate below the recommendation by Brazilian Ministry Health. We aimed to describe: (I) TB incidence coefficient municipality comparatively against data; (II) treatment outcomes; (III) compare socioeconomic and epidemiological characteristics abandonment versus outcome; (IV) evaluate risk factors associated in from 2017 2021. This retrospective, descriptive, cross-sectional study which used...
Oxford Nanopore Technologies (ONT) sequencing is a promising technology. We assessed the performance of new ONT R10 flowcells and V14 rapid chemistry for Mtb whole genome Mycobacterium tuberculosis ( ) DNA extracted from clinical primary liquid cultures (CPLCs). Using recommended protocols MinION Mk1C, R10.4.1 flowcells, Rapid Sequencing Kit on six CPLC samples, we obtained pooled library yield 10.9 ng/μl, generated 1.94 Gb sequenced bases 214k reads after 48h in first run. Only half (49%)...
Kazakhstan remains a high-burden TB prevalence country with concomitent of multi-drug resistant tuberculosis. For this reason, we performed an in depth genetic diversity and population structure characterization Mycobacterium tuberculosis complex (MTC) both patient community benefit.A convenience sample 700 MTC DNA cultures extracts from 630 patients recruited 12 out 14 regions Kazakhstan, between 2010 2015, was independently studied by high-throughput hybridization-based methods, TB-SPRINT...
A previous study in Pará, Northern Brazil, described a strain of Mycobacterium tuberculosis with unique genotype (SIT2517/T1) associated multidrug-resistant (MDR-TB). To improve our understanding MDR-TB transmission dynamics these strains within this region, we performed phenotypic and genotypic drug susceptibility testing (pDST/gDST), 24-loci mycobacterial interspersed repetitive units (MIRU-VNTR) genotyping, whole-genome sequencing (WGS) geo-epidemiology analysis. Of the 28 SIT2517/T1...
Tuberculosis (TB) is an infectious communicable disease, which despite global efforts, still needs special attention in regions with difficult access. This study aims to describe the spatial and epidemiological trends of TB incidences from 2013 2018 Marajó Island, Amazonian region, Pará, Brazil. We have obtained secondary data Brazilian databases performed geospatial statistical analyses on for new cases, relapses, re-admissions. From 2018, 749 cases were reported, diagnostics (culture) was...
Lineage 1 (L1) is one of seven Mycobacterium tuberculosis complex (MTBC) lineages. The objective this study was to improve the taxonomy L1 using phylogenetic SNPs, and look for origin main sublineage prevalent in Para, Brazil. We developed a high-throughput SNPs-typing assay based on 12-L1-specific SNPs. This allowed us experimentally retrieve SNP patterns nine these twelve SNPs 277 isolates previously tentatively assigned spoligotyping-based sublineages. Three collections were used:...
Background: The rate of tuberculosis (TB) infection among the prison population (PP) in Brazil is 28 times higher than that general population, and environment favors spread TB. Objective: To describe TB transmission dynamics drug resistance profiles PP using whole-genome sequencing (WGS). Methods: This was a retrospective study Mycobacterium cultivated from people incarcerated 55 prisons between 2016 2019; only one isolate per prisoner included. Information about movement to another...
The present study aimed to determine the genetic diversity of isolates Mycobacterium tuberculosis (Mtb) from presumed drug resistant patients several states Brazil. had been submitted conventional susceptibility testing for first- and second-line drugs. Multidrug-resistant (MDR-TB) (54.8%) was most frequent phenotypic resistance profile, in addition an important high frequency pre-extensively (p-XDR-TB) (9.2%). Using whole-genome sequencing (WGS), we characterized 298 Mtb Besides analysis...
Abstract Lack of routine surveillance in countries endemic for bovine tuberculosis (TB) and limited laboratory support contributes to the inability differentiate Mycobacterium Complex species, leading an underestimated burden disease. Here, Whole-Genome Sequencing bovis isolated from tissues with TB-like lesions obtained cattle buffalos at Marajó Island, Brazil, demonstrates that recent transmission M. is ongoing distinct sites. Moreover, epidemiology this setting herein found be dominated...
Mycobacterium tuberculosis (Mtb) Central Asian Strain (CAS) Lineage 3 (L3) genotype is predominantly found in East-Africa, Central-Asia, Western-Asia, and South-Asia; however, a new spoligotyping CAS/SIT2545 was northern regions of Brazil. We aimed to characterize describe the genetic diversity perform phylogenetic assessment this novel genotype. performed 24-MIRU-VNTR loci Whole-genome sequencing (WGS) six Brazilian isolates previously spoligotyped. The libraries were prepared using...