71 documents found, page 1 of 8

Whole-genome sequencing-based surveillance system for Mycobacterium tuberculosi...

To improve TB surveillance and diagnosis, the Portuguese National Reference Laboratory (NRL) began implementing whole-genome sequencing (WGS) for all RR/MDR-TB cases in 2019. Since 2020, this approach has been expanded to indiscriminately include all received isolates. We describe the current WGS-based surveillance system in Portugal, framed in prospective and retrospective data (n = 1171), upgraded for antimic...

Probe-based metagenomic pathogen detection: advancing laboratory capacity for c...

Probe-based pathogen enrichment, followed by NGS, is a promising tool for complex diagnosis, overcoming traditional challenges of shotgun metagenomics, namely small microbial/human genetic material ratio and demanding computational resources. Here, we assessed the combined detection performance of two Illumina probe-based panels, the Respiratory and the Urinary Pathogen ID panels (RPIP and UPIP), using 99 clini...

Genomic diversity and resistance profile of Mycobacterium avium clinical strain...

Introduction: In recent years, opportunistic infections with nontuberculous mycobacteria (NTM) have gained increasing importance in public health, with Mycobacterium avium being the most responsible species for the increase of human disease cases. These infections manifest mainly at the respiratory level, and disseminated infection may also occur, especially in immunocompromised individuals. Currently, the mode...

Genome-scale analysis of Mycobacterium avium complex isolates from Portugal rev...

Opportunist infections caused by nontuberculous mycobacteria (NTM) have emerged as a significant public health problem. Among these, species of the Mycobacterium avium complex (MAC) are the main responsible for the increase in the number of human disease cases. In order to address the current needs in the detection and surveillance of MAC disease cases, we evaluated different species classification methodologie...

Genome-Scale Characterization of Mycobacterium abscessus Complex Isolates from ...

The Mycobacterium abscessus complex (MABC) is an emerging, difficult to treat, multidrug-resistant nontuberculous mycobacteria responsible for a wide spectrum of infections and associated with an increasing number of cases worldwide. Dominant circulating clones (DCCs) of MABC have been genetically identified as groups of strains associated with higher prevalence, higher levels of antimicrobial resistance, and w...

Microevolution of a Mycobacteroides abscessus subsp. bolletii strain in a clini...

Mycobacteroides abscessus complex (MAB), a fast-growing nontuberculous mycobacterium, is emerging as a significant infectious disease threat, due to both intrinsic and acquired resistance mechanisms to antibiotics and disinfectants and the need for extensive and multidrug regimens for treatment. Despite the prolonged regimens, outcomes are poor and persistence cases have been reported. Here, we describe clinica...

Molecular Capture of Mycobacterium tuberculosis Genomes Directly from Clinical ...

The application of whole genome sequencing of Mycobacterium tuberculosis directly on clinical samples has been investigated as a means to avoid the time-consuming need for culture isolation that can lead to a potential prolonged suboptimal antibiotic treatment. We aimed to provide a proof-of-concept regarding the application of the molecular capture of M. tuberculosis genomes directly from positive sputum sampl...

Mass Spectrometry-Based Proteomic and Metabolomic Profiling of Serum Samples fo...

Tuberculosis (TB) is a transmissible disease listed as one of the 10 leading causes of death worldwide (10 million infected in 2019). A swift and precise diagnosis is essential to forestall its transmission, for which the discovery of effective diagnostic biomarkers is crucial. In this study, we aimed to discover molecular biomarkers for the early diagnosis of tuberculosis. Two independent cohorts comprising 29...

WGS-based dual strategy for the identification of key targets to enhance beta-l...

Uncovering Beta-Lactam Susceptibility Patterns in Clinical Isolates of Mycobact...

The increasing threat of drug resistance and a stagnated pipeline of novel therapeutics endanger the eradication of tuberculosis. Beta-lactams constitute promising additions to the current therapeutic arsenal and two carbapenems are included in group C of medicines recommended by the WHO for use in longer multidrug-resistant tuberculosis regimens. However, the determinants underlining diverse Mycobacterium tube...