Tuberculosis Research and Epidemiology

Agent-based model predicts that layered structure and 3D movement work synergistically to reduce bacterial load in 3D in vitro models of tuberculosis granuloma

The paper uses agent-based simulations to show that 3D spheroid structures and cell movement enhance bacterial control in tuberculosis granuloma models.

SNPs in genes related to the repair of damage to DNA in clinical isolates of M. tuberculosis: a transversal and longitudinal approach

This study compares SNPs in DNA repair genes between drug-sensitive and resistant M. tuberculosis isolates and describes their dynamics in longitudinal patient samples.

Systems genetics uncover new loci containing functional gene candidates in Mycobacterium tuberculosis-infected Diversity Outbred mice.

This study identifies new genetic loci and candidate genes associated with tuberculosis susceptibility in mice using systems genetics approaches.

Contingencies in biofilm adaptation of Mycobacterium tuberculosis

This study evolves Mycobacterium tuberculosis biofilms to examine adaptation mechanisms, finding that genetic variation and mutational biases influence replicability and that some biofilm-associated mutations are common in natural TB infections.

Single Cell Analysis of Peripheral TB-Associated Granulomatous Lymphadenitis

This study uses scRNA-seq to analyze granulomatous lymph nodes from TB patients, identifying cell types, signaling networks, and Mtb RNA detection in infected cells.

Systematic deconstruction of myeloid cell signaling in tuberculosis granulomas reveals IFN-γ, TGF-β, and time are associated with conserved myeloid diversity

This study uses multi-omics approaches to analyze myeloid cell diversity in TB granulomas and identifies IFN-γ, TGF-β, and time as factors driving macrophage diversity.

Intravenous Immunization with Triple Auxotrophs of Mycobacterium tuberculosis: A novel vaccine strategy against tuberculosis

This paper investigates a novel tuberculosis vaccine strategy using a triple auxotrophic Mtb strain, showing intravenous immunization provides superior protection compared to subcutaneous BCG in mice.

Mycolic acid and cholesterol induced transcriptomic adaptations in wild type and Mce complex ATPase subunit deleted strain of M. tuberculosis H37Rv

This study compares transcriptomic responses of wild type and mkl-deleted M. tuberculosis strains to cholesterol and mycolic acid, revealing differential gene expression patterns and insights into adaptation strategies.

A new method for detecting mixed Mycobacterium tuberculosis infection and reconstructing constituent strains provides insights into transmission

MixInfect2 accurately detects mixed Mycobacterium tuberculosis infections and estimates strain proportions, improving upon previous methods.

Cross species modeling reveals a role for the unfolded protein response in shaping the transcriptional reaction to Mycobacterium tuberculosis infection

The paper uses cross-species modeling to identify the unfolded protein response as a key factor in the transcriptional response to Mycobacterium tuberculosis infection.

Scalable De Novo Classification of Antibiotic Resistance of Mycobacterium Tuberculosis

This paper develops a machine learning classifier to predict antibiotic resistance in Mycobacterium tuberculosis using genomic data and achieves high accuracy for first-line antibiotics.

Mycobacterium tuberculosis FtsB and PerM interact via a C-terminal helix in FtsB to modulate cell division

The paper investigates the interaction between PerM and FtsB in Mycobacterium tuberculosis, showing that PerM stabilizes FtsB through a C-terminal helix, and suggests this interaction as a therapeutic target for persistent infections.

Genetic Stability of Mycobacterium smegmatis under the Stress of First-Line Antitubercular Agents: Assessing Mutagenic Potential

This study assesses the genetic stability of Mycobacterium smegmatis under first-line antitubercular agents, finding no significant increase in mutation rates but evidence of non-genetic adaptation and DNA repair activation.

Phylogenetic analysis of Mycobacterium bovis Reveals Evidence Of Animal And Zoonotic Tuberculosis Transmission Between Morocco And European Countries

This study uses whole genome sequencing of M. bovis isolates to analyze phylogenetic links between Morocco and European countries, revealing transmission routes and zoonotic connections.

A Mycobacterium tuberculosis secreted virulence factor disrupts host snRNP biogenesis

This paper identifies a Mycobacterium tuberculosis secreted protein that disrupts host snRNP biogenesis, altering RNA splicing and contributing to pathogenesis.

Genetic diversity within diagnostic sputum samples is mirrored in the culture of Mycobacterium tuberculosis

This study shows that culturing Mycobacterium tuberculosis from sputum samples accurately mirrors the genetic diversity found in the original clinical samples, with high variant agreement and correlation.

MSMEG_0311 is a conserved essential polar protein involved in mycobacterium cell wall metabolism

The paper identifies MSMEG_0311 as an essential polar protein in mycobacteria involved in cell wall metabolism, showing growth defects and altered morphology upon its repression.

Quantitative measurement of antibiotic resistance in Mycobacterium tuberculosis reveals genetic determinants of resistance and susceptibility in a target gene approach

This study quantifies antibiotic resistance in tuberculosis using genomic data and MIC measurements to identify genetic determinants of resistance and hypersensitivity across multiple drugs.

A bovine pulmosphere model and multiomics analyses identify a signature of early host response to Mycobacterium tuberculosis infection

The paper introduces a 3D bovine pulmosphere model for M. tuberculosis infection and identifies a seven-gene/protein signature of early host response.

Integrative and comparative genomic analyses of mammalian macrophage responses to intracellular mycobacterial pathogens

This study integrates multi-omics data from bovine and human macrophages infected with M. bovis and M. tuberculosis to identify genes and pathways associated with resistance to mycobacterial infection.

Analysis of the Cross-Study Replicability of Tuberculosis Gene Signatures Using 49 Curated Transcriptomic Datasets

The paper curates 49 TB transcriptomic datasets into a resource to assess gene signature replicability and demonstrates improved diagnostic accuracy through ensembling.

Prolonged survival of a patient with active MDR-TB HIV co-morbidity: Insights from a Mycobacterium tuberculosis strain with a unique genomic deletion

The paper reports a case of prolonged survival in an HIV-co-infected patient with MDR-TB, linked to a unique genomic deletion in the Mtb strain.

Bringing TB genomics to the clinic: A comprehensive pipeline to predict antimicrobial susceptibility from genomic data, validated and accredited to ISO standards.

This paper develops and validates tbtAMR, a bioinformatics tool for predicting antimicrobial susceptibility from Mycobacterium tuberculosis genomic data, accredited to ISO standards for clinical use.

Population structure and history of Mycobacterium bovis European 3 clonal complex reveal transmission across ecological corridors of unrecognised importance in Portugal

The paper analyzes M. bovis transmission dynamics in Portugal using genomic and ecological data, revealing an unrecognised ecological corridor for disease spread between livestock and wildlife.

fastlin: an ultra-fast program for Mycobacterium tuberculosis complex lineage typing

fastlin rapidly and accurately types Mycobacterium tuberculosis complex lineages from sequencing data, detecting mixed-lineage strains and estimating proportions.

The MAGMA pipeline for comprehensive genomic analyses of clinical Mycobacterium tuberculosis samples

The MAGMA pipeline improves variant calling and drug resistance analysis for Mycobacterium tuberculosis samples with low coverage and high contamination.

Borderline rpoB mutations transmit at the same rate as common rpoB mutations in a tuberculosis cohort in Bangladesh

The paper examines transmission rates of borderline and common rpoB mutations in MDR-TB isolates from Bangladesh, finding no difference in transmission clustering between mutation types.

Estimating limit of detection of M. tuberculosis DNA as an analyte released from a chemically coated solid matrix and using a WHO-approved CB-NAAT platform.

The paper evaluates the limit of detection of M. tuberculosis DNA released from a cellulose matrix using a WHO-approved CB-NAAT platform, finding that 150, 500, and 1000 Mtb bacilli/mL can be detected.

Assessment and validation of enrichment and target capture approaches to improve Mycobacterium tuberculosis WGS from direct patient samples

The paper evaluates DNA decontamination methods and a new target enrichment protocol to improve Mycobacterium tuberculosis whole-genome sequencing from direct patient samples.

Machine learning and phylogenetic analysis allow for predicting antibiotic resistance in M. tuberculosis

The paper introduces a phylogeny-related parallelism score to improve machine learning prediction of antibiotic resistance in M. tuberculosis by incorporating evolutionary relationships.