Bouke Catherine de Jong

Direct thin-layer agar for bedaquiline-susceptibility testing of Mycobacterium tuberculosis at BSL2 level yields high accuracy in 15 days from sputum processing.

This paper evaluates thin-layer agar (TLA) for faster, accurate bedaquiline-susceptibility testing of Mycobacterium tuberculosis directly from sputum samples, achieving high sensitivity and reducing time to result.

Onset of infectiousness explains differences in transmissibility across Mycobacterium tuberculosis lineages

The paper uses genomic data and phylodynamic models to show that Mycobacterium tuberculosis lineages have similar infectiousness durations but differ in onset timing, affecting transmission dynamics.

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.

Single nucleotide variation catalogue from clinical isolates mapped on tertiary and quaternary structures of ESX-1 related proteins reveals critical regions as putative Mtb therapeutic targets

The paper identifies conserved regions in ESX-1 related proteins by mapping SNVs from MTB isolates onto protein structures, highlighting potential therapeutic targets.

Mycobacterium tuberculosis complex lineage 5 exhibits high levels of within-lineage genomic diversity and differing gene content compared to the type strain H37Rv

The paper identifies high within-lineage genomic diversity and gene content differences in Mycobacterium tuberculosis complex lineage 5 compared to H37Rv, affecting transmission analysis and suggesting the need for alternative reference genomes.

Phylogenomics of Mycobacterium africanum reveals a new lineage and a complex evolutionary history

The paper analyzes genomes of Mycobacterium africanum strains to identify a new lineage and explore their evolutionary history and phylogeography.

Bridging the TB data gap: in silico extraction of rifampicin-resistant tuberculosis diagnostic test results from whole genome sequence data

The paper develops a tool to convert whole genome sequencing data into rifampicin-resistant tuberculosis diagnostic test results, enabling analysis of RR-TB burden across different data sources.

Comparative genomics of Mycobacterium africanum Lineage 5 and Lineage 6 from Ghana suggests different ecological niches

The paper compares the genomes of Mycobacterium africanum Lineage 5 and 6 from Ghana, finding genomic diversity and selection pressure differences suggesting distinct ecological niches.