F. Menardo

Understanding drivers of phylogenetic clustering and terminal branch lengths distribution in epidemics of Mycobacterium tuberculosis

This study investigates how epidemiological factors influence clustering and terminal branch lengths in Mycobacterium tuberculosis epidemics, showing they are not reliable indicators of transmission rates or epidemic dynamics.

An African origin for Mycobacterium bovis

The paper traces the origin of Mycobacterium bovis to East Africa and identifies its global dispersal patterns through phylogenetic and phylogeographic analysis.

A sister lineage of the Mycobacterium tuberculosis complex discovered in the African Great Lakes region

The paper identifies a new lineage of Mycobacterium tuberculosis complex, Lineage 8, found in the African Great Lakes region, and shows its evolutionary relationship to known lineages.

Multiple merger genealogies in outbreaks of Mycobacterium tuberculosis

This study uses Approximate Bayesian Computation to show that multiple merger coalescents better fit Mycobacterium tuberculosis outbreak data than the Kingman coalescent.

The molecular clock of Mycobacterium tuberculosis

This study systematically analyzes the molecular clock of Mycobacterium tuberculosis using 6,285 strains, finding wide variation in clocklike structure and SNP accumulation rates independent of calibration time.

Transition bias influences the evolution of antibiotic resistance in Mycobacterium tuberculosis

The paper shows transition bias drives antibiotic resistance mutations in Mycobacterium tuberculosis, suggesting mutation supply, not selection, is the cause.

Multiple Introductions of the Mycobacterium tuberculosis Lineage 2 Beijing into Africa over centuries

This study uses whole genome sequences to show that L2-Beijing tuberculosis strains were introduced multiple times into Africa from East and Southeast Asia over the past 300 years, likely due to hypervirulence and transmissibility.

A New Phylogenetic Framework for the Animal-adapted Mycobacterium tuberculosis Complex

This study analyzes 529 MTBC genomes to reveal the phylogenetic relationships and evolutionary history of animal-adapted MTBC ecotypes, identifying four clades and suggesting host shifts and demographic factors drive host tropism.