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References from How do monomorphic bacteria evolve? The Mycobacterium tuberculosis complex and the awkward population genetics of extreme clonality. Local targets link to admitted publications; unresolved targets remain external evidence.
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Phylogeny to function: PE/PPE protein evolution and impact on Mycobacterium tuberculosis pathogenicity
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Mycobacterium tuberculosis mutation rate estimates from different lineages predict substantial differences in the emergence of drug-resistant tuberculosis
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Where are the pseudogenes in bacterial genomes?
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Local adaptation of Mycobacterium tuberculosis on the Tibetan Plateau
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Mycobacterium tuberculosis clinical isolates carry mutational signatures of host immune environments
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ESX-1-Independent horizontal gene transfer by Mycobacterium tuberculosis complex strains
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Digitally barcoding Mycobacterium tuberculosis reveals in vivo infection dynamics in the macaque model of tuberculosis
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Do bacteria have population genetics?
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How clonal are bacteria?
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The role of IS6110 in the evolution of Mycobacterium tuberculosis
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Mutation rate and the emergence of drug resistance in Mycobacterium tuberculosis
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Bayesian inference of evolutionary histories under time-dependent substitution rates
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Multiple merger genealogies in outbreaks of Mycobacterium tuberculosis
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The molecular clock of Mycobacterium tuberculosis
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Local adaptation in populations of Mycobacterium tuberculosis endemic to the Indian Ocean Rim
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Transcontinental spread and evolution of Mycobacterium tuberculosis W148 European/Russian clade toward extensively drug resistant tuberculosis
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Gene inversion potentiates bacterial evolvability and virulence
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Universal patterns of purifying selection at noncoding positions in bacteria
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Impact of the tree prior on estimating clock rates during epidemic outbreaks
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Evaluating the contributions of purifying selection and progeny-skew in dictating within-host Mycobacterium tuberculosis evolution
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The population genomics of within-host Mycobacterium tuberculosis
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After the bottleneck: genome-wide diversification of the Mycobacterium tuberculosis complex by mutation, recombination, and natural selection
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Genetic draft, selective interference, and population genetics of rapid adaptation
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A new unifying theory of the pathogenesis of tuberculosis
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Extensive homoplasy but no evidence of convergent evolution of repeat numbers at MIRU loci in modern Mycobacterium tuberculosis lineages
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Codon usage in highly expressed genes of Haemophillus influenzae and Mycobacterium tuberculosis: translational selection versus mutational bias
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Transition bias influences the evolution of antibiotic resistance in Mycobacterium tuberculosis
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The role of selection in shaping diversity of natural M. tuberculosis populations
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How do monomorphic bacteria evolve? The Mycobacterium tuberculosis complex and the awkward population genetics of extreme clonality
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