Olga Bochkareva

This study shows that complex nutrient environments drive genetic diversification in Bacteroides thetaiotaomicron through increased SNPs and DNA inversions, leading to adaptive traits like faster glucose depletion and amylopectin degradation.

This study tracks rapid genetic diversification of Bacteroides thetaiotaomicron in mono-associated mice over 28 days, identifying polymorphisms, phase-variable loci, and spatial variation in the gut.

The paper shows that basal gene expression in bacteria is not inert but consists of stochastic pulses that enhance fitness by accelerating growth and reducing lag times during environmental transitions.

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

The paper analyzes the evolution of secondary replicons in bacterial genomes, identifying two patterns: chromids with size correlated to the chromosome and megaplasmids with stable size.

PaReBrick identifies parallel rearrangements in bacterial genomes by analyzing synteny blocks and phylogenetic trees to detect events contributing to pathogenicity and adaptation.

This study analyzes genome rearrangements in Shigella and E. coli strains, finding high rearrangement rates and specific E3 ubiquitin ligases linked to pathogenicity.

The paper performs a pan-genomic analysis of Chlamydia species, showing genome stability with conserved core genes and evolvability in specific gene families due to host immune pressure.

The paper analyzes genome rearrangements and selection in Burkholderia species, finding non-random inversion patterns and potential phase variation mechanisms.

This paper analyzes the pan-genome structure and evolution of three Streptococcus species, finding dynamic open pan-genomes with strain-specific genes linked to virulence and adaptability.