Bogdan Efimenko

From life history to proteome via mutagenesis: an ecological footprint in genome evolution

The paper examines how mutational pressures from life history and ecology shape mitochondrial genome and proteome evolution by comparing long-lived termites with short-lived cockroaches.

Mutational bias shapes protein evolution across RNA viruses

The paper quantifies how mutational biases shape protein evolution in RNA viruses by analyzing SARS-CoV-2 and 34 other species, showing that mutational spectra predict amino acid composition changes and deviations indicate selection pressures.

BacNeMu: neutral mutation spectra reconstruction pipeline for bacteria

BacNeMu reconstructs bacterial neutral mutation spectra using phylogenetic analysis and open databases, matching mutation accumulation experiments with less time.

NeMu: A Comprehensive Pipeline for Accurate Reconstruction of Neutral Mutation Spectra from Evolutionary Data

NeMu is a pipeline that reconstructs neutral mutation spectra from evolutionary data by analyzing all mutations on an evolutionary timescale.

Mitochondrial mutation spectrum in Chordates: damage versus replication signatures, causes, and dynamics

The paper analyzes the mitochondrial mutation spectrum in chordates, identifying three main mutation signatures and their underlying causes, with implications for age-related disease prevention.

Isolation of highly purified genomic material from mitochondria of muscle tissue cells

The paper describes a method for isolating highly purified mitochondrial DNA from muscle tissue and evaluates its purity to avoid contamination from nuclear DNA.