Ilja Bezrukov

This paper presents an AI-assisted toolkit for digitizing herbarium collections in resource-constrained settings, showing it reduces time and cost compared to manual methods.

The paper shows a trade-off between competitive ability and host colonization in Pseudomonas populations has persisted for centuries.

The paper examines transcriptome organization in wild Arabidopsis thaliana populations and finds that biotic-response networks are well conserved, while other networks are reorganized in natural settings.

The paper examines cell-type specific gene regulatory responses in Arabidopsis during immune activation, identifying distinct defense strategies and regulatory modules.

The study shows that field conditions override the growth-defense tradeoff in Arabidopsis thaliana by modulating ACD6 activity, unlike greenhouse conditions.

The paper improves somatic mutation detection in a highly heterozygous oak genome by using a read assignment strategy, increasing the mutation rate estimate by fivefold.

The paper investigates how genetic background modulates the effects of FLC mutants on flowering and other traits in Arabidopsis thaliana, revealing cryptic variation and pleiotropy.

This study analyzes mitochondrial and chloroplast genomes of Arabidopsis thaliana to show that large repeats correlate with geography and phenotypes, and identify novel ORFs potentially from horizontal gene transfer.

Gretl evaluates genome graphs to identify genetic variation patterns and improve analysis of complex genomic data.

Gfa2bin converts genome graphs to pan-genomic genotypes for GWAS, identifying additional associations with higher significance than SNP-based approaches in Arabidopsis thaliana.

TIPPo assembles organellar genomes using HiFi data without reference genomes or nuclear information, achieving complete chloroplast assemblies and improved mitochondrial results compared to existing tools.

The paper investigates gene expression patterns in Arabidopsis thaliana hybrids, finding that non-additive gene expression is common and correlates with F1 rosette size, highlighting under-dominance as a key factor in growth trajectories.

The paper shows that the number of RPW8/HR repeats influences hybrid necrosis severity when combined with specific RPP7 variants in Arabidopsis thaliana.