K. Fukushima

Subgenome dominance shapes novel gene evolution in the decaploid pitcher plant Nepenthes gracilis

This study shows how subgenome dominance in the decaploid pitcher plant Nepenthes gracilis contributes to novel gene evolution linked to its carnivorous traits and dioecy.

Facilitative interaction networks in experimental microbial community dynamics

The paper analyzes facilitative interactions in microbial communities using metagenomic data and metabolic modeling to identify feedback loops and keystone species.

Metagenomic analysis of ecological niche overlap and community collapse in microbiome dynamics

The paper uses metagenomic analysis to study how genetic resource-use profiles influence community collapse in microbiomes over time.

Alternative stable states, nonlinear behavior, and predictability of microbiome dynamics

This study shows that abrupt microbiome changes can be predicted using ecological concepts and stability indices in complex microbial communities.

Botrytis cinerea identifies host plants via the recognition of antifungal capsidiol to induce expression of a specific detoxification gene

This study shows Botrytis cinerea distinguishes capsidiol from rishitin to activate specific detoxification genes, with Bccpdh being critical for virulence on capsidiol-producing plants.

Detecting macroevolutionary genotype-phenotype associations using error-corrected rates of protein convergence

The paper introduces a method to detect genotype-phenotype associations in macroevolution by analyzing protein convergence rates across vertebrate genes.

Gene expression evolution in pattern-triggered immunity within Arabidopsis thaliana and across Brassicaceae species

The paper identifies genes under purifying selection and species-specific expression signatures in PTI responses across Brassicaceae species using comparative transcriptomics.

Organ-specific propensity drives patterns of gene expression evolution

The paper analyzes gene expression evolution across vertebrates, finding that ancestral expression in certain organs influences descendant expression patterns, especially after gene duplication.

Seasonal and annual fluctuations of deer populations estimated by a Bayesian state-space model

This study uses a Bayesian state-space model to estimate seasonal and annual fluctuations in sika deer populations in Japan, identifying factors like snowfall and nuisance control affecting population dynamics.