Y. Okazaki

Spatiotemporal dynamics revealed the dark water community of giant virus from a deep freshwater lake

This study uses long-read metagenomics to reconstruct giant virus genomes from a freshwater lake, revealing new species and ecological roles in different water depths.

Gene transfer among viruses substantially contributes to gene gain of giant viruses

The paper investigates viral horizontal gene transfer (vHGT) among nucleocytoviruses and finds it accounts for 28% to 42% of gene gain events in each viral order.

Characterization of sinking and suspended microeukaryotic communities in spring Oyashio waters

This study characterizes sinking and suspended microeukaryotic communities in Oyashio waters using 18S rDNA metabarcoding, revealing depth-related differences and functional roles in the biological carbon pump.

Atf3 controls transitioning in female mitochondrial cardiomyopathy as identified by single-cell transcriptomics

This study identifies Atf3 as a key regulator of transition from compensation to dysfunction in female mitochondrial cardiomyopathy using single-cell transcriptomics.

A 1.5 Mb continuous endogenous viral region in the arbuscular mycorrhizal fungus Rhizophagus irregularis

The paper identifies a 1.5 Mb viral region in Rhizophagus irregularis, suggesting recent infection by a dsDNA virus.

A rapid genome-wide analysis of isolated giant viruses only using MinION sequencing

This study demonstrates that MinION-only sequencing can accurately assemble giant virus genomes, enabling rapid genome-wide analysis of newly isolated viruses.

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.

Iron regulatory pathways differentially expressed during Madurella mycetomatis grain development in Galleria mellonella

This study identifies iron regulatory pathways involved in Madurella mycetomatis grain formation in Galleria mellonella using time-course transcriptomic profiling.

Long-read-resolved, ecosystem-wide exploration of nucleotide and structural microdiversity of lake bacterioplankton genomes

The paper explores microdiversity in lake bacterioplankton genomes using long-read sequencing and identifies factors driving genomic diversification, finding that viral load drives diversity while population bottlenecks constrain it.

Collection of 2429 constrained headshots of 277 volunteers for deep learning

The paper collects 2429 constrained headshots of 277 volunteers for deep learning, demonstrating its utility for gender recognition with convolutional neural networks.

Excretion of triacylglycerol as a matrix lipid facilitating apoplastic accumulation of a lipophilic metabolite shikonin.

The paper investigates how plants secrete lipophilic metabolites like shikonin by excreting triacylglycerol as a matrix lipid, facilitating apoplastic accumulation.

Dynamic product-precursor relationships underlie cuticular lipid accumulation on maize silks

The study identifies how precursor chain length, plant genotype, and spatio-temporal gradients influence product-precursor ratios in the cuticular hydrocarbon-producing pathway of maize silks.

Microdiversity and phylogeographic diversification of bacterioplankton in pelagic freshwater systems revealed through long-read amplicon sequencing

This study uses long-read amplicon sequencing to reveal microdiversity and phylogeographic patterns in freshwater bacterioplankton lineages across lakes in Japan and Europe.

Long-read shotgun metagenome sequencing using PromethION uncovers novel bacteriophages, their abundance, and interaction with host bacterial immunity in the oral microbiota

This study uses long-read metagenomic sequencing to identify novel bacteriophages and their interactions with host immunity in the oral microbiota.

Evaluation of the functional role of the maize Glossy2 and Glossy2-like genes in cuticular lipid deposition

Transgenic experiments show Gl2-like and Gl2 genes in maize have overlapping but divergent roles in cuticular lipid deposition, with Gl2-like requiring a catalytic motif for function.

Describing macroecological patterns in microbes: Approaches for comparative analyses of operational taxonomic unit read number distribution with a case study of global oceanic bacteria

This paper compares operational taxonomic unit read number distributions (ORDs) with species abundance distributions (SADs) in microbial communities, finding shared and distinct patterns in global oceanic bacteria.

Dual-localized enzymatic components that constitute the mitochondrial and plastidial fatty acid synthase systems

The paper identifies and characterizes three shared enzymes in mitochondrial and plastidial fatty acid synthase systems and shows their dual localization and functional consequences.

Genome-resolved viral and cellular metagenomes revealed potential key virus-host interactions in a deep freshwater lake

This study analyzes metagenomic data from a freshwater lake to identify viral-host interactions and diversity patterns in viral and bacterial communities.

Single-cell transcriptomics reveals expansion of cytotoxic CD4 T-cells in supercentenarians

This study identifies an increase in cytotoxic CD4 T-cells and a reduction in B-cells in supercentenarians through single-cell transcriptomics.

Metaepigenomic analysis reveals the unexplored diversity of DNA methylations in an environmental prokaryotic community

The paper uses metaepigenomic analysis to uncover diverse DNA methylation systems in an environmental prokaryotic community, identifying novel methylated motifs and their associated methyltransferases.

Hidden in plain sight - highly abundant and diverse planktonic freshwater Chloroflexi

The paper examines the diversity and distribution of freshwater Chloroflexi in various pelagic habitats, revealing their genomic diversity and ecological roles.

Ubiquity and quantitative significance of bacterioplankton lineages inhabiting the oxygenated hypolimnion of deep freshwater lakes

The study identifies common and abundant bacterioplankton lineages in the oxygenated hypolimnion of deep lakes, showing their ubiquity and quantitative significance.