K. Tanaka

Polyphyletic domestication and inter-lineage hybridization magnified genetic diversity of cultivated melon, Cucumis melo L.

The paper classifies melon accessions into seed types and genetic populations, revealing polyphyletic domestication and hybridization that increased genetic diversity, with distinct geographic origins.

Genetic characterization of cucumber genetic resources in the NARO Genebank indicates their multiple dispersal trajectories to the East

This study uses genotyping-by-sequencing to analyze 723 cucumber accessions, revealing multiple dispersal routes to East Asia and Southeast Asia.

Multi-SpinX: An Advanced Framework for Automated Tracking of Mitotic Spindles and Kinetochores in Multicellular Environments

The paper introduces Multi-SpinX, an AI framework that extends SpinX to track mitotic spindles and kinetochores in multicellular environments across different mitotic stages.

Integrated germline and somatic features reveal divergent immune pathways driving ICB response

This paper uses machine learning to predict ICB response by integrating germline and somatic features, revealing differences in immune pathways and clinical outcomes between MHC-I and MHC-II neoantigen reliant tumors.

Focal adhesion-derived liquid-liquid phase separations regulate mRNA translation

This study shows that p130Cas-dependent liquid-liquid phase separation from focal adhesions inhibits mRNA translation, linking high adhesion to reduced translation in myofibroblasts and senescent cells.

SANTA FE OXA: Self-assembled oxaliplatin nanomicelle for enhanced cascade cancer chemotherapy via self-sensitized ferroptosis

This paper develops a nanomicelle, SANTA FE OXA, that enhances cancer chemotherapy by inducing ferroptosis and reducing systemic toxicity.

Minimized dark cataplerosis of the Calvin cycle ensures prompt photosynthetic initiation in cyanobacteria

The paper shows that low activity of PEP-converting enzymes during darkness maintains glycolytic intermediate levels, facilitating photosynthetic initiation in cyanobacteria.

Precise immunofluorescence canceling for highly multiplexed imaging capturing specific cell state

The paper introduces PECAbs for high-specificity multiplexed imaging of cell states and combines them with seq-smFISH to classify cells and identify signal activation states in human tissue.

Antimicrobial peptides modulate lung injury by altering the intestinal microbiota

The paper shows that antimicrobial peptides (AMPs) in the intestine modulate lung injury by altering the microbiota in response to hyperoxia.

Endogenous oncogenic KRAS expression increases cell proliferation and motility in near-diploid hTERT RPE-1 cells

This study shows that endogenous oncogenic KRAS mutations increase cell proliferation and motility in hTERT RPE-1 cells, with differential responses to targeted therapies.

Mechanosensing through talin 1 contributes to tissue mechanical homeostasis

This study shows that mutations in talin1 alter cellular stiffness sensing, leading to changes in ECM mechanical properties and aortic compliance.

Genetic and functional diversity of beta-N-acetylgalactosamine residue-targeting glycosidases expanded by deep-sea metagenome

This study identifies and characterizes novel beta-N-acetylgalactosaminidases from deep-sea metagenomes, revealing structural diversity and substrate specificity expansion.

A novel sorting signal for RNA packaging into small extracellular vesicles

The paper identifies a novel RNA sorting signal in the 3UTR of RAB13 that selectively packages RNA into small extracellular vesicles.

Extensive Copy Number Variation Explains Genome Size Variation in the Unicellular Zygnematophycean Alga, Closterium peracerosum-strigosum-littorale Complex

This study identifies genome size variation in the alga Closterium psl. complex as primarily due to copy number variation, with nonrandom distribution of CNV across gene functions.

Optineurin provides a mitophagy contact site for TBK1 activation

This study identifies OPTN as a platform for TBK1 activation during mitophagy, showing OPTN facilitates TBK1 assembly at mitochondrial-autophagosome contact sites and enhances its activation through hetero-autophosphorylation.

Structural insights into the complex of oncogenic K-Ras4BG12V and Rgl2, a RalA/B activator

This study investigates the structural interaction between oncogenic KRas4BG12V and Rgl2RA, revealing a unique tetrameric complex formation that explains its hyperactivation of the RalA/B pathway.

Characterisation of an Escherichia coli line that completely lacks ribonucleotide reduction yields insights into the evolution of obligate intracellularity.

This paper creates an E. coli strain lacking ribonucleotide reduction and shows it adapts to depend on host-derived deoxyribonucleotides, mimicking evolutionary steps in obligate intracellular life.

Fibronectin-integrin α5 signaling promotes thoracic aortic aneurysm in a mouse model of Marfan syndrome

This study shows that fibronectin-integrin α5 signaling drives thoracic aortic aneurysms in Marfan syndrome mice, with a 5/2 chimera mutation reducing aneurysm severity.

Glutamine synthetase mRNA releases sRNA from its 3'UTR to regulate carbon/nitrogen metabolic balance

The paper shows that glutamine synthetase mRNA produces an sRNA, GlnZ, which regulates carbon/nitrogen metabolism by repressing SucA expression.

Evolution and development of male-specific leg brushes in Drosophilidae

The paper investigates the evolution and development of male-specific sex brushes in Drosophilidae, finding similar developmental mechanisms across lineages despite uncertain phylogenetic origins.

Secondary reversion to sexual monomorphism associated with tissue-specific loss of doublesex expression

The paper examines the loss of a male-specific sex comb in a Drosophilidae species, linking it to a secondary loss of doublesex (dsx) expression, and discusses implications for the evolution of sexual dimorphism.

Dark accumulation of downstream glycolytic intermediates confers robust initiation of photosynthesis in cyanobacteria

The paper shows that accumulation of glycolytic intermediates in the dark enables rapid initiation of photosynthesis in cyanobacteria.

Improving the Safety of Cultured Meat Using Basal Medium Prepared using Food Ingredients

This study develops a food-grade medium for cultured meat production, showing it supports cell growth and differentiation similarly to standard medium.

An actin-like filament from Clostridium botulinum exhibits a novel mechanism of filament dynamics

The paper identifies a ParM protein from Clostridium botulinum that forms a double-stranded filament with unique dynamics involving Pi-induced lateral shifts and distinct interactions with ParR.

Genetically-linked simultaneous overexpression of multiple herbicide-metabolizing genes for broad-spectrum resistance in an agricultural weed Echinochloa phyllopogon

The paper identifies genetically linked overexpression of multiple herbicide-metabolizing genes in E. phyllopogon, enhancing and broadening metabolic resistance to multiple herbicides.

Nuclear activation in dual-durotaxing cells on a matrix with cell-scale stiffness-heterogeneity

This study shows that mesenchymal stem cells undergoing dual-durotaxis on stiff micro-patterned gels experience amplified intracellular stress dynamics and chromatin fluctuations, which enhance cellular vigor and maintain stemness.

Verification of our empirical understanding of the physiology and ecology of two contrasting plantation species using a trait database

This study uses a trait database to compare physiological and ecological traits of two plantation species, showing how their traits align with their environmental conditions and growth rates.

Genes responsible for avoiding attack of a beetle, relating to the duration of death feigning

The paper compares DNA variation between two Tribolium castaneum strains with different death-feigning durations to identify genes associated with this behavior.

Coral symbionts exhibit a polycistronic flavodiiron gene leading to functional proteins in photosynthesis

The paper identifies a polycistronic FLV gene in coral symbionts that produces functional proteins involved in photosynthesis, differing from the typical gene pair structure in other organisms.

Novel multicellular prokaryote discovered next to an underground stream

The paper describes the discovery of a new bacterium with multicellular-like behavior, suggesting a potential missing link in the evolution of multicellularity.