M. Yan

Multi-omics analysis of a traditional fermented food reveals a byproduct-associated subpopulation of Neurospora intermedia for waste-to-food upcycling

This study uses multi-omics analysis to characterize Neurospora intermedia in oncom, revealing its role in byproduct conversion and potential for waste-to-food upcycling.

Probing the eukaryotic microbes of ruminants with a deep-learning classifier and comprehensive protein databases

The paper develops GutEuk, a deep-learning classifier, and curated protein databases to improve identification and functional analysis of eukaryotic microbes in ruminant gut metagenomes.

Click-free imaging of carbohydrate trafficking in live cells using an azido photothermal probe

This paper demonstrates click-free imaging of carbohydrate trafficking in live cells using azido photothermal probes, revealing trehalose recycling and protein interactions in mycobacteria and other organisms.

Super Pangenome of Grapevines Empowers Improvement of the Oldest Domesticated Fruit

The paper assembles and annotates haplotype-resolved genomes of grapevines to uncover genetic diversity and disease resistance mechanisms, identifying structural variants linked to downy mildew resistance.

Small-molecule activators of a bacterial signaling pathway inhibit virulence

This study identifies small-molecule activators of the FixLJ pathway in Burkholderia that inhibit virulence without toxicity.

Viruses contribute to microbial diversification in the rumen ecosystem and are associated with certain animal production traits.

This study investigates the role of the rumen virome in microbial diversification and its association with animal production traits using metagenomic data and network analysis.

A positive feedback loop between ZEB2 and ACSL4 regulates lipid metabolism to promote breast cancer metastasis

Poly(A) tail length regulation by mRNA deadenylases is critical for suppression of transposable elements

This study shows that RNA deadenylation by the CCR4-NOT complex is critical for suppressing transposable elements in Arabidopsis, independent of small RNA targeting.

Seagrass genomes reveal a hexaploid ancestry facilitating adaptation to the marine environment

This study presents chromosome-level genome assemblies of seagrass species and identifies ancient and recent genome duplication events linked to adaptation to marine environments.

Unraveling the viral dark matter of the rumen microbiome with a new global virome database

The paper creates a rumen virome database (RVD) and identifies 397,180 viral species-level OTUs, improving classification rates and revealing ecosystem impacts of rumen viruses.

Horizontal transferred T-DNA and haplotype-based phylogenetic analysis uncovers the origin of sweetpotato

This study identifies two progenitors of sweetpotato using horizontal transferred T-DNA and haplotype-based phylogenetic analysis, revealing its origin from a reciprocal cross and whole genome duplication.

The western redcedar genome reveals low genetic diversity in a self-compatible conifer

The paper assembles the western redcedar genome and finds it has low genetic diversity, suggesting mechanisms like associative overdominance maintain genetic variation despite selfing.

Life-course social disparities in body mass index trajectories across adulthood: cohort study evidence from China Health and Nutrition Survey

This study examines how socioeconomic status across the life course affects BMI trajectories and obesity risk in China using longitudinal data from the China Health and Nutrition Survey.

Divergent evolution of early terrestrial fungi reveals the evolution of Mucormycosis pathogenicity factors

This study investigates the divergent evolution of zygomycete fungi, identifying lineage-specific genomic elements and evolutionary relationships that contribute to Mucormycosis pathogenicity.

The soybean rust pathogen Phakopsora pachyrhizi displays transposable element proliferation that correlates with broad host-range adaptation on legumes

This study sequenced three Phakopsora pachyrhizi genomes, revealing high transposable element content and its correlation with host-range adaptation in legumes.

MAL suppresses OSCC tumorigenesis by maintaining epithelial cell differentiation

This study shows MAL suppresses OSCC by maintaining epithelial differentiation, with MAL and its co-functional genes as potential biomarkers for prevention and therapy.

New auranofin analogs with antibacterial properties against Burkholderia clinical isolates

This study identifies two auranofin analogs, MS-40S and MS-40, with antibacterial activity against Burkholderia clinical isolates, including B. cenocepacia, and low toxicity in model organisms.

Co-cultivation of the anaerobic fungus Caecomyces churrovis with Methanobacterium bryantii enhances transcription of carbohydrate binding modules

This study shows that co-culturing the anaerobic fungus Caecomyces churrovis with Methanobacterium bryantii increases transcription of carbohydrate binding modules and related enzymes, enhancing biomass breakdown and sugar uptake.

EgGLUT1 is crucial for the viability of larvae of Echinococcus granulosus sensus lato by involving its glucose uptake

This study identifies EgGLUT1 as a critical gene for glucose uptake in Echinococcus granulosus s.l. larvae, showing that inhibiting it reduces parasite viability and cyst formation in mice.

FLCN Gene Ablation Reduces Fibrosis and Inflammation in a Diet-Induced NASH Model

This study shows that FLCN gene ablation reduces fibrosis and inflammation in a diet-induced NASH model by enhancing autophagy and lysosomal biogenesis.

The genome analysis of Tripterygium wilfordii reveals TwCYP712K1 and TwCYP712K2 responsible for oxidation of friedelin in celastrol biosynthesis pathway

This study identifies two CYP450 genes responsible for oxidizing friedelin to polpunonic acid in the celastrol biosynthesis pathway of Tripterygium wilfordii.

Seneca Valley virus intercellular transmission mediated by exosomes

This study shows that exosomes from SVV-infected cells can carry and transmit SVV between susceptible and non-susceptible cells, and this transmission is resistant to neutralizing antibodies.

Cloning human dental pulp cells and studying inter-clone diversity

The paper clones human dental pulp cells to study inter-clone diversity and improves reliability of single-cell origin through a 96-well plate method.

Global analysis of epigenetic heterogeneity identifies divergent drivers of esophageal squamous cell carcinoma

The paper identifies epigenetic drivers of esophageal squamous cell carcinoma through multi-omics analysis, revealing hypomethylation patterns and non-canonical WNT signaling activation.

Pharmacokinetics Modeling and Simulation of Voriconazole Dosing and Safety in Patients with Liver Cirrhosis

This study models voriconazole pharmacokinetics in cirrhotic patients and recommends reduced dosing for Child-Pugh C patients to improve safety.