Z. Ye

Gut Microbiota-derived Adenosine Determines the Efficacy of Electroconvulsive Therapy for Depression

This study shows that gut microbiota-derived adenosine affects the effectiveness of electroconvulsive therapy (ECT) in depression by modulating neural activity and synaptic plasticity.

Tailoring the self-blinking of sulfonamide rhodamine for long-term protein-localizing super-resolution imaging

This paper develops a sulfonamide rhodamine with reduced self-blinking for extended super-resolution imaging of proteins in living cells.

Structural insights into transcription regulation of the global virulence factor PhoP from Mycobacterium tuberculosis

This study determines cryo-EM structures of PhoP-dependent transcription complexes in Mtb to elucidate its dual role as activator and repressor in stress adaptation.

Persistent lung inflammation and alveolar-bronchiolization due to Notch signaling dysregulation in SARS-CoV-2 infected hamster

This study shows SARS-CoV-2 infection in hamsters causes persistent lung inflammation and alveolar-bronchiolization linked to Notch signaling dysregulation and potential cancer risk.

Molecular stratification of human fetal vaginal epithelium by spatial transcriptome analysis

This study uses spatial transcriptomics to classify human fetal vaginal epithelium into four zones, identifying distinct gene expression patterns and potential differentiation trajectories.

Photo-Uncaging Triggers on Self-Blinking to Control Single-Molecule Fluorescence Kinetics for Super-Resolution Imaging

The paper develops a new fluorophore, NOSR, that enables controlled single-molecule blinking for improved super-resolution imaging of microtubules and mitochondrial outer membranes.

The transcription factor Zeb2 drives differentiation of age-associated B cells

The paper identifies Zeb2 as a critical transcription factor driving age-associated B-cell differentiation and autoimmunity in humans and mice.

Viral Syncytia Evolve to Resist Interferon

This study shows that SARS-CoV-2 syncytia reduce interferon and antibody effectiveness, explaining the evolution of fusogenic viral variants.

TSAR, Thermal Shift Analysis in R, identifies endogenous molecules that interact with HIV-1 capsid hexamers

TSAR streamlines thermal shift assay analysis, identifying gallic acid and other metabolites that interact with HIV-1 capsid hexamers and may inhibit HIV-1 replication.

Epstein-Barr virus BRRF1 induces butyrophilin 2A1 in nasopharyngeal carcinoma cells via the IL-22/JAK3-STAT3 pathway

This study shows Epstein-Barr virus BRRF1 induces BTN2A1 in nasopharyngeal carcinoma cells through the IL-22/JAK3-STAT3 pathway, enhancing Vγ9Vδ2 T cell anti-tumor activity.

One-Tip enables comprehensive proteome coverage in minimal cells and single zygotes

One-Tip provides a proteomics method for high-depth protein identification from minimal cell samples and single zygotes with high throughput.

Disordered C-terminal domain drives spatiotemporal confinement of RNAPII to enhance search for chromatin targets

The paper shows that the disordered C-terminal domain of RNAPII confines its diffusion to a subnuclear region, enhancing target search efficiency in yeast.

SIX4 Controls STING Expression Enhancing anti-PD-1 Efficacy

This study identifies SIX4 as a regulator of STING expression in colon cancer, showing it enhances anti-PD-1 therapy efficacy by promoting STING activation and CD8+ T-cell infiltration.

Evolutionary Genomics of Sister Species Differing in Effective Population Sizes and Recombination Rates

This study compares population-genomics data between two sister species, D. pulex and D. pulicaria, to understand genetic mechanisms of ecological speciation and identify genes under positive selection.

Evolutionary Insights from a Large-scale Survey of Population-genomic Variation

This study analyzes population-genomic variation in Daphnia pulex to reveal evolutionary-genomic features and identify genes under selection.

The Genome-wide Signature of Short-term Temporal Selection

This study analyzes genome-wide selection patterns in Daphnia pulex over nine years, finding fluctuating selection with near-zero mean coefficients and weak negative selection on minor alleles.

Colocalization of Protein and microRNA Markers Reveals Unique Extracellular Vesicle Sub-Populations for Early Cancer Detection

This study introduces NOBEL-SPA to analyze EV sub-populations by colocalizing protein and miRNA markers, identifying unique signatures for early breast cancer detection.

Optimizing linear ion trap data independent acquisition towards single cell proteomics

This study optimizes linear ion trap data independent acquisition for single-cell proteomics, showing quantitative accuracy down to 0.5 ng on column using LIT-based libraries from as few as 40 cells.

Insm1 regulates the development of mTECs and immune tolerance

This study shows that Insm1 regulates mTEC development and immune tolerance by interacting with Aire and affecting gene expression.

Subtle Structural Translation Remarkably Modulates the Super-Resolution Imaging of Self-blinking Rhodamines

The paper designs and compares two self-blinking rhodamines with minimal structural differences to demonstrate how subtle structural changes affect their performance in super-resolution imaging.

Parallel Activation of Src and Hif1α Increases Localized Glycolytic ATP Generation for Re-assembly of Endothelial Adherens Junctions

This study shows that Src and Hif1α activation increases glycolytic ATP production near endothelial adherens junctions, facilitating their re-assembly after injury.

Turn-on Rate Determines the Blinking Propensity of Rhodamine Fluorophores for Super-Resolution Imaging

The paper identifies a turn-on rate parameter that explains why some rhodamines fail in super-resolution imaging despite meeting pKcycling criteria.

Pink1-mediated mitophagy in the endothelium releases proteins encoded by mitochondrial DNA and activates neutrophil responses

This study identifies endothelial mitophagy as a source of mitochondrial formyl proteins that activate neutrophils and contribute to lung inflammation.

Multimodal electrocorticogram active electrode array based on zinc oxide-thin film transistors

This paper develops a transparent active ECoG array using ZnO-TFTs for electrophysiological monitoring, enabling simultaneous optical and MRI-compatible brain signal recording.

Evidence for the role of music on the growth and signal response in duckweed

This study shows that music increases protein content and photosynthetic efficiency in duckweed and activates Glu and Ca signaling, with transcriptomic changes linked to metabolic pathways.

MicroRNA-155 regulates osteogenesis and bone mass phenotype via targeting S1PR1 gene

This study shows miR155 inhibits osteogenesis and reduces bone mass by targeting S1PR1, suggesting miR155 inhibition could promote bone regeneration.

Unfolding and identification of membrane proteins in situ

This study develops a pipeline using single-molecule force spectroscopy to analyze membrane proteins in situ, combining force-distance curves with mass spectrometry for identification and structural insights.

Antenna modification leads to enhanced nitrogenase activity in a high light tolerant cyanobacterium

The paper shows that retaining phycobilisomes in heterocysts of Anabaena 33047 enhances nitrogenase activity under high light.

RPRM negatively regulates ATM levels involving its phosphorylation mediated by CDK4/CDK6

This study identifies RPRM as a negative regulator of ATM levels through phosphorylation by CDK4/6, enhancing cellular sensitivity to genotoxic agents and radiation.

Coordinated DNA and Histone Dynamics Drive Accurate Histone H2A.Z Exchange

The paper uses single-molecule FRET to show SWR1 unwraps DNA and exchanges H2A-H2B for H2A.Z-H2B with timed precision.