K. Shi

Immunomagneto-activated hepatocyte-specific tissue vesicle profiling reveals message diversification from regenerating liver

The paper identifies hepatocyte-derived extracellular vesicles (Hep-EVs) as critical regulators of liver regeneration, showing they promote hepatocyte proliferation through Cdk1 activity and offer therapeutic potential.

Designing Efficient Enzymes: Eight Predicted Mutations Convert a Hydroxynitrile Lyase into an Efficient Esterase

The paper identifies eight mutations that convert a hydroxynitrile lyase into an efficient esterase by correcting structural differences using shortest path maps.

Understanding ATP binding to DosS catalytic domain with a short ATP-lid

This paper investigates ATP binding in the short ATP-lid of DosS CA domain, showing it binds ATP under physiological conditions and revealing conformational flexibility affected by zinc concentration.

Efficient characterization of multiple binding sites of small molecule imaging ligands on amyloid-beta, 4-repeat/full-length tau and alpha-synuclein

The paper develops an SPR-based method to characterize small molecule ligands binding to amyloid-beta, tau, and alpha-synuclein fibrils, identifying multiple binding sites.

Molecular determinants for Rous sarcoma virus intasome assemblies

This study determines the structure and molecular interactions of Rous sarcoma virus intasomes, revealing key residues involved in their assembly and catalytic activity.

Isolation and characterization of a novel phage of Vibrio parahaemolyticus with biocontrol potential

The paper isolates and characterizes a novel lytic vibriophage, R16F, which shows potential as a biocontrol agent against V. parahaemolyticus due to its specificity and lack of virulence factors.

P bodies coat germ granules to promote transgenerational gene silencing in C. elegans

This study shows P body factors coat germ granules in C. elegans to enable transgenerational gene silencing by maintaining small RNA factors and secondary small RNA amplification.

Targeting N-Myc in Neuroblastoma with Selective Aurora Kinase A Degraders

This study develops a first-in-class Aurora-A/N-Myc degrader, HLB-0532259, which effectively reduces N-Myc levels and shows tumor reduction in neuroblastoma models.

Molecular basis of proteolytic cleavage regulation by the extracellular matrix receptor dystroglycan

This study identifies a unique mechanism by which dystroglycan is cleaved by MMPs, showing that structural changes disrupt DGC integrity and contribute to disease.

HIV-2 Immature Particle Morphology Provides Insights into Gag Lattice Stability and Virus Maturation

This study determines the 3D structure of HIV-2 immature Gag lattice using cryo-EM and identifies structural features critical for particle release and infectivity.

Single cell profiling of γδ hepatosplenic T-cell lymphoma unravels tumor cell heterogeneity associated with disease progression

This study uses single-cell RNA-seq and TCR sequencing to identify tumor subtypes and cell-cell interactions in HSTCL, revealing disease progression and potential therapeutic targets.

Metformin modulates microbiota-derived inosine and ameliorates methamphetamine-induced anxiety and depression-like withdrawal symptoms in mice

This paper shows metformin reduces anxiety and depression-like symptoms in mice during methamphetamine withdrawal by modulating gut microbiota-derived inosine.

CryoEM structure of the EBV ribonucleotide reductase BORF2 and mechanism of APOBEC3B inhibition

This study reveals how EBV's BORF2 protein inhibits APOBEC3B by blocking its access to DNA, providing insights for drug development.

Structure and dynamics of SARS-CoV-2 proofreading exoribonuclease ExoN

This study determines the structure of SARS-CoV-2 ExoN and its interaction with nsp10, revealing mechanisms of RNA substrate binding and exoribonuclease activity.

A novel type of IRES having variable numbers of eIF4E-binding site and synergistic effect in RNA2 of WYMV isolates

The paper identifies a novel IRES in WYMV RNA2 with variable eIF4E-binding sites and synergistic effects that enhance IRES activity.

Phase separation of Mer2 organizes the meiotic loop-axis structure of chromatin during meiosis I

This study shows Mer2 phase separation forms droplet-loop chromatin structures to enable diverse meiotic DSB formation.

The Development of a Novel Nanobody Therapeutic for SARS-CoV-2

This paper develops a potent, low-cost nanobody therapeutic, Nanosota-1C-Fc, that effectively blocks SARS-CoV-2 infection in vitro and in vivo with high affinity and stability.

Molecular underpinnings of ssDNA specificity by Rep HUH endonucleases and implications for HUH-tag multiplexing and engineering

The paper investigates the molecular mechanism of ssDNA specificity by HUH-endonucleases and demonstrates how this can be engineered for multiplexed HUH-tagging and bioconjugation.

Full-length annotation with multi-strategy RNA-seq uncovers transcriptional regulation of lncRNAs in diploid cotton G. arboreum

The paper identifies 9240 lncRNAs in diploid cotton using multi-omics data and reveals their transcriptional regulation and co-expression with protein-coding genes and GWAS SNPs.

Ptr1 evolved convergently with RPS2 and Mr5 to mediate recognition of AvrRpt2 in diverse solanaceous species

The paper identifies Ptr1 as a resistance gene in Solanum lycopersicoides that convergently evolved with Mr5 and RPS2 to recognize AvrRpt2 in diverse solanaceous species.

A Rainbow Reporter Tracks Single Cells and Reveals Heterogeneous Cellular Dynamics among Pluripotent Stem Cells and their Differentiated Derivatives

This paper introduces a rainbow reporter system for tracking single cell dynamics in pluripotent stem cells and their derivatives, revealing heterogeneous behaviors during clonal expansion and differentiation.

Natural variation for unusual host responses and flagellin-mediated immunity against Pseudomonas syringae in genetically diverse tomato accessions

This study screens genetically diverse tomato accessions for natural variation in their response to Pseudomonas syringae, identifying stem galls and enhanced flagellin responses as key traits.

Active site plasticity and possible modes of chemical inhibition of the human DNA deaminase APOBEC3B

This study reports structures of APOBEC3B with loop 7 from APOBEC3G, revealing inactive conformations stabilized by small molecules, providing insights for inhibitor design.

The Antiviral and Cancer Genomic DNA Deaminase APOBEC3H Is Regulated by a RNA-Mediated Dimerization Mechanism

This study identifies an RNA-mediated dimerization mechanism that regulates APOBEC3H DNA deaminase activity, localization, and antiviral function.