L. Deng

Enhanced Recognition of a Herbal Compound Epiberberine by a DNA Quadruplex-Duplex Structure

This paper investigates how epiberberine binds to a DNA quadruplex structure and shows how modifying the DNA structure enhances binding affinity, leading to a new method for extracting the compound from plant extracts.

Unveiling the PHR-centered regulatory network orchestrating the phosphate starvation signaling in Chinese fir (Cunninghamia lanceolata)

This study identifies ClPHRs as key regulators of phosphate starvation signaling in Chinese fir, revealing evolutionary differences in the SPX-PHR module compared to model plants.

Recognition of RNA secondary structures with a programmable peptide nucleic acid-based platform

This paper introduces daPNAs, a programmable platform combining dbPNAs and asPNAs to target RNA junctions, demonstrating their use in inhibiting Dicer and regulating ribosomal frameshifting.

A single strand-based library preparation method for unbiased virome characterization

This paper introduces a single-stranded library preparation method for virome characterization, showing improved accuracy and reduced bias compared to existing methods.

STING contributes to pulmonary hypertension by targeting the interferon and BMPR2 signaling through regulating F2RL3

This study shows STING contributes to pulmonary hypertension by enhancing interferon signaling and suppressing BMPR2 signaling through F2RL3 regulation in endothelial cells.

Activating neutrophils by co-administration of immunogenic recombinant modified vaccinia virus Ankara and granulocyte colony-stimulating factor for the treatment of malignant peripheral nerve sheath tumor

This study shows that co-administering immunogenic MVA and G-CSF activates neutrophils to kill MPNST tumors in a murine model.

Step-wise epigenetic signal integration governs adaptive programming of cytotoxic lymphocytes

This study shows that interleukin-12 signaling integrates with antigen receptor signals in a context-dependent manner to determine the epigenetic and functional fate of cytotoxic lymphocytes.

Mutation divergence over space in tumour expansion

This study quantifies how mutation divergence varies with sampling distance and tumour expansion modes using simulations, showing that mutation rate inference is less accurate with smaller sampling sizes and slower expansion.

Choice of Ultrafilter affects Recovery Rate of Bacteriophages

The paper investigates how the choice of ultrafilter affects the recovery of bacteriophages from clinical samples, finding that pore size influences recovery strain- and sample-dependently.

Immunities Specific to Both of the M Protein Ectodomain and RBD Synergize to Confer Cross-protection against SARS-CoV-2 Infections

This study identifies conserved M protein peptides that elicit cross-neutralizing antibodies against multiple SARS-CoV-2 variants, including Omicron, when combined with RBD-specific antibodies.

Tomato CYP94C1 terminates jasmonate signaling during fruit ripening by inactivating bioactive jasmonoyl-L-isoleucine

This study identifies CYP94C1 as a key enzyme in tomato that terminates jasmonate signaling during ripening by converting bioactive JA-Ile to an inactive form, thereby reducing susceptibility to necrotrophic pathogens.

The influence of early life exposures on the infant gut virome

This study investigates how early life factors influence the gut virome composition in infants, identifying environmental exposures that shape viral communities and their potential metabolic impacts.

Real-Time Quantification of Cell Mechanics and Functions by Double Resonator Piezoelectric Cytometry -Theory and Study of Cellular Adhesion of HUVECs

This paper introduces DRPC to measure cell-generated forces and viscoelastic moduli in real time, showing ligand and cell density affect mechanical properties of HUVECs.

CryoEM reveals unprecedented binding site for NaV1.7 inhibitors enabling rational design of potent hybrid inhibitors

This study uses cryo-EM to reveal a new binding site for NaV1.7 inhibitors, enabling the design of hybrid inhibitors with improved selectivity and properties.

Cell Dynamic Mechanics Regulates Large-spatial Isotropic Matrix Modeling with Computational Simulations

The paper uses computational simulations to study how cell mechanics regulate isotropic collagen matrix modeling at large spatial scales, revealing key cellular mechanisms involved.

Innate-adaptive IFN cross-talk reprograms myeloid and T cells for antitumor immunity with a second-generation recombinant MVA

This paper describes a second-generation recombinant MVA vaccine that enhances antitumor immunity by reprogramming myeloid and T cells through innate-adaptive IFN cross-talk.

Altered virome structrue and function characterization in Helicobacter pylori-driven colorectal carcinogenesis and H. pylori eradication

This study characterizes changes in the gut virome during H. pylori-driven colorectal carcinogenesis and after eradication, showing expanded temperate phages and persistent antibiotic resistance genes.

Tumor-intrinsic PRC2 inactivation drives a context-dependent immune-desert tumor microenvironment and confers resistance to immunotherapy

This study shows that PRC2 inactivation in tumors creates an immune-desert microenvironment, leading to resistance to immunotherapy and suggests strategies to reverse this effect.

CRISPR-Cas provides limited phage immunity to a prevalent gut bacterium in gnotobiotic mice

This study shows that the CRISPR-Cas system of Eggerthella lenta provides limited phage immunity in vitro and in vivo, allowing coexistence of phage and bacteria in the gut.

Mechanical communication-induced cell directional migration and branching connections mediated by calcium channels, integrin β1 and N-cadherin

The paper investigates how mechanical communication between cells leads to directional migration and branching connections, mediated by calcium channels, integrin β1, and N-cadherin.

Deposit-feeding worms control subsurface ecosystem functioning in intertidal sediment with strong physical forcing

This study compares microbial communities in intertidal sands with and without deposit-feeding worms, showing that worms shape subsurface ecosystems by altering microbial abundance and network connectivity.

Caveolae mediated endocytosis of VLDL particles in macrophages requires NPC1 and STARD3 for further lysosomal processing

The paper investigates how macrophages process VLDL-triglycerides, showing caveolae-mediated endocytosis and the roles of LPL, lysosomal acid lipase, Stard3, and NPC1 in lipid uptake, hydrolysis, and efflux.

Replication protein Rep provides selective advantage to viruses in the presence of CRISPR-Cas immunity

This study shows that the viral replication protein Rep provides a selective advantage in the presence of CRISPR-Cas immunity by enhancing viral replication efficiency and outcompeting CRISPR-null variants.

Intratumoral delivery of engineered recombinant modified vaccinia virus Ankara express-ing Flt3L and OX40L generates potent antitumor immunity through activating the cGAS/STING pathway and depleting tumor-infiltrating regulatory T cells

Vaccinia E5 is a major inhibitor of the DNA sensor cGAS

This study identifies Vaccinia E5 as a major inhibitor of the cGAS-STING pathway by promoting cGAS degradation through proteasome-dependent ubiquitination.

Heat-inactivated modified vaccinia virus Ankara boosts Th1-biased cellular and humoral immune responses as a vaccine adjuvant by activating the STING-mediated cytosolic DNA-sensing pathway

This study shows heat-inactivated MVA enhances Th1 immune responses by activating the STING pathway and improves antitumor efficacy when combined with antigens.

Amplification-free detection of viral RNA by super resolution imaging-based CRISPR/Cas13a System

This paper develops a CRISPR/Cas13a system combined with super resolution imaging for direct, amplification-free viral RNA detection with improved sensitivity.

Hundreds of viral families in the healthy infant gut

This study manually resolves viral dark matter in a large infant gut virome dataset, identifying over ten thousand viral species across 248 families and expanding bacteriophage taxonomy.

Prophages in the infant gut are largely induced, and may be functionally relevant to their hosts.

This study identifies prophages in infant gut metagenomes, showing they are largely induced and may influence microbiome dynamics through functional elements.

Cellular-level phenotyping of tumor-immune microenvironment (TiME) in patients in vivo reveals distinct inflammation and endothelial anergy signatures

The paper uses in vivo cellular-level imaging to phenotype tumor-immune microenvironments, identifying distinct inflammation and endothelial anergy signatures linked to immunotherapy response.