S. Peng

The Role of Rhizosphere Microorganisms and CNPS Genes in Shaping Nutritional Traits of Capsicum

This study examines how rhizosphere microorganisms and CNPS genes affect nutrient content in pepper plants, finding that bacterial communities and specific genes significantly influence nutrient absorption and accumulation.

The phosphoproteome is a first responder in tiered cellular adaptation to chemical stress followed by proteomics and transcriptomics alteration

This study compares transcriptomics, proteomics, and phosphoproteomics responses in HepG2 and AC16 cells to chemical exposure, finding phosphoproteomics changes occur earlier and at lower concentrations than transcriptomics.

Trojan horse virus delivering CRISPR-AsCas12f1 controls plant bacterial wilt caused by Ralstonia solanacearum

This paper develops an engineered filamentous phage that delivers CRISPR-AsCas12f1 to target Ralstonia solanacearum's virulence gene hrpB, effectively controlling bacterial wilt in tobacco.

Metagenomic analysis of individual mosquitos reveals the ecology of insect viruses

The paper analyzes the virome of 2,438 individual mosquitoes across China to reveal viral diversity, geographic hotspots, and the impact of host phylogeny on viral composition.

Phenologically-informed species distribution models (SDMs) forecast less species loss and turnover versus standard SDMs

The paper develops phenology-informed species distribution models that predict lower species loss and turnover under climate change compared to standard models.

Living cell mTORC1 inhibition reporter mTIR reveals nutrient-sensing targets of histone deacetylase inhibitor

The paper introduces a genetically encoded mTORC1 inhibition reporter, mTIR, which identifies histone deacetylase inhibitors that selectively target mTORC1 through nutrient-sensing gene expression.

An Unexpected Role of Neutrophils in Clearing Apoptotic Hepatocytes In Vivo

This study reveals that neutrophils, not macrophages, primarily clear apoptotic hepatocytes through a novel process called perforocytosis, and defects in this process contribute to autoimmune liver disease.

Single-cell transcriptomic analyses reveal the cellular and genetic basis of aquatic locomotion in scyphozoan jellyfish

The paper was withdrawn due to the need for additional experimental evidence and reorganization of data and writing.

RGA1 alleviates low-light-repressed pollen tube growth by improving the metabolism and allocation of sugars and energy

This study shows RGA1 improves pollen tube growth under low-light by enhancing sugar and energy metabolism in rice pistils.

Stability of SARS-CoV-2 in cold-chain transportation environments and the efficacy of disinfection measures

This study investigates how cold-chain conditions and disinfection methods affect SARS-CoV-2 stability, finding that low temperature and seawater increase viral survival while LED light and airflow reduce it.

Distinct Single-cell Immune Ecosystems Distinguish True and De Novo HBV-related Hepatocellular Carcinoma Recurrences

This study identifies distinct immune ecosystems in true and de novo HBV-related HCC recurrences using single-cell and bulk RNA-sequencing, revealing differences in T cell phenotypes and immune interactions that may inform immunotherapy strategies.

Using NAMs to characterize chemical bioactivity at the transcriptomic, proteomic and phosphoproteomic levels

This paper integrates multi-omic data to characterize chemical bioactivity at transcriptomic, proteomic, and phosphoproteomic levels, showing how early phosphoproteomic changes drive downstream effects.

Deeply conserved super-enhancers maintain stem cell pluripotency in placental mammals

The paper identifies three deeply conserved super-enhancers in placental mammals that are essential for maintaining stem cell pluripotency.

Lin28b specifies an innate-like lineage of CD8+ T cells in early life

The paper shows Lin28b programs neonatal CD8+ T cells to have innate defense capabilities through transcriptional and epigenetic changes.

Metagenomics revealing molecular profiling of microbial community structure and metabolic capacity in Bamucuo, Tibet

This study uses metagenomics to characterize microbial community structure and metabolic capacity in Bamucuo, Tibet, identifying new species and metabolic pathways.

Structural dynamics determine voltage and pH gating in human voltage-gated proton channel

This study uses smFRET to examine real-time conformational dynamics of the hHv1 voltage sensor under different voltage and pH conditions, revealing that gating is determined by conformational distributions rather than transitions between resting and activated states.

Wall-associated Receptor Kinase and The Expression Profiles in Wheat Responding to Fungal Stress

This study classifies wheat WAKs and WAKLs, identifies structural features, and shows that TaWAK75 and TaWAK76b are involved in resistance to Bgt.

Disentangling top-down drivers of mortality underlying diel population dynamics of Prochlorococcus in the North Pacific Subtropical Gyre

The paper develops multitrophic models to investigate top-down and bottom-up drivers of Prochlorococcus population dynamics in the North Pacific Subtropical Gyre, finding grazers are the primary top-down factor despite high viral densities.

Super-dosed butyrate induces a revisable metabolic paralysis through transient mitochondrial reprogramming in the gut-brain axis

This study shows that high-dose sodium butyrate causes reversible metabolic paralysis by inducing transient mitochondrial reprogramming in the brain, specifically through ANT protein activation and proton leak.

ORMDL1 is upregulated and associated with favorable outcome in colorectal cancer

This study shows ORMDL1 is upregulated in colorectal cancer and associated with better patient survival.

An engineered receptor-binding domain improves the immunogenicity of multivalent SARS-CoV-2 vaccines

This paper shows that an engineered RBD with glycosylation sites improves immunogenicity and expression efficiency in SARS-CoV-2 vaccines.

Leapfrog dynamics in phage-bacteria coevolution revealed by joint analysis of cross-infection phenotypes and whole genome sequencing

The paper analyzes phage-bacteria coevolution using phenotypic and genomic data, finding that coevolution does not follow expected arms race dynamics but instead exhibits leapfrog dynamics.

Histone demethylase complexes KDM3A and KDM3B cooperate with OCT4/SOX2 to construct pluripotency gene regulatory network

The paper shows that KDM3A and KDM3B, along with OCT4/SOX2, regulate H3K9 methylation to maintain pluripotency in porcine-induced pluripotent stem cells.

Dynamic multi-OMICs of glioblastoma reveal sensitivity to neddylation inhibition dependent on nuclear PTEN and DNA replication pathways

The paper investigates the dynamic multi-OMICs of glioblastoma and identifies sensitivity to neddylation inhibition, though the manuscript was withdrawn due to un reproducible findings.

Mutations from bat ACE2 orthologs markedly enhance ACE2-Fc neutralization of SARS-CoV-2

Shotgun Metagenomics of 361 elderly women reveals gut microbiome change in bone mass loss

This study analyzes gut microbiome data from 361 elderly women to explore its association with bone mass loss and bone mineral density.

Community-scale Synchronization and Temporal Partitioning of Gene Expression, Metabolism, and Lipid Biosynthesis in Oligotrophic Ocean Surface Waters

The paper uses machine learning to analyze time series data from ocean surface waters, revealing synchronized and asynchronous gene expression patterns linked to diel cycles and microbial niche partitioning.

Structure of the unique tetrameric STENOFOLIA homeodomain bound with DNA

The paper reports the crystal structure of the STENOFOLIA homeodomain bound to DNA, revealing a novel tetrameric binding mechanism and its role in transcriptional repression.

Inhibition of nonsense-mediated decay rescues functional p53β/γ isoforms in MDM2-amplified cancers

The paper shows that inhibiting nonsense-mediated decay increases expression of p53β/γ isoforms, which are resistant to MDM2 degradation, thereby restoring p53 function in cancers with MDM2 amplification, HPV infection, or specific p53 mutations.

Allelic polymorphism shapes community function in evolving Pseudomonas aeruginosa populations

This study shows that allelic polymorphism in Pseudomonas aeruginosa affects community function and antibiotic tolerance during evolution in biofilms.