metabolomics

The methionine cycle sustains the mesenchymal phenotype of tumor cells and drives PDA progression

This study identifies the methionine cycle as a driver of mesenchymal traits in PDA, showing that targeting SAHH reduces metastasis and improves survival.

Deprivation of dietary fiber promotes low-grade neuroinflammation and anxiety-like behavior in mice

This study shows that depriving mice of fermentable dietary fiber leads to low-grade neuroinflammation and anxiety-like behavior, which are reversed by fiber supplementation.

Coarse-graining genome-scale metabolic models for dynamic, multi-scale simulations of Pseudomonas aeruginosa in gel environments

This paper introduces GEM-CM, a computational framework that couples reaction-diffusion models with genome-scale metabolic models to simulate Pseudomonas aeruginosa growth and pyocyanin production in agar gels.

Evaluating non-oxidative glycolysis using 13C metabolic flux analysis

This study evaluates the precision of 13C metabolic flux analysis using different glucose tracers to estimate non-oxidative glycolysis fluxes in E. coli.

Signatures for conserved phenolic-based acclimation responses to UV in a unicellular algal sister of land plants

The paper exposes zygnematophyte algae to UV irradiance and identifies conserved molecular responses, including lipid droplets and phenolic compounds, suggesting a shared UV acclimation mechanism with land plants.

The mycotoxin zearalenone couples secondary metabolism to N-acetylglucosamine catabolism

This study shows that zearalenone production in Fusarium graminearum is linked to N-acetylglucosamine catabolism, with NAG playing a critical role in both GlcNAc utilization and ZEA tolerance.

Gut Roseburia hominis-derived 10-hydroxystearic acid alleviates metabolic disorder by restoring hepatic fatty acid metabolism

This study identifies Roseburia hominis-derived 10-hydroxystearic acid as a metabolite that improves metabolic health by restoring hepatic fatty acid metabolism in mice.

Genome evolution and glycosyltransferase diversification shape asperosaponin biosynthesis in Dipsacus asperoides

The paper reconstructs the asperosaponin biosynthesis pathway in Dipsacus asperoides by integrating genomics, transcriptomics, and biochemical analyses, revealing gene family diversification and glycosylation order.

FeatureMAP enables network-guided interpretation of untargeted metabolomics

FeatureMAP improves interpretation of untargeted metabolomics data by integrating annotation, network refinement, and functional analysis, revealing metabolic patterns in Alzheimer's disease.

A Urinary Metabolomic Signature Associated with Small Intestinal Bacterial Overgrowth in Children with Short Bowel Syndrome

The paper identifies a urinary metabolomic signature linked to small intestinal bacterial overgrowth in children with short bowel syndrome using gas chromatography/mass spectrometry.

Altered Steroidogenesis in Response to Impaired Mitochondrial Protein Homeostasis

This study shows that mitochondrial proteostasis stress causes a biphasic cortisol response, with mild stress increasing and severe stress decreasing cortisol production, linking mitochondrial function to steroidogenesis in Parkinson's disease models.

SPaRTA: Spatial Reasoning in Text-to-SQL for Omics Analysis

SPaRTA enables non-experts to query spatial-omics data via natural language, achieving 63-77% accuracy with fine-tuning on cancer tissue datasets.

Plant-plant communication in tomato: mechanisms underpinning information transfer between plants

This study investigates plant-plant communication in tomato by analyzing metabolomic and volatile emissions changes in response to herbivory, showing mirror effects in immune system reprogramming between sender and receiver plants.

Floral scent diversity and evolution in deceptive Cypripedium, and post-pollination effects on floral scent and its biosynthesis in C. henryi

This study characterizes floral scent diversity in Cypripedium orchids, finds high chemical diversity with weak phylogenetic signal, and shows limited post-pollination effects on scent composition and gene expression in C. henryi.

Lipidome of Compact Myelin from Cortical Regions of the Aging Murine Brain

The paper analyzes the lipidome of compact myelin from young, middle-aged, and aged mice to identify age-related compositional changes associated with white matter degeneration.

Metabolic engineering of Saccharomyces cerevisiae for improved polyphosphate production

This study engineers Saccharomyces cerevisiae to produce polyphosphate more efficiently by modifying metabolic pathways and growth conditions.

Organic Fertilizer Substitution for Chemical Fertilizer Improves Yield, Medicinal Active Compounds and Amino-Acid Profiles of Dendrobium officinale with Multi-Index Comprehensive Evaluation

This study evaluates the effects of organic fertilizer substitution on Dendrobium officinale yield and medicinal quality, finding that 40% substitution optimizes both growth and active compound content.

A Reproducible Pre-Transplant γδ T-cell Effector Signature Reveals Immune-Metabolic Programs Associated with Kidney Allograft Rejection

The paper identifies a pre-transplant γδ T-cell effector signature associated with kidney allograft rejection using multi-omics data from transplant recipients.

PERTURBATION OF THE AMINO ACID STRESS RESPONSE PATHWAY EXPOSES A METABOLIC VULNERABILITY IN MULTIPLE AGGRESSIVE CANCER SUBTYPES

This study shows that disrupting the amino acid stress response pathway reduces tumor growth in multiple aggressive cancers by targeting chronic metabolic stress adaptation.

Sodium arsenite requires redox sensitization to cause developmental dopaminergic neurotoxicity in Caenorhabditis elegans

This study shows that sodium arsenite requires additional mitochondrial or redox stress to cause dopaminergic neurotoxicity in C. elegans, but not fluoroacetic acid.

An LRH-1 agonist reverses hepatic metabolic dysfunction in obesity

This study develops an LRH-1 agonist that improves insulin sensitivity and reduces liver fat in obese mice, revealing peroxisomal lipid metabolism as a key pathway.

cGAS integrates Toll-like receptor signaling in platelets to promote thromboinflammation

This study shows that cGAS integrates TLR signaling in platelets to drive thromboinflammation by sensing mitochondrial DNA.

Resolving Gene-Metabolism Links through Multi-Metabolite mQTL Commonality Analysis

The paper develops a method to link genes to metabolism by analyzing commonality in metabolite features associated with mQTLs, demonstrating its effectiveness through three case studies.

Application of organic fertilisation such as poultry manure enhanced carbohydrate, fat and vitamin C contents of Huckleberry (Solanum scabrum) more than mineral fertilisation in Buea-Cameroon

This study compares the effects of organic and inorganic fertilizers on huckleberry growth and nutritional content, finding that poultry manure enhances micronutrients more than urea, which boosts yield.

AMD1-driven MTA production sustains chemoresistance by rewiring PMN-MDSC immunosuppression

This study identifies AMD1-driven MTA production as a mechanism sustaining chemoresistance by enhancing PMN-MDSC immunosuppression.

Age-related biological dysregulation quantified using metabolomics is composed of distinct subsystems with synergistic associations to health outcomes: An analysis of the Canadian Longitudinal Study on Aging

The paper quantifies age-related biological dysregulation using metabolomics in older adults and shows it has distinct subsystems linked to health outcomes and DNA methylation.

DEEPNET-LLM: Highly accurate structure prediction of unknown metabolites from mass spectra via their molecular neighborhoods

DEEPNET-LLM predicts unknown metabolite structures from mass spectra by leveraging molecular neighborhoods, achieving high accuracy in de novo structure prediction.

Singular Value Decomposition for the Automated Analysis of NMR Fraction Libraries

This paper introduces an automated method using singular value decomposition to analyze NMR fraction libraries for molecular component identification and quantification.

Enzyme-Constrained Metabolic Modeling Reveals CO2-Dependent Growth Control in Picochlorum celeri

The paper uses enzyme-constrained metabolic modeling to show that Picochlorum celeri's rapid growth at elevated CO2 is due to protein budget allocation, not enzyme abundance.

Wolffia globosa -derived nanovesicles as a natural source of bioactive metabolites with neuroprotective potential against methylglyoxal-induced oxidative stress

This study isolates and characterizes W. globosa-derived nanovesicles, demonstrating their neuroprotective effects against methylglyoxal-induced oxidative stress in vitro.