Systems Biology
Omics Data Integration of Rhynchophorus Ferrugineus Reveals High-Potential Targeted Pathways for the Development of Pest Control Management
Arch Insect Biochem Physiol. 2025 Feb;118(2):e70039. doi: 10.1002/arch.70039.
ABSTRACT
Rhynchophorus ferrugineus (Olivier, 1790) (Coleoptera: Dryophthoridae), commonly known as the red palm weevil (RPW), is a globally significant pest that threatens economically important palm trees. Its cryptic infestation behavior leads to irreversible damage and eventual host plant death. Current control methods using broad-spectrum insecticides are largely ineffective due to resistance development and their adverse effects on nontarget organisms, necessitating novel strategies. This study integrates proteomics and transcriptomics data to explore the molecular landscape of RPW and identify pathways for targeted pest management. A total of 16,954 transcripts and 983 proteins were identified across three developmental stages (larvae, male adults, and female adults), with a notable decline in protein numbers from larvae to adult. Differential expression analysis revealed 7540 proteins varying significantly between developmental stages. Through subtractive analysis, 218 proteins meeting stringent inclusion and exclusion criteria were identified. These proteins underwent pathway enrichment analysis, mapping to 39 enriched pathways (p-value and an FDR of < 0.01). Among these, two pathways involving three key enzymes were highlighted as high-potential targets for developing insect-specific insecticides and diet-specific control strategies. This is the first comprehensive proteomics study analyzing the whole body of RPW across its developmental stages. The findings emphasize critical pathways, their enzyme components, and the regulation of these enzymes, offering novel insights for sustainable and targeted pest management solutions.
PMID:39930668 | DOI:10.1002/arch.70039
Author Correction: A map of the rubisco biochemical landscape
Nature. 2025 Feb 10. doi: 10.1038/s41586-025-08707-7. Online ahead of print.
NO ABSTRACT
PMID:39930266 | DOI:10.1038/s41586-025-08707-7
Overall biomass yield on multiple nutrient sources
NPJ Syst Biol Appl. 2025 Feb 10;11(1):17. doi: 10.1038/s41540-025-00497-y.
ABSTRACT
Microorganisms primarily utilize nutrients to generate biomass and replicate. When a single nutrient source is available, the produced biomass typically increases linearly with the initial amount of that nutrient. This linear trend can be accurately predicted by "black box models", which conceptualize growth as a single chemical reaction, treating nutrients as substrates and biomass as a product. However, natural environments usually present multiple nutrient sources, prompting us to extend the black box framework to incorporate catabolism, anabolism, and biosynthesis of biomass precursors. This modification allows for the quantification of co-utilization effects among multiple nutrients on microbial biomass production. The extended model differentiates between different types of nutrients: non-degradable nutrients, which can only serve as a biomass precursor, and degradable nutrients, which can also be used as an energy source. We experimentally demonstrated using Escherichia coli that, in contrast to initial model predictions, different nutrients affect each other's utilization in a mutually dependent manner; i.e., for some combinations, the produced biomass was no longer proportional to the initial amounts of nutrients present. To account for these mutual effects within a black box framework, we phenomenologically introduced an interaction between the metabolic processes involved in utilizing the nutrient sources. This phenomenological model qualitatively captures the experimental observations and, unexpectedly, predicts that the total produced biomass is influenced not only by the combination of nutrient sources but also by their relative initial amounts - a prediction we subsequently validated experimentally. Moreover, the model identifies which metabolic processes - catabolism, anabolism, or precursor biosynthesis-is affected in each specific nutrient combination, offering insights into microbial metabolic coordination.
PMID:39929850 | DOI:10.1038/s41540-025-00497-y
The nonlinear cysteine redox dynamics in the i-space: A proteoform-centric theory of redox regulation
Redox Biol. 2025 Feb 5;81:103523. doi: 10.1016/j.redox.2025.103523. Online ahead of print.
ABSTRACT
The post-translational redox regulation of protein function by cysteine oxidation controls diverse biological processes, from cell division to death. However, most current site-centric paradigms fail to capture the nonlinear and emergent nature of redox regulation in proteins with multiple cysteines. Here, we present a proteoform-centric theory of redox regulation grounded in the i-space. The i-space encapsulates the theoretical landscape of all possible cysteine proteoforms. Using computational approaches, we quantify the vast size of the abstract i-space, revealing its scale-free architecture-elucidating the disproportionate influence of cysteine-rich proteins. We define mathematical rules governing cysteine proteoform dynamics. Their dynamics are inherently nonlinear, context-dependent, and fundamentally constrained by protein copy numbers. Monte Carlo simulations of the human protein PTP1B reveal extensive i-space sampling beyond site-centric models, supporting the "oxiform conjecture". This conjecture posits that highly oxidised proteoforms, molecules bearing multiple oxidised cysteines, are central to redox regulation. In support, even 90%-reduced proteomes can house vast numbers of unique, potentially functioanlly diverse, oxiforms. This framework offers a transformative lens for understanding the redox biology of proteoforms.
PMID:39929052 | DOI:10.1016/j.redox.2025.103523
ProteoArk: A One-Pot Proteomics Data Analysis and Visualization Tool for Biologists
J Proteome Res. 2025 Feb 10. doi: 10.1021/acs.jproteome.4c00556. Online ahead of print.
ABSTRACT
ProteoArk is a web-based tool that offers a range of computational pipelines for comprehensive analysis and visualization of mass spectrometry-based proteomics data. The application comprises four primary sections designed to address various aspects of mass spectrometry data analysis in a single platform, including label-free and labeled samples (SILAC/iTRAQ/TMT), differential expression analysis, and data visualization. ProteoArk supports postprocessing of Proteome Discoverer, MaxQuant, and MSFragger search results. The tool also includes functional enrichment analyses such as gene ontology, protein-protein interactions, pathway analysis, and differential expression analysis, which incorporate various statistical tests. By streamlining workflows and developing user-friendly interfaces, we created a robust and accessible solution for users with basic bioinformatics skills in proteomic data analysis. Users can easily create manuscript-ready figures with a single click, including principal component analysis, heatmaps (K-means and hierarchical), MA plots, volcano plots, and circular bar plots. ProteoArk is developed using the Django framework and is freely available for users [https://ciods.in/proteoark/]. Users can also download and run the standalone version of ProteoArk using Docker as described in the instructions [https://ciods.in/proteoark/dockerpage]. The application code, input data, and documentation are available online at https://github.com/ArokiaRex/proteoark. A tutorial video is available on YouTube: https://www.youtube.com/watch?v=WFMKAZ9Slq4&ab_channel=RexD.A.B.
PMID:39928856 | DOI:10.1021/acs.jproteome.4c00556
In Silico identification and characterization of SOS gene family in soybean: Potential of calcium in salinity stress mitigation
PLoS One. 2025 Feb 10;20(2):e0317612. doi: 10.1371/journal.pone.0317612. eCollection 2025.
ABSTRACT
Leguminous crops are usually sensitive to saline stress during germination and plant growth stages. The Salt Overly Sensitive (SOS) pathway is one of the key signaling pathways involved in salt translocation and tolerance in plants however, it is obscure in soybean. The current study describes the potential of calcium application on the mitigation of salinity stress and its impact on seed germination, morphological, physiological and biochemical attributes of soybean. The seeds from previously reported salt-tolerant and salt-susceptible soybean varieties were primed with water, calcium (10 and 20 mM), and stressed under 60, 80 and 100 mM NaCl and evaluated in various combinations. Results show that germination increased by 7% in calcium primed non-stressed seeds under non-stressing, whereas an improvement of 15%-25% was observed in germination under NaCl stress. Likewise, improvement in seedling length (3%-8%), plant height (9%-18%), number of nodes (3%-14%), SOD activity (20%) and Na+/K+ concentration (3%-5% reduction) in calcium primed plants, indicates alleviation of salinity-induced negative effects. In addition, this study also included in silico identification and confirmation of presence of Arabidopsis thaliana SOS genes orthologs in soybean. The research of amino acid sequences of SOS proteins from Arabidopsis thaliana (AtSOSs) within Glycine max genome displayed protein identity (60-80%) thus these identified homologs were called as GmSOS. Further phylogeny and in silico analyses showed that GmSOS orthologs contain similar gene structures, close evolutionary relationship, and same conserved motifs, reinforcing that GmSOSs belong to SOS family and they share many common features with orthologs from other species thus may perform similar functions. This is the first study that reports role of SOSs in salt-stress mitigation in soybean.
PMID:39928632 | DOI:10.1371/journal.pone.0317612
Identification of critical genes and drug repurposing targets in entorhinal cortex of Alzheimer's disease
Neurogenetics. 2025 Feb 10;26(1):27. doi: 10.1007/s10048-025-00806-x.
ABSTRACT
Alzheimer's disease (AD) is a slow brain degeneration disorder in which the accumulation of beta-amyloid precursor plaque and an intracellular neurofibrillary tangle of hyper-phosphorylated tau proteins in the brain have been implicated in neurodegeneration. In this study, we identified the most important genes that are unique and sensitive in the entorhinal region of the brain to target AD effectively. At first, microarrays data are selected and constructed protein-protein interaction network (PPIN) and gene regulatory network (GRN) from differentially expressed genes (DEGs) using Cytoscape software. Then, networks analysis was performed to determine hubs, bottlenecks, clusters, and signaling pathways in AD. Finally, critical genes were selected as targets for repurposing drugs. Analyzing the constructed PPIN and GRN identified CD44, ELF1, HSP90AB1, NOC4L, BYSL, RRP7A, SLC17A6, and RUVBL2 as critical genes that are dysregulated in the entorhinal region of AD suffering patients. The functional enrichment analysis revealed that DEG nodes are involved in the synaptic vesicle cycle, glutamatergic synapse, PI3K-Akt signaling pathway, retrograde endocannabinoid signaling, endocrine and other factor-regulated calcium reabsorption, ribosome biogenesis in eukaryotes, and nicotine addiction. Gentamicin, isoproterenol, and tumor necrosis factor are repurposing new drugs that target CD44, which plays an important role in the development of AD. Following our model validation using the existing experimental data, our model based on previous experimental reports suggested critical molecules and candidate drugs involved in AD for further investigations in vitro and in vivo.
PMID:39928227 | DOI:10.1007/s10048-025-00806-x
Pulmonary Aspergillosis and Low HIES Score in a Family with STAT3 N-Terminal Domain Mutation
J Clin Immunol. 2025 Feb 10;45(1):73. doi: 10.1007/s10875-025-01867-1.
ABSTRACT
Signal transducer and activator of transcription 3 (STAT3) plays a key role in leukocytic and non-leukocytic cells. Germ line mutations in STAT3, which are mainly found in the SH2, DNA binding and transactivation domains, can be loss- or gain-of-function (LOF and GOF). STAT3 N-terminal domain (NTD) mutations are rare, and their biological effects remain incompletely understood. We explored the significance of STAT3 NTD p.Trp37* variant in a patient with chronic pulmonary aspergillosis and a low Hyper-IgE syndrome (HIES) score. In cell culture models, the expression of full-length p.Trp37* allele showed shorter STAT3 protein expression suggesting a re-initiation (Met99 or Met143). STAT3 activity using luciferase reporter assay showed a twofold-increased activity of the STAT3 p.Trp37* STAT3 protein compared with WT STAT3 at basal level and upon IL-6 stimulation. In contrast, the activity of the short pTrp37* peptide (amino acids 1 to 37) was amorphic but without dominant negative (DN) effect on transcriptional activity or STAT3 Tyr705 phosphorylation. The proteins initiated at Met99 and Met143 were surprisingly hypermorphic. In carriers' peripheral blood mononuclear cells (PBMCs), both WT and mutated STAT3 mRNA were equally present and the global amount of STAT3 protein was not significantly reduced. In stimulated heterozygous carriers' PBMCs, however, STAT3 Tyr705 phosphorylation and Th17 were reduced but not completely abolished. This suggests a DN effect of an unknown product of the p.Trp37* allele. Transcriptomics analysis of PBMCs from the index revealed selectively distinct gene expression. We conclude that heterozygosity for the NTD p.Trp37* STAT3 mutation defines a novel allelic form of STAT3 deficiency, associated with a chronic pulmonary aspergillosis and minor signs of HIES.
PMID:39928202 | DOI:10.1007/s10875-025-01867-1
The LC3-interacting region of NBR1 is a protein interaction hub enabling optimal flux
J Cell Biol. 2025 Apr 7;224(4):e202407105. doi: 10.1083/jcb.202407105. Epub 2025 Feb 10.
ABSTRACT
During autophagy, toxic cargo is encapsulated by autophagosomes and trafficked to lysosomes for degradation. NBR1, an autophagy receptor targeting ubiquitinated aggregates, serves as a model for studying the multivalent, heterotypic interactions of cargo-bound receptors. Here, we find that three critical NBR1 partners-ATG8-family proteins, FIP200, and TAX1BP1-each bind to distinct, overlapping determinants within a short linear interaction motif (SLiM). To explore whether overlapping SLiMs extend beyond NBR1, we analyzed >100 LC3-interacting regions (LIRs), revealing that FIP200 and/or TAX1BP1 binding to LIRs is a common phenomenon and suggesting LIRs as protein interaction hotspots. Phosphomimetic peptides demonstrate that phosphorylation generally enhances FIP200 and ATG8-family binding but not TAX1BP1, indicating differential regulation. In vivo, LIR-mediated interactions with TAX1BP1 promote optimal NBR1 flux by leveraging additional functionalities from TAX1BP1. These findings reveal a one-to-many binding modality in the LIR motif of NBR1, illustrating the cooperative mechanisms of autophagy receptors and the regulatory potential of multifunctional SLiMs.
PMID:39928048 | DOI:10.1083/jcb.202407105
A reference dataset of O-GlcNAc proteins in quadriceps skeletal muscle from mice
Glycobiology. 2025 Feb 10:cwaf005. doi: 10.1093/glycob/cwaf005. Online ahead of print.
ABSTRACT
A key nutrient sensing process in all animal tissues is the dynamic attachment of O-linked N-acetylglucosamine (O-GlcNAc). Determining the targets and roles of O-GlcNAc glycoproteins has the potential to reveal insights into healthy and diseased metabolic states. In cell studies, thousands of proteins are known to be O-GlcNAcylated, but reference datasets for most tissue types in animals are lacking. Here, we apply a chemoenzymatic labeling study to compile a high coverage dataset of quadriceps skeletal muscle O-GlcNAc glycoproteins from mice. Our dataset contains over 550 proteins, and > 80% of the dataset matched known O-GlcNAc proteins. This dataset was further annotated via bioinformatics, revealing the distribution, protein interactions, and gene ontology (GO) functions of these skeletal muscle proteins. We compared these quadriceps glycoproteins with a high-coverage O-GlcNAc enrichment profile from mouse hearts and describe the key overlap and differences between these tissue types. Quadriceps muscles can be used for biopsies, so we envision this dataset to have potential biomedical relevance in detecting aberrant glycoproteins in metabolic diseases and physiological studies. This new knowledge adds to the growing collection of tissues with high-coverage O-GlcNAc profiles, which we anticipate will further the systems biology of O-GlcNAc mechanisms, functions, and roles in disease.
PMID:39927985 | DOI:10.1093/glycob/cwaf005
Response to Letter to Editor by A. Derbalah et al.: the role of automation in enhancing reproducibility and interoperability of PBPK models
Brief Bioinform. 2024 Nov 22;26(1):bbaf060. doi: 10.1093/bib/bbaf060.
NO ABSTRACT
PMID:39927860 | DOI:10.1093/bib/bbaf060
Multi-modal refinement of the human heart atlas during the first gestational trimester
Development. 2025 Feb 10:dev.204555. doi: 10.1242/dev.204555. Online ahead of print.
ABSTRACT
Forty first-trimester human hearts were studied to lay groundwork for further studies of principles underlying congenital heart defects. We first sampled 49,227 cardiac nuclei from three fetuses at 8.6, 9.0, and 10.7 post-conceptional weeks (pcw) for single-nucleus RNA sequencing, enabling distinction of six classes comprising 21 cell types. Improved resolution led to identification of novel cardiomyocytes and minority autonomic and lymphatic endothelial transcriptomes, among others. After integration with 5-7 pcw heart single-cell RNAseq, we identified a human cardiomyofibroblast progenitor preceding diversification of cardiomyocyte and stromal lineages. Analysis of six Visium sections from two additional hearts was aided by deconvolution, and key spatial markers validated on sectioned and whole hearts in two- and three-dimensional space and over time. Altogether, anatomical-positional features including innervation, conduction and subdomains of the atrioventricular septum translate latent molecular identity into specialized cardiac functions. This atlas adds unprecedented spatial and temporal resolution to the characterization of human-specific aspects of early heart formation.
PMID:39927812 | DOI:10.1242/dev.204555
Genetic analysis of elevated levels of creatinine and cystatin C biomarkers reveals novel genetic loci associated with kidney function
Hum Mol Genet. 2025 Feb 10:ddaf018. doi: 10.1093/hmg/ddaf018. Online ahead of print.
ABSTRACT
The rising prevalence of chronic kidney disease (CKD), affecting an estimated 37 million adults in the United States, presents a significant global health challenge. CKD is typically assessed using estimated Glomerular Filtration Rate (eGFR), which incorporates serum levels of biomarkers such as creatinine and cystatin C. However, these biomarkers do not directly measure kidney function; their elevation in CKD results from diminished glomerular filtration. Genome-wide association studies (GWAS) based on eGFR formulas using creatinine (eGFRcre) or cystatin C (eGFRcys) have identified distinct non-overlapping loci, raising questions about whether these loci govern kidney function or biomarker metabolism. In this study, we show that GWAS on creatinine and cystatin C levels in healthy individuals reveal both nonoverlapping genetic loci impacting their metabolism as well as overlapping genetic loci associated with kidney function; whereas GWAS on elevated levels of these biomarkers uncover novel loci primarily associated with kidney function in CKD patients.
PMID:39927731 | DOI:10.1093/hmg/ddaf018
A comparison between adjuvant and delivering functions of iron oxide and calcium phosphate nanoparticles, using a model protein against <em>Brucella melitensis</em>
Clin Exp Vaccine Res. 2025 Jan;14(1):67-76. doi: 10.7774/cevr.2025.14.e3. Epub 2025 Jan 13.
ABSTRACT
PURPOSE: Calcium phosphate (CaP) and iron oxide (IO) nanoparticles (NPs) are promising adjuvants and delivery systems for vaccination. Furthermore, it has been shown that the chimeric antigen TF/Bp26/Omp31 (TBO) is a good candidate for stimulating protection against virulent Brucella melitensis. Our aim in the present study was to compare the roles of CaP and IO NPs for induction of the immune response and protection against B. melitensis 16M by using the TBO antigen as a model protein.
MATERIALS AND METHODS: The tbo gene was expressed in the bacterial host and was evaluated by SDS-PAGE and western blot. The recombinant TBO was loaded onto CaP (CaP/TBO) and IO (IO/TBO) NPs. CaP/TBO and IO/TBO NPs were administered subcutaneously.
RESULTS: Antibody levels showed that immunization with both CaP/TBO and IO/TBO NPs stimulated mixed Th1-Th2 immune responses. In addition, immunized mice were challenged with a virulent strain of B. melitensis 16M. Immunized mice with CaP/TBO NPs showed a higher degree of protection than vaccinated animals with IO/TBO NPs.
CONCLUSION: Altogether, our results indicated that the CaP NPs are a potent adjuvant and delivery system for subcutaneously administered Brucella antigens.
PMID:39927221 | PMC:PMC11799579 | DOI:10.7774/cevr.2025.14.e3
Survival and prognostic factors for primary lung extranodal NK/T-cell lymphoma: a retrospective study of data from China and the SEER database
Front Oncol. 2025 Jan 24;15:1496735. doi: 10.3389/fonc.2025.1496735. eCollection 2025.
ABSTRACT
BACKGROUND AND AIM: Extranodal NK/T-cell lymphoma (ENKTL) is a rare and aggressive subtype of non-Hodgkin's lymphoma that most commonly affects the nasal cavity and nasopharynx. The lung is a rare site for ENKTL involvement, and its clinical behavior and prognostic factors are not well understood. This study aimed to analyze survival outcomes and identify prognostic factors in patients with primary lung ENKTL.
METHODS: A retrospective analysis was conducted using data from 20 cases of primary lung ENKTL, including four patients who were treated at Peking University Third Hospital in Beijing and 16 patients were extracted from the Surveillance, Epidemiology, and End Results Program database. Clinical characteristics, treatment modalities, and survival data were collected and analyzed using Kaplan-Meier and Cox regression models to identify potential prognostic factors.
RESULTS: The study cohort included 13 male (65%) and 7 female (35%) patients with a median age of 57 years. Sex was a significant predictor of survival (P = 0.030), with female patients having lower survival rates. Other factors, including age, race, and disease stage, were not significantly associated with survival. Most patients received chemotherapy (45%) or a combination of chemotherapy and radiotherapy (5%), but treatment data were incomplete for 40% of the cohort. The median overall survival was poor, reflecting the aggressive nature of primary lung ENKTL.
CONCLUSIONS: Primary lung ENKTL is a rare, aggressive malignancy with limited available data. In this cohort, sex was a significant prognostic factor, while other demographic and clinical variables did not show significant associations with survival. Future research should focus on understanding the molecular and immunological drivers of this disease, with an emphasis on discovering novel therapeutic approaches. Large-scale multicenter studies are needed to improve diagnostic and treatment strategies for primary lung ENKTL.
PMID:39926277 | PMC:PMC11802421 | DOI:10.3389/fonc.2025.1496735
Seaweed and yeast extracts as sustainable phytostimulant to boost secondary metabolism of apricot fruits
Front Plant Sci. 2025 Jan 24;15:1455156. doi: 10.3389/fpls.2024.1455156. eCollection 2024.
ABSTRACT
In our study, we investigated the effects of Expando, a commercial biostimulant derived from seaweed and yeast extracts, on the secondary metabolism of Lady cot and Orange prima apricot cultivars. Notably, treatments with or 5.0 L/ha of Expando improved fruit uniformity and harvests synchronization, providing agronomic benefits. Expando positively influenced the biosynthesis of essential bioactive compounds such as polyphenols, flavonoids, proanthocyanidins, and anthocyanins in both apricot pulp and peel, as validated by HPLC-ESI-MS/MS analysis. These metabolic enhancements translated into significantly increased total antioxidant activity, particularly evident in the peel samples. Principal Component Analysis (PCA) revealed distinct effects of the 5.0 and 4.0 L/ha treatments, distinguishing them from lower doses and the control group. Our findings emphasize the potential of Expando to enhance the phytochemical profile of apricot fruits, positioning biostimulants as pivotal tools for improving fruit quality and sustainability in agriculture. Expando offers a sustainable and eco-friendly approach to enhancing crop yield and nutritional value, representing a significant step towards more resilient and environmentally conscious farming practices. Further research is needed to explore its broader implications and optimize application strategies for commercial orchards.
PMID:39925374 | PMC:PMC11802282 | DOI:10.3389/fpls.2024.1455156
Study of spider flower C-lignin reveals two novel monolignol transporters
New Phytol. 2025 Feb 10. doi: 10.1111/nph.20447. Online ahead of print.
NO ABSTRACT
PMID:39925315 | DOI:10.1111/nph.20447
Clinical Proteomics, Quo Vadis?
Proteomics. 2025 Feb 9:e202400346. doi: 10.1002/pmic.202400346. Online ahead of print.
ABSTRACT
The field of clinical proteomics has seen enormous growth in the past 20 years, with over 40,000 scientific manuscripts published to date. At the same time, actual clinical application of the reported findings is obviously scarce. In this viewpoint article, we discuss the key issues that may be responsible for this apparent lack of success. We conclude that success must not be assessed based on the number of publications, but via the impact on patient management and treatment. We proceed with specific suggestions for potential solutions, which include keeping a strict focus on potential patient benefit. We hope this article can help shape the field, so it can in fact deliver on its realistic promise to bring significant improvement in management and care to patients.
PMID:39924729 | DOI:10.1002/pmic.202400346
Metabolomics Studies in Cushing's Syndrome: Recent Developments and Perspectives
Expert Rev Proteomics. 2025 Feb 9. doi: 10.1080/14789450.2025.2463324. Online ahead of print.
ABSTRACT
INTRODUCTION: Exogenous Cushing's syndrome is the result of long-term exposure to glucocorticoids, while endogenous Cushing's syndrome occurs due to excessive production of glucocorticoids within the body. Cushing's syndrome remains a diagnostic challenge for the treating physician.Mass spectrometry, with its better resolution, detectability and specificity, paved the way to understanding the cellular and molecular mechanisms involved in the several diseases that facilitated the evolution of biomarkers and personalized medicine, which can be applicable to manage Cushing's syndrome as well.
AREAS COVERED: There are only a few reports of mass spectrometry-based metabolomic approaches to endogenous Cushing's syndrome of certain etiologies. However, the application of this approach in the diagnosis of exogenous Cushing has not been explored much. This review attempts to discuss the application of the mass spectrometry-based metabolomic approach in the evaluation of Cushing's syndrome.
EXPERT OPINION: Global metabolomics has the potential to discover altered metabolites and associated signaling and metabolic pathways, which may serve as potential biomarkers that would help in developing tools to accelerate precision medicine. Multi-omics approaches will provide innovative solutions to develop molecular tests for multi-molecule panel assays.
PMID:39924469 | DOI:10.1080/14789450.2025.2463324
Grape Stalks Valorization Towards Circular Economy: A Cascade Biorefinery Strategy
ChemSusChem. 2025 Feb 9:e202402536. doi: 10.1002/cssc.202402536. Online ahead of print.
ABSTRACT
Lignocellulosic biomasses have the potential to generate by-products with biological activity (i.e., polyphenols) as well as biopolymers (i.e., cellulose, hemicellulose, pectins, lignin). The wine industry is one of the pillars of Italian agri-food sector. Nevertheless, large quantities of by-products such as grape stems are produced, which are usually disposed of at a cost, and therefore represent an attractive negative-cost feedstock for biorefinery. In this work, a sequential protocol for biomass valorization is proposed, characterized by a multidisciplinary strategy using enabling technologies and subcritical water as a green solvent, where physical/chemical treatments synergistically interact with biological treatments. The first phase involved the sequential fractionation of grape stalks, obtaining several product streams rich in polyphenols, hemicellulose, pectin (13.15% of cumulative yield on biomass), lignin and cellulose. A membrane treatment was employed to recycle materials within the process. Finally, the cellulose-rich residue was exploited as a fermentation substrate for the last step, producing up to 5.8 g/L of lactic acid by harnessing suitably engineered Clostridium thermocellum strains. The polyphenolic fraction successfully inhibited the growth of Brettanomyces bruxellensis and Acetobacter pasteurianus, microorganisms responsible for major wine off-flavors. Globally, this study represents a proof-of-concept of a second-generation biorefining process based on locally available waste biomass.
PMID:39924442 | DOI:10.1002/cssc.202402536