PubMed

Vet Sci. 2025 Mar 3;12(3):237. doi: 10.3390/vetsci12030237.ABSTRACTDue to the high mortality rate in chicks caused by pullorum disease (PD) and the drawbacks of antibiotic resistance, the poultry industry is increasingly interested in using natural herbal antimicrobial agents as alternatives, with cinnamaldehyde (CA) being a focus due to its multitarget and synergistic effects. This study aimed to evaluate the effects of oral administration of CA on restoring intestinal physical integrity, intestinal microbial barrier, and intestinal metabolism in a laboratory model of Salmonella pullorum (S. pullorum) infection in chicks. Thirty-six chicks were divided into six groups. The S.P and CA groups were infected with 5 × 108 CFU/mL, 0.5 mL S. pullorum, while the CON group received an equal-volume saline injection. The CA group was treated with 100 mg/kg CA, and the others received phosphate buffer saline (PBS). Samples were collected 24 h after the last treatment. Intestinal physical integrity was assessed by H&E staining, and ELISA was used to measure inflammatory factors. In situ hybridization (ISH) and RT-qPCR were used to measure the expression of tight-junction protein mRNA. The microbiota was analyzed by 16S rRNA gene sequencing of the ileal contents, and metabolite analysis was performed on the intestinal contents. After CA treatment, the expression of IL-1β and TNF-α was reduced, and IL-10 was increased (p < 0.05). H&E staining showed that the intestinal structure was partially restored after treatment. ISH results showed that the fluorescence intensity indicating gene expression status was low in the S.P group and high in the CA group, indicating reduced intestinal permeability. RT-qPCR showed that CA up-regulated the mRNA expression of tight-junction proteins (claudin-1, occludin-1, and zo-1, p < 0.05). The 16S rRNA gene sequence analysis showed that Salmonella was significantly enriched in the S.P group (LDA score > 2.0, p < 0.05), while specific genera were significantly more abundant in the treated groups. Untargeted sequencing of intestinal contents showed that key metabolites (butyrate, alanine, glutamate, cholesterol, and propionate) in the CA group were significantly changed compared with the S.P group (p < 0.05). CA treatment was the most effective method for reducing PD intestinal colonization and maintaining better intestinal homeostasis, possibly by regulating intestinal microbiota and metabolic functions.PMID:40266958 | DOI:10.3390/vetsci12030237

Environ Health Perspect. 2025 Apr 23. doi: 10.1289/EHP14984. Online ahead of print.ABSTRACTBACKGROUND: The South Korean humidifier disinfectant-associated lung injury case was one of the worst disasters involving household chemical products, resulting in over 5,800 casualties. Despite the strong association between lung injury and humidifier disinfectants, the underlying pathogenic mechanisms remain unclear.OBJECTIVES: We investigated patients with humidifier disinfectant-associated lung injury to identify key metabolic signatures, aiming to gain insights into the underlying pathogenic mechanisms based on the characteristics of these metabolites.METHODS: We employed untargeted metabolomics to assess the differential enrichment of plasma metabolites in 80 South Korean children with lung injuries caused by exposure to humidifier disinfectant containing polyhexamethylene guanidine. The key metabolites identified were subsequently validated in an independent cohort of 132 South Korean adults.RESULTS: In the plasma of patients with humidifier disinfectant-associated lung injuries, we observed significantly higher levels of oxidized lipids compared to healthy controls, with these levels negatively correlating with lung function. These metabolic signatures differentiated humidifier disinfectant-associated lung injury from other respiratory diseases in children, such as asthma and bronchiolitis obliterans. The 47 key metabolites identified in children were validated in an independent adult cohort. Furthermore, the classification performance of these metabolic signatures for humidifier disinfectant-associated lung injury achieved an accuracy of 0.97, a precision of 0.95, an F1 score of 0.97, and a recall of 1.00.DISCUSSION: These findings suggest a connection between humidifier disinfectant-associated lung injury and oxidative stress-induced lipid peroxidation. The oxidative stress signatures provide valuable insights into the underlying pathogenesis of humidifier disinfectant-associated lung injury and may serve as potential targets for biomarker development. https://doi.org/10.1289/EHP14984.PMID:40266912 | DOI:10.1289/EHP14984

STAR Protoc. 2025 Apr 22;6(2):103786. doi: 10.1016/j.xpro.2025.103786. Online ahead of print.ABSTRACTCrabtree-positive yeasts rapidly consume glucose via glycolysis, making it difficult to experimentally estimate their actual glycolytic rate or flux. We present a stable isotope labeling and liquid chromatography-tandem mass spectrometry (LC-MS/MS)-based protocol to quantitatively estimate glycolytic and related carbon metabolic fluxes using Saccharomyces cerevisiae. This approach defines time windows to capture glucose metabolic intermediate production before label saturation, enabling a comparison of glycolytic flux changes across different cells. This protocol provides a reliable, quantitative approach to study dynamic metabolic fluxes in these cells. For complete details on the use and execution of this protocol, please refer to Vengayil et al., 2024.1.PMID:40266845 | DOI:10.1016/j.xpro.2025.103786

Mol Biol Cell. 2025 Apr 23:mbcE25030116. doi: 10.1091/mbc.E25-03-0116. Online ahead of print.ABSTRACTAxonemal dyneins power ciliary motility and phosphorylation of key intermediate and light chain components affects the regulation and properties of these motors in very distantly related organisms. It is also known that many axonemal dynein heavy chains are subject to this post-translational modification although this has been little studied. Here we examine axonemal dynein heavy chains from a broad range of ciliated eukaryotes and identify phosphorylated sites embedded within various kinase recognition motifs such as those for PKA, PKC and casein kinase II. Mapping these sites onto discrete heavy chain types reveals class-specific locations apparently mediated by different kinases. For example, we find that all Chlamydomonas α heavy chain phosphorylation sites are in an extended loop derived from AAA5 that arches over the coiled-coil buttress which in turn interacts with the microtubule-binding stalk. In contrast, most sites in the monomeric inner arm dyneins occur very close to the N-terminus and may be involved in assembly processes. In Chlamydomonas, the two cilia (termed cis and trans) exhibit different intrinsic beat frequencies and we identify cilium-specific phosphorylation patterns on both the α heavy chain and outer arm docking complex consistent with differential regulation of these motors in the two organelles.PMID:40266815 | DOI:10.1091/mbc.E25-03-0116

Insects. 2025 Mar 1;16(3):250. doi: 10.3390/insects16030250.ABSTRACTExposure to low temperatures during honeybee development has been shown to impede brain development and affect cognitive function in adult bees. On the other hand, neuronal damage due to oxidative stress has been reported in many cases. Hence, biochemical parameters related to oxidative stress in honeybee pupae brain were determined. The levels of GSH in the pupal brain decreased after 24 h and 48 h of exposure to low temperatures; there were also reduced activities of SOD and CAT enzymes following 48 h of low-temperature treatment compared to the control group. Furthermore, analysis of transcriptome data post-24 h and -48 h low-temperature stress revealed the suppression of the glutathione metabolism and peroxisome pathways in pupal brains. Additionally, expression pattern clustering analysis and KEGG enrichment showed that 10 differentially expressed genes with down-regulated expression trends post-low-temperature treatment were significantly enriched in the peroxisome pathway, including PEX10, highlighting their connection to peroxisome function. RT-qPCR validation was conducted on 11 core enriched genes in pathways identified via GSEA, and all these genes exhibited a downregulated expression pattern, confirming the inhibition of glutathione metabolism and peroxisome function under low-temperature stress. The present study showed that exposing honeybee pupae to low temperatures suppressed both the glutathione metabolism and peroxisome pathways, resulting in increased oxidative stress. This research enhances our understanding of how the pupal brain reacts to cold stress and illuminates the neural damage associated with low temperatures during honeybee capped brood development.PMID:40266741 | DOI:10.3390/insects16030250

Metabolomics. 2025 Apr 23;21(3):56. doi: 10.1007/s11306-025-02243-1.ABSTRACTBACKGROUND: Captive cheetahs are prone to a range of unusual diseases potentially linked to unnatural diets high in muscle meat and low in collagen-rich animal fibre. In the wild, cheetahs typically eat whole prey diets not easily replicated in a captive setting. Glycine is the most abundant amino acid in collagen with a key role in several metabolic pathways such as collagen biosynthesis. Several recent studies suggest that endogenous glycine production may be limited in several species.OBJECTIVES: Using untargeted 1H- nuclear magnetic resonance, the metabolic changes in the urine and serum of 10 adult captive cheetahs on a glycine-supplemented diet were investigated.METHODS: Cheetahs were fed either a meat only (control) or glycine-supplemented meat diet (30 g glycine per 1 kg meat) for four weeks, followed by a four-week cross-over. Urine and blood samples were collected at baseline and after each intervention.RESULTS: A total of 151 and 60 metabolites were identified in the urine and serum, respectively. Specifically, dimethylsulphone, proline, fructose, dimethylamine, trimethylamine, pyroglutamic acid, 1,3-diaminopropane, dihydrothymine, methylmalonic acid and pimelic acid contributed to metabolome differences in the urine. In serum, glutamic acid, threonine, α-aminobutyric acid, glucose-6-phosphate, ethanolamine, methionine and propionic acid were highlighted. These metabolites play various metabolic roles in energy production, immune function, protein and collagen biosynthesis or as products of gut microbiome fermentation.CONCLUSION: Glycine supplementation influenced threonine sparing, pyrimidine biosynthesis pathways and bacterial fermentation products, although the implications of these findings on the health of captive cheetahs is unknown. Future studies should use a targeted approach to further elaborate on these pathways.PMID:40266410 | DOI:10.1007/s11306-025-02243-1

Planta. 2025 Apr 23;261(6):116. doi: 10.1007/s00425-025-04692-3.ABSTRACTCompared with its parents, the heterosis in growth of QB3 is primarily attributed to the upregulation of auxin and brassinosteroid-related genes, as well as the induced expression of numerous xylem and phloem synthesis genes, particularly the accumulation of lignin. Interestingly, QB3 significantly increased resistance to gray mold, which may be related to anthocyanin accumulation. Our findings illuminate the complex interplay of biological mechanisms that govern the regulation of wood growth and resistance. Poplar, as a fast-growing energy species widely distributed in the northern hemisphere, has important ecological and economic value. The hybridization of poplars is very common and often can bring to the progeny superior growth and resilience traits, but the molecular mechanism of heterosis remains to be studied. Through decades of crossbreeding work, a high-growth rate hybrid offspring named QinBai3 (QB3) was selected from P. alba × (P. alba × P. glandulosa), which provided an ideal model for investigating the molecular mechanism of heterosis. We found that the plant height, ground diameter, and xylem thickness of QB3 were much higher than those of I101 and 84 K. Through transcriptome and qRT-PCR analyses, we found that the expression levels of poplar regulatory genes associated with vegetative growth, brassinosteroid (BR), and auxin hormone signaling were significantly elevated in July compared to February. Meanwhile, compared to its parents, QB3 exhibited more specifically up-regulated genes in the processes of xylem and phloem synthesis, notably PalOPS and PalPRX52. However, in response to certain abiotic stresses, such as water deprivation and UV-B exposure, more down-regulated genes were identified. Metabolome analyses indicated that QB3 significantly increased the levels of lignin and anthocyanin, a result that aligns with the transcriptome data. Additionally, chemical assays confirmed the substantial accumulation of lignin and anthocyanin in QB3, suggesting that increased lignin accumulation may enhance the stem growth rate of QB3. Surprisingly, QB3 significantly increased resistance to Botrytis cinerea B05.10, which was accompanied by anthocyanin accumulation. In addition, our study offers detailed insights into the molecular mechanisms underlying rapid growth and stress resistance in hybrid poplar, thereby providing a new theoretical foundation and practical guidance for forest genetic breeding.PMID:40266331 | DOI:10.1007/s00425-025-04692-3

Anal Bioanal Chem. 2025 Apr 23. doi: 10.1007/s00216-025-05871-7. Online ahead of print.ABSTRACTTo evaluate the potential risks posed by farm-derived fine particulate matter (PM2.5), we conducted a comprehensive analysis of PM2.5 samples collected from chicken farms. Specifically, water-soluble ions, metal and metalloids, and volatile organic compounds (VOCs) were quantitatively determined via ion chromatography, inductively coupled plasma mass spectrometry (ICP-MS), and gas chromatography‒mass spectrometry (GC‒MS), respectively. Furthermore, the microbial composition was elucidated through 16S ribosomal RNA (rRNA) high-throughput sequencing and ribosomal DNA (rDNA)-internal transcribed spacer (ITS) analysis. The study revealed that the water-soluble ion profile of PM2.5 was dominated by NO3-, NH4+, and SO42-, among others. Notably, aluminum, zinc, and manganese emerged as metals with relatively high concentrations. The primary VOCs identified were formic acid, acetic acid, and propionic acid. Microbiologically, Aspergillus and Faecalibacterium were the predominant genera detected. Upon exposure to PM2.5, BEAS-2B cells exhibited marked morphological alterations and a decrease in cell viability. Additionally, a dose-dependent increase in intracellular reactive oxygen species (ROS) and malondialdehyde (MDA) levels was observed, accompanied by a decrease in superoxide dismutase (SOD) activity. This oxidative stress was further corroborated by elevated levels of inflammatory cytokines, including IL-6, IL-8, and TNF-α. Our findings suggest that livestock-generated PM2.5 significantly impacts cellular metabolism, particularly amino acid and nucleotide metabolism. Notably, PM2.5 from these environments can elicit cellular oxidative stress and inflammatory responses, which, with prolonged exposure, may lead to adverse health outcomes in both animals and humans. Therefore, the physical, chemical, and microbial characteristics of PM2.5 in poultry farms cannot be overlooked, emphasizing the critical need to improve the air quality within these facilities.PMID:40266321 | DOI:10.1007/s00216-025-05871-7

J Agric Food Chem. 2025 Apr 23. doi: 10.1021/acs.jafc.4c09971. Online ahead of print.ABSTRACTThe role of human milk exosomes (HMEs) in maintaining infant intestinal health has attracted considerable attention, yet the mechanisms by which they regulate the infant gut microbiota remain to be elucidated. In this study, we constructed an in vitro fermentation model, combined with macrogenomics and nontargeted metabolomics technologies, to deeply analyze the effects of HMEs on the composition of intestinal microorganisms, the expression of functional genes, and the production of metabolites. It showed that HMEs significantly reduced the potential pathogenic bacteria like Escherichia coli, Klebsiella pneumoniae, Dysgonomonas capnocytophagoides, and Shigella flexneri, but increased Bacteroides fragilis and Bifidobacterium pseudocatenulatum. Moreover, HMEs promote key metabolic pathways including propionate and butyrate metabolism, glycolysis/glycogenesis, and amino acid metabolism. Consequently, beneficial intestinal metabolites such as short-chain fatty acids (SCFAs), amino acids, indoles, and secondary bile acids were elevated. It is speculated that HMEs may act as key signaling molecules or regulators to improve infant gut microecology.PMID:40266004 | DOI:10.1021/acs.jafc.4c09971

Plants (Basel). 2025 Mar 19;14(6):965. doi: 10.3390/plants14060965.ABSTRACTIn metabolically engineered plants, the target products are usually uniformly distributed in the whole plant or specific tissues. When engineering tobacco to produce astaxanthin, a ketocarotenoid with strong antioxidant activity and multiple bioactivities, a scattered distribution of astaxanthin-producing regions was observed in a small portion of astaxanthin-producing tobacco plants, which caused mosaic-like red and green spots on the leaves (ASTA-mosaic). A physiological assay showed that the non-astaxanthin green region (Mosaic_G) had relatively higher chlorophyll content and better chloroplast structure than the astaxanthin-producing red region (Mosaic_R). Then, metabolomics, proteomics, and small RNA transcriptomics were employed to analyze the uneven distribution of astaxanthin-producing regions in tobacco leaves. The results of metabolomics and proteomics revealed a decrease in carotenoid metabolism, chlorophyll biosynthesis, and chlorophyll degradation in the Mosaic_G region. Pheophorbide a, an intermediate of chlorophyll degradation, was found to be significantly reduced in the Mosaic_G region, which was accompanied by the attenuation of chlorophyllase and pheophytinase, which catalyze the formation of pheophorbide a in chlorophyll degradation. Reductions in photosynthetic antenna proteins and photosystem-associated proteins were observed in the Mosaic_R region, consistent with the better chloroplast structure of the Mosaic_G region. Small RNA transcriptomics showed that several small RNAs could target chlorophyll-degradative genes, but they were more effective in targeting the astaxanthin biosynthetic genes. This finding was supported by the fact that the Mosaic_G region can remain green up to the senescence of tobacco leaves. This work provides insights into the mechanism of the uneven distribution of astaxanthin-producing regions in tobacco leaves and may contribute to the specialized utilization of tobacco plants for metabolic engineering.PMID:40265925 | DOI:10.3390/plants14060965

Plants (Basel). 2025 Mar 17;14(6):941. doi: 10.3390/plants14060941.ABSTRACTThe normal development of maize (Zea mays) seedling is a prerequisite for achieving high crop yields. Although numerous molecular pathways regulate seedling development, the role of RNA polymerases (RNAPs) in this process remains largely unclear, and the function of common RNAP subunits in plants are not well understood. Here, we characterized the loss-of-function mutant of common subunit ZmRPABC5b, defective kernel 701 (dek701), which displays delayed seedling development. To elucidate the role of ZmRPABC5b in maize seedling growth, we conducted transcriptomic and metabolomic analyses. This study found that the loss of ZmRPABC5b function severely impaired early seedling growth, leading to significant reductions in stem length, root length, as well as fresh and dry weight. Transcriptome analysis identified 3780 upregulated and 4385 downregulated differentially expressed genes (DEGs) in dek701 seedlings compared to wild type. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses of DEGs revealed that significant enrichment in pathways related to RNA biosynthesis, carbohydrate metabolic, hormone stimulus, cellular transporter and ribosome activity. Metabolome analysis identified 501 differentially expressed metabolites (DEMs) in dek701 seedlings, which were significantly enriched in the amino acid metabolism, secondary metabolites, carbohydrate metabolism, lipid metabolism, transport and translation. These findings provide substantial insight into the ZmRPABC5b regulatory network, positioning it as a central hub for regulating seedling development in maize.PMID:40265882 | DOI:10.3390/plants14060941

Plants (Basel). 2025 Mar 14;14(6):916. doi: 10.3390/plants14060916.ABSTRACTOrchids produce tiny, light seeds (dust-like seeds without endosperm) that rely on specific symbiotic fungi for successful germination. Plant roots often release small signaling molecules or bioactive compounds to attract arbuscular mycorrhizal (AM) fungi, promoting fungal growth and hyphal branching. However, until now, no such bioactive or signaling molecules have been identified in orchids that help recruit fungi for seed germination. In this study, we used metabolomics and UPLC-Q-TOF-MS/MS, combined with a molecular network approach, to explore potential bioactive/signaling molecules in the seeds of the achlorophyllous orchid Gastrodia elata Bl. Our analysis revealed the presence of amino acids, nucleotides, lipids, organic acids, saccharides, phospholipids, and lignanamides. Specifically, organic acids, saccharides, and lignanamides were shown to promote the growth of Mycena osmundicola, a fungus important for seed germination. Additionally, lignanamides inhibited the plant pathogen Fusarium oxysporum and exhibited strong antioxidant and anti-inflammatory activities. This is the first systematic identification of bioactive/signaling molecules in G. elata Bl. seeds, providing new insights into the symbiotic relationship between orchids and fungi.PMID:40265877 | DOI:10.3390/plants14060916

Plants (Basel). 2025 Mar 17;14(6):944. doi: 10.3390/plants14060944.ABSTRACTFlower color is one of the most ornamental values of Meconopsis wilsonii, but very limited studies have been reported on its flower color formation. The UDP-glycosyltransferase (UGT) gene family plays a crucial role in plant flower color formation. In this study, the full-length transcriptome data of M. wilsonii was used to identify MwUGTs, focusing on protein physicochemical properties' subcellular localization, and phylogenetic relationships. In addition, sequence analysis, expression pattern analysis, subcellular localization, and functional validation of MwUGT2 were also performed. A total of 26 MwUGTs were identified in full-length transcriptome and clustered into eight subgroups. Phylogenetic analysis and KEGG database annotation showed that MwUGT2 is associated with anthocyanin synthesis and accumulation. Subsequently, based on the expression of MwUGT2 during flower development and in different tissues, it was preliminarily determined that MwUGT2 plays a role in the flower bud stage. Subcellular localization assays suggested that MwUGT2 is present in the nucleus and cytoplasm. Overexpression in Nicotiana tabacum showed that MwUGT2 significantly increased the content of Cyanidin-3-O-glucoside and resulted in dark pink flowers in transgenic plants. In summary, our findings suggest that MwUGT2 plays a crucial role in the biosynthesis of anthocyanin and will also contribute to understanding the mechanisms of flower color formation in M. wilsonii.PMID:40265876 | DOI:10.3390/plants14060944

Plants (Basel). 2025 Mar 14;14(6):913. doi: 10.3390/plants14060913.ABSTRACTThis study aimed to optimize supercritical CO2 extraction conditions, analyze bioactive compounds, and visualize their distribution in corn grains (Zea mays L., hybrid Pri-15-7-16). The optimal extraction conditions were identified as a pressure of 200 bar and a temperature of 55 °C, yielding 2.2 mg/g of bioactive compounds. The distribution of autofluorescent compounds within corn grain tissues was visualized using confocal laser scanning microscopy. Image analysis showed that the pericarp and aleurone layer cell walls were rich in autofluorescent compounds, while the endosperm cell walls exhibited low autofluorescence. Metabolomic analysis, combining high-performance liquid chromatography and mass spectrometry, identified 44 compounds in the extracts, including 30 polyphenolic compounds from subgroups such as polyphenolic acids, flavones, flavan-3-ols, flavonols, and anthocyanidins as well as 14 compounds from other chemical groups, including amino acids and fatty acids.PMID:40265870 | DOI:10.3390/plants14060913

Plants (Basel). 2025 Mar 18;14(6):954. doi: 10.3390/plants14060954.ABSTRACTThis publication reports the controlled cultivation of Zanthoxylum chiloperone var. angustifolium Engl. (Rutaceae) in several growth substrates under controlled greenhouse conditions. This plant is well-known for its anti-Chagas (trypanocidal) activity, related to the presence of several β-carboline alkaloids. The metabolomic study of Z. chiloperone seedlings over two years of growth (2018-2020) was performed using comprehensive two-dimensional gas chromatography time-of-flight mass spectrometry (GC × GC-TOFMS). The canthin-6-one alkaloids, canthin-6-one and 5-methoxy-canthin-6-one, were putatively identified in Z. chiloperone extracts. Finally, in vitro and in silico studies of trypanocidal activity were performed, suggesting that canthin-6-one alkaloids could interact with the main pharmacological targets against Trypanosoma cruzi, cruzain protease, dihydroorotate dehydrogenase, lanosterol 14-alpha-demethylase, farnesyl diphosphate, and squalene synthases.PMID:40265836 | DOI:10.3390/plants14060954

Plants (Basel). 2025 Mar 13;14(6):903. doi: 10.3390/plants14060903.ABSTRACTThis study examines the impact of environmental conditions on the growth, yield, and biochemical composition of common buckwheat (Fagopyrum esculentum Moench.) across two locations in Central Europe over three consecutive growing seasons (2019-2021). Significant variations in meteorological conditions, including temperature fluctuations and rainfall, were observed between two locations: Austria (AT) and the Czech Republic (CZ). The study highlights the role of these environmental factors in influencing morphological traits such as plant height, leaf dimensions, and 1000-seed weight (TSW), as well as nutritional and bioactive compound content. Buckwheat plants in Austria generally exhibited higher mean values for plant height and TSW compared to the Czech Republic, with significant variability observed across varieties and years. In terms of nutritional quality, crude protein content ranged between 12.56 and 14.71% dw, with the highest protein levels linked to cooler, low-rainfall conditions. The study also investigated phenolic compounds, particularly rutin, which showed a significant increase in content in 2021, likely due to extreme weather conditions. Varieties such as Sweden-1, Tempest, and Zamira exhibited stable, high rutin levels across all years. Overall, this research highlights the complexity of environmental influences on the agronomic and nutritional traits of buckwheat and provides valuable insights for future breeding programs aimed at improving yield and nutritional value under changing climatic conditions.PMID:40265834 | DOI:10.3390/plants14060903

Plants (Basel). 2025 Mar 13;14(6):902. doi: 10.3390/plants14060902.ABSTRACTSoil salinization threatens global agriculture, reducing crop productivity and food security. Developing strategies to improve salt tolerance is crucial for sustainable agriculture. This study examines the role of organic fertilizer in mitigating salt stress in rice (Oryza sativa L.) by integrating NDVI and metabolomics. Using salt-sensitive (19X) and salt-tolerant (HHZ) cultivars, we aimed to (1) evaluate changes in NDVI and metabolite content under salt stress, (2) assess the regulatory effects of organic fertilizer, and (3) identify key metabolites involved in stress response and fertilizer-induced regulation. Under salt stress, survival rate of the 19X plants dropped to 6%, while HHZ maintained 38%, with organic fertilizer increasing survival rate to 25% in 19X and 66% in HHZ. NDVI values declined sharply in 19X (from 0.56 to <0.25) but remained stable in HHZ (~0.56), showing a strong correlation with survival rate (R2 = 0.87, p < 0.01). NDVI provided a dynamic, non-destructive assessment of rice health, offering a faster and more precise evaluation of salt tolerance than survival rate analysis. Metabolomic analysis identified 12 key salt-tolerant metabolites, including citric acid, which is well recognized for regulating salt tolerance. HTPA, pipecolic acid, maleamic acid, and myristoleic acid have previously been reported but require further study. Additionally, seven novel salt-tolerant metabolites-tridecylic acid, propentofylline, octadeca penten-3-one, 14,16-dihydroxy-benzoxacyclotetradecine-dione, cyclopentadecanolide, HpODE, and (±)8,9-DiHETE-were discovered, warranting further investigation. Organic fertilizer alleviated salt stress through distinct metabolic mechanisms in each cultivar. In 19X, it enhanced antioxidant defenses and energy metabolism, mitigating oxidative damage and improving fatty acid metabolism. In contrast, HHZ primarily benefitted from improved membrane stability and ion homeostasis, reducing lipid peroxidation and oxidative stress. These findings primarily support the identification and screening of salt-tolerant rice cultivars while also highlighting the need for cultivar-specific fertilization strategies to optimize stress resilience and crop performance. Based on the correlation analysis, 26 out of 53 differential metabolites were significantly correlated with NDVI, confirming a strong association between NDVI shifts and key metabolic changes in response to salt stress and organic fertilizer application. By integrating NDVI and metabolomics, this study provides a refined method for evaluating salt stress responses, capturing early NDVI changes and key salinity stress biomarkers. This approach may prove valuable for application in salt-tolerant variety screening, precision agriculture, and sustainable farming, contributing to scientific strategies for future crop improvement and agricultural resilience.PMID:40265824 | DOI:10.3390/plants14060902

Plants (Basel). 2025 Mar 10;14(6):865. doi: 10.3390/plants14060865.ABSTRACTPlants face an array of environmental stresses, including both abiotic and biotic stresses. These stresses significantly impact plant lifespan and reduce agricultural crop productivity. Abiotic stresses, such as ultraviolet (UV) radiation, high and low temperatures, salinity, drought, floods, heavy metal toxicity, etc., contribute to widespread crop losses globally. On the other hand, biotic stresses, such as those caused by insects, fungi, and weeds, further exacerbate these challenges. These stressors can hinder plant systems at various levels, including molecular, cellular, and development processes. To overcome these challenges, multi-omics computational approaches offer a significant tool for characterizing the plant's biomolecular pool, which is crucial for maintaining homeostasis and signaling response to environmental changes. Integrating multiple layers of omics data, such as proteomics, metabolomics, ionomics, interactomics, and phenomics, simplifies the study of plant resistance mechanisms. This comprehensive approach enables the development of regulatory networks and pathway maps, identifying potential targets for improving resistance through genetic engineering or breeding strategies. This review highlights the valuable insights from integrating multi-omics approaches to unravel plant stress responses to both biotic and abiotic factors. By decoding gene regulation and transcriptional networks, these techniques reveal critical mechanisms underlying stress tolerance. Furthermore, the role of secondary metabolites in bio-based products in enhancing plant stress mitigation is discussed. Genome editing tools offer promising strategies for improving plant resilience, as evidenced by successful case studies combating various stressors. On the whole, this review extensively discusses an advanced multi-omics approach that aids in understanding the molecular basis of resistance and developing novel strategies to improve crops' or organisms' resilience to abiotic and biotic stresses.PMID:40265800 | DOI:10.3390/plants14060865

Plants (Basel). 2025 Mar 8;14(6):849. doi: 10.3390/plants14060849.ABSTRACTFloret color is a crucial phenotypic trait in broccoli, serving as an indicator of maturity and determining its market value. However, the mechanisms underlying color variation remain unclear. In this study, six broccoli varieties with different floret colors at harvest were chosen as materials. The color difference and pigment content of florets were measured, and a combined analysis of anthocyanin-targeted metabolome and transcriptome was conducted. Our findings revealed that chlorophyll a primarily influences green, yellow-green, and light green coloration, while the wax content may contribute to gray-green coloration. The blue-green and dark blue-green coloration are regulated by both chlorophyll a and anthocyanins. Targeted metabolomics identified five anthocyanin compounds, with peonidin-3-O-glucoside as a key metabolite for blue-green coloration and delphinidin-3-O-glucoside-5-O-galactoside and peonidin-3,5-O-diglucoside for dark blue-green coloration. Transcriptomic analysis identified CHLG as a potential key regulator for yellow-green and light-green floret coloration. The blue-green coloration appears to be coregulated by a combination of genes, including the chlorophyll biosynthesis gene HEMF; anthocyanin biosynthesis genes (PAL, FLS, and UGT); and chlorophyll degradation genes (SGR, PPD, and NYC). Furthermore, upstream genes involved in both chlorophyll metabolism (CHLI, CHLD, CHLM, DVR, and CLH) and anthocyanin biosynthesis (PAL, 4CL, CHS, F3'H, and FLS) play crucial roles in determining the dark blue-green coloration of florets. Meanwhile, transcription factors of the WRKY, NAC, and TCP families are involved in chlorophyll metabolism, while those of the bHLH and MYB families participate in anthocyanin synthesis. The WGCNA identified one Hub gene for chlorophyll metabolism and two for anthocyanin synthesis. In conclusion, 35 candidate genes were identified, including 21 involved in chlorophyll metabolism and 14 in anthocyanin biosynthesis. This study provides novel insights into the molecular mechanisms of floret coloration and establishes a foundation for molecular breeding in broccoli.PMID:40265788 | DOI:10.3390/plants14060849

Int J Immunopathol Pharmacol. 2025 Jan-Dec;39:3946320251333982. doi: 10.1177/03946320251333982. Epub 2025 Apr 23.ABSTRACTOBJECTIVE: Acute respiratory distress syndrome (ARDS) is a severe pulmonary condition characterized by inflammation and lung damage, frequently resulting in poor clinical outcomes. Recent studies suggest that the gut-lung axis, mediated by gut microbiota, is critical in ARDS progression. This study investigates the therapeutic potential of fecal microbiota transplantation (FMT) in an ARDS rat model (n = 6).INTRODUCTION: The pathogenesis of ARDS involves complex interactions between the lungs and gut, with microbiota playing a key role. Understanding the effects of FMT on lung function and gut microbiota may provide new therapeutic strategies for ARDS management.METHODS: Sprague-Dawley rats were pre-treated with a broad-spectrum antibiotic cocktail to create a germ-free state and subsequently exposed to intranasal lipopolysaccharide to induce ARDS. The rats then received FMT treatment. Lung samples were analyzed using histopathology and transcriptomics. Fecal samples were analyzed using 16S rRNA sequencing and metabolomics.RESULTS: FMT treatment significantly reduced lung injury and improved pulmonary function, as evidenced by increased partial pressure of arterial oxygen (PaO2) and decreased partial pressure of arterial carbon dioxide (PaCO2). FMT also significantly altered in gut microbiota composition by regulating the gut microbiota composition of Akkermansia and Lactobacillus, restoring the abundance of genera such as Muribaculaceae, Clostridia_UCG-014, Prevotella, and Adlercreutzia, while reducing Romboutsia. FMT restored key metabolic pathways involved in lipid metabolism, amino acid biosynthesis, and immune regulation, including the modulation of immune pathways like mTOR signaling. These alterations contribute to reduced lung injury and improved pulmonary function.CONCLUSION: These findings indicate that FMT may exert its beneficial effects in ARDS by modulating the gut microbiota and enhancing metabolic and immune responses. However, given that this study remains in the preclinical stage, further validation in clinical studies is necessary before considering clinical application.PMID:40265594 | DOI:10.1177/03946320251333982