MetaboLights

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ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/m_MTBLS15077_LC-MS_negative_reverse-phase_v2_maf.tsvftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/m_MTBLS15077_LC-MS_positive_reverse-phase_v2_maf.tsvftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/a_MTBLS15077_LC-MS_positive_reverse-phase.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/s_MTBLS15077.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/i_Investigation.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/a_MTBLS15077_LC-MS_negative_reverse-phase.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CP2_FZTM24H000647-3A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CN1_FZTM24H000646-2A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_2222653_CN_QC1.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_2222653_CN_QC3.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CN2_FZTM24H000647-2A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CP2_FZTM24H000647-2A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CN1_FZTM24H000646-1A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_2222653_CP_QC2.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CP1_FZTM24H000646-1A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CN1_FZTM24H000646-3A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CN2_FZTM24H000647-1A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_2222653_CN_QC2.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CP2_FZTM24H000647-1A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_2222653_CP_QC1.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CP1_FZTM24H000646-3A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CP1_FZTM24H000646-2A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_CN2_FZTM24H000647-3A.rawftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077/FILES/RAW_FILES/HFX7_2222653_CP_QC3.rawprimaryOK200ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS15077Metabolites were annotated using the Kyoto Encyclopedia of Genes and Genomes (KEGG) database (https://www.genome.jp/kegg/pathway.html). Partial least squares discriminant analysis (PLS-DA) were performed at metaX (Wen et al. 2017). The PLS-DA models were validated by seven-fold cross-validation and 200 permutation tests to assess overfitting. Variable Importance in Projection (VIP) was calculated based on PLS-DA. Metabolites regarded as significant were defined as follows: t-test p < 0.05, VIP>1 and fold change>1.5 or<0.667 (treatment group/ control). For clustering heat maps, the data were normalized using z-scores of the intensity areas of differential metabolites and were plotted by Pheatmap package in R language. Functional pathway analysis was performed using KEGG.MetaboLightsPublicLiquid Chromatography MS - negative - reverse-phaseLiquid Chromatography MS - positive - reverse-phaseChromatography employed a Hypersil Gold C18 column (100 × 2.1 mm, 1.9 μm) with a 0.2 mL/min flow rate and a 12-min linear gradient: mobile phase A(0.1% formic acid in water) and mobile phase B (methanol)Multi-omics profiling identifies MAPK signaling suppression associated with tetracycline-induced root toxicity in soybean.Zhongling TianZhejiang Shuren UniversityRootmass spectrometry assayMetabolites were extracted from 100 mg root powder using prechilled 80% methanol, followed by vortexing, incubation on ice for 5 min, and centrifugation (15,000 × g, 20 min, 4°C). The supernatant was diluted to 53% methanol with LC-MS grade water, and re-centrifuged under identical conditions (15,000 × g, 20 min, 4℃) before UHPLC-MS/MS analysis.Glycine maxhttps://www.ebi.ac.uk/metabolights/MTBLS15077Zhongling Tian. Zhejiang Shuren University. zltian@zjsru.edu.cn. Raw data were processed using Compound Discoverer 3.3 (CD3.3, ThermoFisher) for peak alignment, peak picking, and quantitation. Key parameters included: mass tolerance of 5 ppm, signal intensity tolerance of 30%, and peak area normalization to the first quality control (QC) sample. Following normalization to total spectral intensity, molecular formulas were predicted based on ion patterns and matched against mzCloud, mzVault, and MassList databases for metabolite identification. Statistical analyses were conducted using R (version 3.4.3) and Python (version 2.7.6) on CentOS (release 6.6). Metabolites with high variability in QC samples were excluded based on the manufacturer's recommendations. Ultimately, this process yielded the identification and relative quantification of metabolites.TCzltian@zjsru.edu.cnSoybean roots exposed to 10 mg/L TC or control (0 mg/L TC) for 7 days were harvested, flash-frozen in liquid nitrogen, and stored at −80°C. Three biological replicates (0.2 g roots pooled per replicate) per treatment were processed for concurrent transcriptomic and metabolomic analyses. MetabolomicsRoot toxicityThermo Scientific Orbitrap Q Exactive HF mass spectrometerMetabolomicsMulti-omics studyRootOxidative Stressuntargeted analysisSoybeanGlycine maxMAPK signalingVanquishexperimental blanktetracyclineRoot toxicityThermo Scientific Orbitrap Q Exactive HF mass spectrometerMetabolomicsMulti-omics studyRootOxidative Stressuntargeted analysisSoybeanGlycine maxMAPK signalingVanquishexperimental blanktetracycline The mass spectrometer operated in positive/negative polarity switching mode with key parameters: spray voltage 3.5 kV, capillary temperature 320 ℃, sheath gas flow 35 psi, auxiliary gas flow 10 L/min, and auxiliary gas heater temperature 350 ℃.falseMulti-omics profiling identifies MAPK signaling suppression associated with tetracycline-induced root toxicity in soybeanTetracycline (TC), a widely used veterinary antibiotic, is a pervasive emerging contaminant threatening crop production. Here, we employed integrated physiological, metabolomic, and transcriptomic analyses to decipher the response of soybean (Glycine max L.) to TC. While seed germination was unaffected, TC severely inhibited post-germinative root growth in a concentration-dependent manner. Multi-omics profiling revealed coordinated disruptions in several stress-related processes, including severe depletion of antioxidant metabolites (e.g., canthaxanthin), suppression of key phytohormones (indole-3-acetic acid, salicylic acid, and brassinolide), and pronounced remodeling of membrane lipids. Transcriptomic analysis further identified strong down-regulation of genes associated with MAPK signaling, coinciding with changes in redox-related, hormonal, and lipid metabolic pathways. These findings suggest that inhibition of MAPK-associated signaling represents a central stress-related signature linked to TC-induced metabolic and physiological disturbances. Overall, this study highlights the sensitivity of soybean roots to TC and provides mechanistic insights into plant stress responses under antibiotic exposure.2026-09-072026-07-18MTBLS15077