MetaboLightsapplication/xmlftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14137/m_MTBLS14137_LC-MS_negative__metabolite_profiling_v2_maf.tsvftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14137/s_MTBLS14137.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14137/a_MTBLS14137_LC-MS_negative__metabolite_profiling.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14137/i_Investigation.txtprimaryOK200ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14137<p>Metabolite identification was performed based on comparisons with authentic reference standards rather than database-driven annotation. Seven commercially available flavonoid standards, including naringenin, dihydrokaempferol, dihydromorin, dihydroquercetin, kaempferol, morin, and quercetin, were used.</p><p>Target metabolites in samples were identified by matching retention times and mass spectral features (including precursor and, where applicable, fragment ions) with those of the corresponding standards analyzed under identical LC–MS conditions. No external spectral or metabolite databases were used for annotation.</p>MetaboLightsPublicLiquid Chromatography MS - negative<p>LC–MS analysis was performed using an ACQUITY UPLC system coupled to a SYNAPT XS mass spectrometer (Waters Corp., Milford, MA, USA). Chromatographic separation was achieved on an ACQUITY UPLC HSS T3 column (1.8 μm; Waters) maintained at 40 °C. The flow rate was 0.30 mL/min, and the injection volume was 1 μL.</p><p>The mobile phase consisted of solvent A (0.1% formic acid in water) and solvent B (acetonitrile). The gradient program was as follows: 10% B from 0-0.5 min, increased to 95% B at 13.0 min, held at 95% B until 16.5 min, returned to 10% B at 17.0 min, and equilibrated until 20.0 min.</p>Multi-omics analysis uncovers the molecular basis of ‘Golden-thread’ formation in Phoebe zhennan stems.Lingfei KongSouthwest universitynot applicablecalluswoodmass spectrometry assay<p>Prior to LC–MS analysis, all samples were subjected to methanol-based extraction. Wood tissues from Phoebe species and transgenic Populus callus were ground into fine powder under liquid nitrogen, followed by extraction with methanol. The mixtures were vortexed thoroughly and centrifuged to remove insoluble debris, and the resulting supernatants were collected for analysis.</p><p>For in vitro enzymatic assays, reaction mixtures containing flavonoid biosynthetic enzymes (F3H, F3′H-like, and FLS) were incubated under defined conditions and terminated by the addition of methanol. After centrifugation, the supernatants were directly used for LC–MS detection.</p><p>Authentic standards, including morin and relevant flavonoid intermediates, were analyzed to confirm retention times and fragmentation patterns.</p>not applicablePhoebe zhennanPhoebe bourneiPopulus trichocarpaCinnamomum camphora<p>Raw LC–MS data were acquired using MassLynx software (version 4.2, Waters Corp., Milford, MA, USA). No data transformation, normalization, or format conversion was applied prior to deposition. All files are provided in the original vendor-specific raw format to ensure full data transparency and allow independent reanalysis.</p>EnzymeGenotypeklf306037@126.comhttps://www.ebi.ac.uk/metabolights/MTBLS14137<p>Samples were derived from three sources: (i) wood tissues of Phoebe species, including Phoebe zhennan and related Lauraceae species; (ii) in vitro enzymatic reaction mixtures containing recombinant flavonoid biosynthetic enzymes from P. zhennan (F3H, F3′H-like, and FLS); and (iii) metabolite extracts from transgenic Populus callus expressing the P. zhennan F3′H-like gene.</p>Metabolomicsultra-performance liquid chromatography-mass spectrometryMulti-omics studyuntargeted metabolite profilingultra-performance liquid chromatography-mass spectrometryMulti-omics studyuntargeted metabolite profiling<p>Mass spectrometric analysis was performed using a SYNAPT XS quadrupole time-of-flight mass spectrometer (Waters Corp., Milford, MA, USA) equipped with an electrospray ionization (ESI) source. The instrument was operated in negative ionization mode. Full-scan TOF-MS data were acquired over an m/z range of 50-1000 with a scan time of 0.10 s.</p><p>The source parameters were set as follows: capillary voltage, 2.6 kV; sampling cone voltage, 40 V; source temperature, 130 °C; desolvation temperature, 450 °C; cone gas flow, 80 L/h; and desolvation gas flow, 800 L/h. Collision-induced dissociation (CID) was performed with a collision energy ramp of 15–60 eV depending on precursor ion mass.</p>naringeninmorinkaempferolquercetindihydrokaempferoldihydroquercetinfalseLC_MS Dataset for Morin Detection in Phoebe Wood Extracts, Enzyme Assays and Transgenic Populus<p>This dataset contains LC-MS data generated for the detection of morin in plant tissues and enzymatic reactions related to flavonoid biosynthesis. The samples include methanol extracts of wood tissues from Phoebe species (including Phoebe zhennan and related Lauraceae species), in vitro enzyme reaction products of Phoebe zhennan flavonoid biosynthetic enzymes (F3H, F3_H_like, and FLS), and metabolite extracts from transgenic Populus callus expressing the P. zhennan F3_H_like gene. Wood tissues and callus samples were extracted using methanol prior to LC_MS analysis.</p>2026-03-262026-03-25MTBLS14137MTBLC28499MTBLC17846MTBLC75092MTBLC16243MTBLC15401MTBLC17948CHEBI:28499CHEBI:17846CHEBI:75092CHEBI:16243CHEBI:15401CHEBI:17948