Secondary metabolites from SUK B28, SUK B32, and SUK 48 extracts collected at different fermentation periods were screened manually using LC-MS datasets. Putative metabolite identification was performed by matching molecular ion masses against the METLIN and Dictionary of Natural Products (DNP) databases within a defined m/z tolerance range.
"],"repository":["MetaboLights"],"study_status":["Public"],"ptm_modification":[""],"instrument_platform":["Liquid Chromatography MS - negative - reverse-phase","Liquid Chromatography MS - positive - reverse-phase"],"chromatography_protocol":["Crude ethyl acetate extracts of Streptomyces strains SUK B28 (days 10, 14, and 16), SUK B32 (days 10, 14, 16, and 17), and SUK 48 (days 10, 14, and 16) were prepared at a concentration of approximately 3 mg/mL and subjected to LC–MS analysis. Chromatographic separation was performed using a Thermo Scientific UltiMate™ 3000 UHPLC system equipped with an Acclaim™ Polar Advantage II C18 column (3.0 × 150 mm, 3 μm particle size; Dionex, Sunnyvale, CA, USA). The mobile phase consisted of water containing 0.1% formic acid (solvent A) and acetonitrile (solvent B). Separation was carried out at a flow rate of 0.4 mL/min with the column temperature maintained at 40 °C. The gradient program was initiated at 5% B and held for 3 min, followed by a linear increase to 80% B over 7 min. The composition was maintained at 80% B for 5 min before returning to the initial condition of 5% B from 15 to 22 min.
"],"publication":["Bioactivities of Streptomyces spp. Against selected Oral Pathogens and In silico Streptenol B interaction on pgaB of Aggregatibacter actinomycetemcomitans."],"submitter_name":["MUHAMMAD FAZDLAN MD DIN"],"submitter_affiliation":["School of Biomedical Sciences, Faculty of Health Sciences, Universiti Sultan Zainal Abidin"],"organism_part":["Not applicable","Not Applicable","Whole Organism"],"technology_type":["mass spectrometry assay"],"disease":[""],"extraction_protocol":["Approximately 5–6 cm³ of matured Streptomyces spp. isolates from ISP 2 agar were inoculated into a 1 L Erlenmeyer flask containing 400 mL of nutrient broth. The flask then was incubated at 28 °C with shaking at 160 rpm. After 14 days of fermentation, the broth was filtered through Whatman No. 1 filter paper to remove cellular debris, yielding a clear supernatant. The supernatant was extracted using ethyl acetate in a 1:1 (v/v) ratio, performed in triplicate, with a separatory funnel. The resulting organic phases were combined and dried under reduced pressure using a rotary evaporator set at approximately 40 °C until complete solvent removal.
"],"organism":["Not applicable","Streptomyces sp.","Not Applicable"],"full_dataset_link":["https://www.ebi.ac.uk/metabolights/MTBLS14826"],"author":["MUHAMMAD FAZDLAN MD DIN. Programme Biomedicine, Faculty of Health Sciences, Universiti Sultan Zainal Abidin, Gong Badak, 21300, Kuala Nerus, Terengganu, Malaysia. muhammadfazdlan1998@gmail.com.","SITI JUNAIDAH AHMAD. Programme Biomedicine, Faculty of Health Sciences, Universiti Sultan Zainal Abidin, Gong Badak, 21300, Kuala Nerus, Terengganu, Malaysia. junaidahahmad@unisza.edu.my."],"data_transformation_protocol":["The data was imported into the Profile Analysis 2.0 data bucketing software using raw material in 'd format'. Minimum compound length was 8, signal-to-noise ratio was 0.7, correlation was 1, and smoothing was 2. The composite bucket table was determined by utilizing advanced bucketing features as parameters for time alignment. Time ranged from 0.00 min to 22.04 min, and mass ranged from 49 m/z to 1,001 m/z. The information was transferred to MetaboAnalyst 3.0 for data preprocessing. Data were normalized using an internal standard (caffeine; m/z 195.088, RT 7.98 min), followed by log transformation and Pareto scaling prior to statistical analysis.
"],"study_factor":["Incubation"],"submitter_email":["muhammadfazdlan1998@gmail.com"],"sample_collection_protocol":["Endophatic Streptomyces spp. SUK B28, SUK B32 and SUK 48 were used in this study. Blocks (1 cm³) of Streptomyces spp. cultures were inoculated into 600 mL of nutrient broth and incubated on an orbital shaker (Protech, USA) at 160 rpm for 21 days. Each day, 50 mL of culture broth was collected, filtered, washed twice with distilled water and centrifuged at 5,000 rpm for 7 minutes. The resulting pellets were dried at 70 °C for two days to determine the dry cell weight of Streptomyces sp. A growth curve was generated by plotting dry weight (mg) against incubation time (days).
"],"omics_type":["Metabolomics"],"study_design":["Metabolomics","Not applicable","untargeted analysis","solvent blank","Streptomyces sp.","mzmine","Whole Organism","experimental sample","untargeted metabolite profiling","Bruker micrOTOF-Q III","periodontal disorder","Thermo Scientific Dionex Ultimate 3000 UHPLC system","experimental blank"],"curator_keywords":["Metabolomics","Not applicable","untargeted analysis","solvent blank","Streptomyces sp.","mzmine","Whole Organism","experimental sample","untargeted metabolite profiling","Bruker micrOTOF-Q III","periodontal disorder","Thermo Scientific Dionex Ultimate 3000 UHPLC system","experimental blank"],"mass_spectrometry_protocol":["Mass spectrometric detection was carried out using a MicrOTOF-Q III system (Bruker Daltonics, Billerica, MA, USA) equipped with an electrospray ionization (ESI) source operating in positive ion mode. Parameters included a capillary voltage of 4,500 V, nebulizer pressure of 1.2 bar, dry gas flow of 8 L/min at 200 °C, and a mass scan range of m/z 50–1,000.
"],"metabolite_name":["Salinosporamide D","Amycolasporin E","Streptazone D","Pheofungin C","Arabomycin","Pentalenolactone I (Pentalenolactone C, AA-57)","Triacsin B","Harzianopyridone","Kinamycinketo-anhydro","Chloromonilicin","6-hydroxyphenazine-1-carboxamide","N-Acetyltryptamine","Pentalenolactone","Mitomycin A","Mannostatin A","Asparenomycin A","Aspereusin A","Mansouramycin A","Caerulomycin F","Rhizopycnin B","Carbapenem MM22383","Bequinostatin B","Cadeguomycin","Bagremycin D","Streptomyceamide C","Spizofurone","Indole-3-lactic acid","Lasiodipline C","Bagremycin G","Streptenol B","Tubercidin","Erythromycin estorate","Streptozocin","Nojirimycin","Erbstatin","Xenorhabdin 9","Seitomycin","Palladium (II) chloride","MR566A","14,20-Dideoxy-thaxtomin A","Plumbagin","Ulupyrinone","Gliotoxin","Sarubicin A","Griseusin F","Angumycinone A","Nocarsin A","Cycloheximide","Streptopyrrolidine","Ammosamide D","Alaremycin","Albonoursin"],"additional_accession":[]},"is_claimable":false,"name":"Bioactivities of Streptomyces spp. Against selected Oral Pathogens and In silico Streptenol B interaction on pgaB of Aggregatibacter actinomycetemcomitans","description":"Periodontal disease is an inflammatory condition affecting the tissues supporting the teeth. Biofilm formation by oral pathogens such as Aggregatibacter actinomycetemcomitans (AA) and Pseudomonas aeruginosa (PA) contribute to persistent infections and antibiotic resistance. This study evaluated the antibacterial, antibiofilm, and metabolomic profiles of Streptomyces strains SUKB 28, SUKB 32, and SUK 48 against AA and PA. Besides, this study evaluates in silico optimization of streptenol derivatives of SUKB 28 to virulence receptor of AA, pgaB.","dates":{"publication":"2026-06-23","submission":"2026-06-22"},"accession":"MTBLS14826","cross_references":{"MetaboLights":["MTBLC205536","MTBLC48267","MTBLC198178","MTBLC223553","MTBLC58998","MTBLC217365","MTBLC70790","MTBLC227904","MTBLC213313","MTBLC207437","MTBLC216788","MTBLC225444","MTBLC85412","MTBLC221424","MTBLC71609","MTBLC203237","MTBLC55515","MTBLC224718","MTBLC27641","MTBLC5385","MTBLC81062","MTBLC220324","MTBLC221213","MTBLC84089","MTBLC204775","MTBLC191195","MTBLC215265","MTBLC177359","MTBLC225342","MTBLC199736","MTBLC134864","MTBLC215346","MTBLC8273","MTBLC209839","MTBLC70291","MTBLC5628","MTBLC223330","MTBLC4846","MTBLC210272","MTBLC212599","MTBLC69225","MTBLC221715","MTBLC28945","MTBLC9288","MTBLC214179","MTBLC53434","MTBLC222418","MTBLC204321","MTBLC213568","MTBLC24813","MTBLC200668","MTBLC222395"],"ChEBI":["CHEBI:205536","CHEBI:48267","CHEBI:198178","CHEBI:223553","CHEBI:58998","CHEBI:217365","CHEBI:70790","CHEBI:227904","CHEBI:213313","CHEBI:207437","CHEBI:216788","CHEBI:225444","CHEBI:85412","CHEBI:221424","CHEBI:71609","CHEBI:203237","CHEBI:55515","CHEBI:224718","CHEBI:27641","CHEBI:5385","CHEBI:81062","CHEBI:220324","CHEBI:221213","CHEBI:84089","CHEBI:204775","CHEBI:191195","CHEBI:215265","CHEBI:177359","CHEBI:225342","CHEBI:199736","CHEBI:134864","CHEBI:215346","CHEBI:8273","CHEBI:209839","CHEBI:70291","CHEBI:5628","CHEBI:223330","CHEBI:4846","CHEBI:210272","CHEBI:212599","CHEBI:69225","CHEBI:221715","CHEBI:28945","CHEBI:9288","CHEBI:214179","CHEBI:53434","CHEBI:222418","CHEBI:204321","CHEBI:213568","CHEBI:24813","CHEBI:200668","CHEBI:222395"]}}