Lipid species were identified by comparing retention times and MRM transitions with authentic chemical standards (Avanti Polar Lipids). Three targeted lipid classes were analyzed: triacylglycerols (TAG), diacylglycerols (DAG), and ergosterol esters. Quantification was performed based on peak area integration using OS v3.4 software (AB SCIEX), with Lipidomix internal standards used for normalization.
"],"repository":["MetaboLights"],"study_status":["Public"],"ptm_modification":[""],"instrument_platform":["Liquid Chromatography MS - positive - reverse-phase"],"chromatography_protocol":["Chromatographic separation was performed on an ACQUITY UPLC BEH C18 Column (1.7 μm, 2.1 × 50 mm; Waters) with an ACQUITY UPLC BEH C18 Vanguard Guard Column (1.7 μm; Waters). The column temperature was maintained at 45°C. The mobile phases consisted of Buffer A (methanol:acetonitrile:water, 1:1:1, v/v/v, with 5 mM ammonium acetate) and Buffer B (isopropanol:acetonitrile, 9:1, v/v, with 5 mM ammonium acetate). The flow rate was 0.15 mL/min with a gradient program: 0–1 min at 20% B, 1–3 min from 20% to 60% B, 3–13 min from 60% to 98% B, 13.0–13.1 min from 98% to 20% B, and 13.1–16 min equilibration at 20% B. The injection volume was 5 μL.
"],"publication":["Retromer mediates Ypt7-dependent lipid droplet internalization."],"submitter_name":["Zixin Xu"],"submitter_affiliation":["The Hong Kong University of Science and Technology"],"organism_part":["Whole Organism"],"technology_type":["mass spectrometry assay"],"disease":[""],"extraction_protocol":["Lipids were extracted using chloroform:methanol (2:1, v/v). Yeast cell pellets were resuspended in 0.5 mL MS-grade methanol and lysed via bead-beating. Lysates were transferred to glass tubes, and chloroform with citric acid was added for phase separation. The organic phase was collected and dried under vacuum. Dried extracts were stored at -80°C. Quality control samples and solvent blanks were prepared alongside experimental samples to monitor system performance and background contamination.
"],"organism":["Saccharomyces cerevisiae"],"full_dataset_link":["https://www.ebi.ac.uk/metabolights/MTBLS15038"],"author":["Jieqiong Gao. Hong Kong University of Science and Technology. The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong. jqgao@ust.hk."],"data_transformation_protocol":["Raw LC-MS/MS data were processed using OS v3.4 software (AB SCIEX). Peak integration was performed for each MRM transition, and lipid species were identified by comparing retention times with authentic standards (Avanti Polar Lipids). Peak areas were normalized to internal standards (Lipidomix, Avanti Polar Lipids) for quantification. The processed data matrix containing lipid identities and normalized peak areas was exported for subsequent statistical analysis.
"],"study_factor":["Growth phase","Genotype"],"submitter_email":["zxuee@connect.ust.hk"],"sample_collection_protocol":["Yeast cells were harvested at logarithmic and stationary growth phases. Two OD600 units of cells were collected by centrifugation and immediately processed for lipid extraction or stored at -80°C until further use.
"],"omics_type":["Metabolomics"],"study_design":["Ergosterol ester","targeted analysis","multiple reaction monitoring","TRIACYLGLYCEROLS","QTRAP 6500+","Lipidomics","Whole Organism","experimental sample","targeted metabolomic assay","AB SCIEX QTRAP 6500+","liquid chromatography-tandem mass spectrometry","ACQUITY UPLC","Saccharomyces cerevisiae","DIACYLGLYCEROLS"],"curator_keywords":["Ergosterol ester","targeted analysis","multiple reaction monitoring","TRIACYLGLYCEROLS","QTRAP 6500+","Lipidomics","Whole Organism","experimental sample","targeted metabolomic assay","AB SCIEX QTRAP 6500+","liquid chromatography-tandem mass spectrometry","ACQUITY UPLC","Saccharomyces cerevisiae","DIACYLGLYCEROLS"],"mass_spectrometry_protocol":["Mass spectrometric analysis was performed using a QTRAP 6500+ triple quadrupole mass spectrometer (AB SCIEX) coupled to the UPLC system. Data acquisition was conducted in positive ionization mode using multiple reaction monitoring (MRM) with H-ESI ion source. Ion source parameters were set as follows: ion spray voltage at 5500 V, ion source gas 1 at 40, ion source gas 2 at 40, and vaporizer temperature at 400°C. MRM transitions were specifically optimized for diacylglycerols (DAG), triacylglycerols (TAG), and ergosterol esters. Data processing and quantification were performed using OS v3.4 software (AB SCIEX).
"],"additional_accession":[]},"is_claimable":false,"name":"Retromer mediates Ypt7-dependent lipid droplet internalization","description":"Lipid droplets (LDs) are dynamic organelles central to cellular energy homeostasis and stress adaptation. Maintaining LD balance is critical for cell function, yet the mechanisms governing selective LD degradation remain unclear. Here, we reveal a pathway promoting efficient vacuolar sequestering and potential degradation of a Pdr16-marked LD subpopulation, thereby linking LD metabolism to organelle communication. During nutrient limitation, the Rab GTPase Ypt7 and its guanine nucleotide exchange factor (GEF) Mon1-Ccz1 specifically localize to Pdr16-LDs. This targeting relies on a conserved amphipathic helix within Ccz1. Importantly, Ypt7 activation recruits the SNX-BAR retromer complex to the vacuole-LD interface at sites of invagination. There, retromer potentially interacts with its cargo receptor Vps10 to promote positive membrane curvature that drives the late stage of vacuolar invagination required for LD internalization and degradation. These findings suggest a link between LD turnover, organelle interactions, and cellular adaptation to metabolic stress, providing new insight into lipid homeostasis.
","dates":{"publication":"2026-07-15","submission":"2026-07-14"},"accession":"MTBLS15038","cross_references":{}}