GPMDB00196OtherMurphy JP, et al.InstrumentNot AvailableNot availableYeaststeven_gygi@hms.harvard.edu26077900Harvard Medical School, MAhttp://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015928http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015906http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015905http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015927http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015908http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015907http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015929http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015909http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015920http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015922http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015900http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015921http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015924http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015902http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015901http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015923http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015904http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015903http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015925http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015917http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015916http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015919http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015918http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015898http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015931http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015930http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015933http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015911http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015910http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015899http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015932http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015935http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015913http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015912http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015934http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015915http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015937http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015936http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015914Not availableGPMDBYeast (Saccharomyces cerevisiae) has served as a key model system in biology and as a benchmark for "omics" technology. Although near-complete proteomes of log phase yeast have been measured, protein abundance in yeast is dynamic, particularly during the transition from log to stationary phase. Defining the dynamics of proteomic changes during this transition, termed the diauxic shift, is important to understand the basic biology of proliferative versus quiescent cells. Here, we perform temporal quantitative proteomics to fully capture protein induction and repression during the diauxic shift. Accurate and sensitive quantitation at a high temporal resolution and depth of proteome coverage was achieved using TMT10 reagents and LC-MS3 analysis on an Orbitrap Fusion tribrid mass spectrometer deploying synchronous precursor selection. Triplicate experiments were analyzed using the time-course R package and a simple template matching strategy was used to reveal groups of proteins with similar temporal patterns of protein induction and repression. Within these groups are functionally distinct types of proteins such as those of glyoxylate metabolism and many proteins of unknown function not previously associated with the diauxic shift (e.g. YNR034W-A and FMP16). We also perform a dual time-course experiment to determine Hap2-dependent proteins during the diauxic shift. These data serve as an important basic model for fermentative versus respiratory growth of yeast and other eukaryotes and are a benchmark for temporal quantitative proteomics.Comprehensive Temporal Protein Dynamics during the Diauxic Shift in Saccharomyces cerevisiae.Murphy J Patrick JP,Stepanova Ekaterina E,Everley Robert A RA,Paulo Joao A JA,Gygi Steven P SP,Murphy J Patrick JP, Stepanova Ekaterina E, Everley Robert A RA, Paulo Joao A JA, Gygi Steven P SPSaccharomyces oviformis, Yeasts, Saccharomyce cerevisiae, Yeast, Bakers, Brewer's, Baker Yeasts, baker's yeast, Saccharomyes cerevisiae, proteins, Baker, Brewer, Saccharomyces uvarum var. melibiosus, Saccharomyces italicus, Saccaromyces cerevisiae, temporal, Brewers Yeast, polypeptide, Baker's Yeasts, Sccharomyces cerevisiae, Brewer Yeast., Brewer's Yeasts, S cerevisiae, Candida robusta, Saccharomyces capensis, Brewers, yeast, Baker's, brewer's yeast, Baker's Yeast, Bakers Yeast, Brewer's Yeast, incidence, lager beer yeast, Baker Yeastdata, HIP5, mol, AP-1, Arts, c-jun, number, Brewer's, cell cycle quiescence, baker's yeast, Baker Yeasts, hHLP1, establishment of cell quiescence, body system, presence, Cell, Saccaromyces cerevisiae, Saccharomyces italicus, Brewers Yeast, temporal, Sccharomyces cerevisiae, Baker's Yeasts, polypeptide, G1/G0 transition, count in organism, count, yeast, Brewers, system, connected anatomical system, Bakers Yeast, HAP2, lager beer yeast, Brewer Yeast, Saccharomyces oviformis, Yeasts, Junc, Yeast, Saccharomyce cerevisiae, Industrial, anatomical systems, Industrial Arts, cell, HLP, Bakers, Saccharomyes cerevisiae, NF-YA, Baker, proteins, Brewer, Saccharomyces uvarum var. melibiosus, organ system, AP1, Brewer's Yeasts, reaction, stationary phase, proteins., S cerevisiae, Candida robusta, Saccharomyces capensis, c-Jun, Baker's, CBF-B, CBF-A, quantitative, brewer's yeast, Baker's Yeast, Brewer's Yeast, Proteomes, Baker Yeast, incidence, presence or absence in organismSaccharomyces oviformis, Yeasts, Saccharomyce cerevisiae, Yeast, Bakers, Brewer's, Baker Yeasts, baker's yeast, Saccharomyes cerevisiae, proteins, Baker, Brewer, Saccharomyces uvarum var. melibiosus, Saccharomyces italicus, Saccaromyces cerevisiae, temporal, Brewers Yeast, polypeptide, Baker's Yeasts, Sccharomyces cerevisiae, Brewer Yeast., Brewer's Yeasts, S cerevisiae, Candida robusta, Saccharomyces capensis, Brewers, yeast, Baker's, brewer's yeast, Baker's Yeast, Bakers Yeast, Brewer's Yeast, incidence, lager beer yeast, Baker Yeastglyoxylate metabolism, determination, Effects, selection process, number, Brewer's, baker's yeast, Baker Yeasts, Gene, establishment of cell quiescence, body system, presence, Saccharomyces italicus, Brewers Yeast, temporal, Long Term, period, G1/G0 transition, sensitive, yeast, Gene Products, system, Effect, lager beer yeast, Saccharomyce cerevisiae, anatomical systems, Longterm, MS3, Saccharomyes cerevisiae, Baker, proteins, NF-YA, Long-Term, Brewer, Eucarya, Saccharomyces uvarum var. melibiosus, eucaryotes, reaction, S cerevisiae, Candida robusta, Saccharomyces capensis, Baker's, CBF-B, Long-Term Effect, CBF-A, brewer's yeast, associated, SIMPLE, Long-Term Effects, incidence, TP53I7, data, HIP5, Arts, Proteins, cell cycle quiescence, Longterm Effect, hHLP1, function, Saccaromyces cerevisiae, Cell, eukaryotes, Sccharomyces cerevisiae, Baker's Yeasts, polypeptide, count in organism, Experiment, count, PIG7, Brewers, chemical analysis, Long Term Effects, Protein, connected anatomical system, Bakers Yeast, HAP2, Brewer Yeast, Saccharomyces oviformis, Yeasts, Yeast, Industrial, Industrial Arts, distinct, growth pattern, HLP, non-developmental growth, Bakers, Eukarya, Longterm Effects, organ system, Protein Gene Products, Gene Proteins, Brewer's Yeasts, stationary phase, Eukaryotae, presence or absence in organism., assay, quantitative, Eucaryotae, Baker's Yeast, Brewer's Yeast, Proteomes, time, Baker Yeast, euk-, presence or absence in organism1906http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015932dbgap_ncbi~0patentfamilies~0rfam~0merops~0complex-portal~0uniprot~0wormbaseparasite~0embl-covid19~0reactome~0emdb~0wgs_masters~0ebiweb_resources~0opentargets_genetics~0biomodels_all~0ipd-mhc~0ebiweb_teams~0taxonomy~0genome_assembly~0sc-experiments~0ebiweb_people~0enzymeportal_enzymes~0ipd-nhkir~0cellosaurus~0pdbe~0chebi~0patentproteins~0interpro7~0uniref~0chembl~0pdbekb~0gpcrdb~0hgnc~0sc-genes~0intact~0rhea~0ebiweb_training~0alphafold~0imgt-hla~0patentnucleotides~0ensemblroot~0eva_studies~0non-coding~0europepmc~0pubmed~1identifiers_registry~0pdbechem~0hpa-covid19~0eva-variants-covid19~0biosamples~0gwas_catalog~0biotools~0tls_masters~0mesh~0coding~0sra~0opentargets~0efo~0embl-pathogen~0project~0pride~1human_diseases~0geo_datasets~0embl~0treefam~0uniparc~0ols~0dgva~0intenz~0go~0tsa_masters~0biosamples-covid19~0ebiweb_corporate~0omim~0lrg~0earlycause-molecular-sequences~0ipd-kir~0empiar~0rnacentral~0orcid_data_claims~0gpmdb~3lineage-covid19~0metagenomics~0pfam~0pride archive~1varsite~00Resource Reanalysis0.00.00.0058605798889574340.01.0falseComprehensive temporal protein dynamics during the diauxic shift in Saccharomyces cerevisiaeData from ProteomeXchange, PXD ID: PXD001338. File: Hap2_fraction_5.mzml. Published as part of Mol Cell Proteomics. 2015 Jun 15 . From the Abstract: {{i}} Yeast (Saccharomyces cerevisiae) has served as a key model system in biology and as a benchmark for omics technology. Although near-complete proteomes of log phase yeast have been measured, protein abundance in yeast is dynamic, particularly during the transition from log to stationary phase. Defining the dynamics of proteomic changes during this transition, termed the diauxic shift, is important to understand the basic biology of proliferative versus quiescent cells. Here, we perform temporal quantitative proteomics to fully capture protein induction and repression during the diauxic shift ... {{/i}}2015-06-22GPM3232001593226077900PXD001338PXD001338