Categorization of Phosphorylation Site Behavior During the Diauxic Shift in - Unknown - Unknown - Unknown

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CategorizationofPhosphorylationSiteBehaviorDuringtheDiauxicShiftinSaccharomycescerevisiaeBrandonM.Gassaway1,JoaoA.Paulo1,StevenP.Gygi1*1HarvardMedicalSchool,DepartmentofCellBiology,Boston,MA*CorrespondingAuthor,steven_gygi@hms.harvard.edu

1S-1SupportingInformationFig.S1PCAAnalysisComponents3vs1Fig.S2FoldChangeandHotellingT2ComparisontoMurphyetal.Fig.S3MotifAnalysisofAllCategoriesFig.S4PhosphositeAbundanceComparisontoMartínez-Montañésetal.SupplementalDataSupplementalData1ProteomicandPhosphoproteomicDataSupplementalData2PCALoadingsSupplementalData3CandidateKinaseSubstrateAnalysisSupplementalData42-DannotationEnrichmentResults

2S-2A.B.PCA:ProteinPCA:Phoshosite17hr5hr5hr15hr13hr21hr7hr15hr17hr33hr21hr11hr7hr25hr9hr25hr29hr29hr9hr33hr13hr11hrFig.S1.PrincipalComponentAnalysis.PrincipalComponentanalysisbetweenComponent1andComponent3forProtein(A)andPhosphosite(B)data.Inthisdimension,the25hr,29hr,and33hrtimepointsareresolvedforthePCA:Phosphosites.

3S-3A.B.C.1018)Spearman=.658Spearman=.610FRE7FRE7_MurphyU81640(AFCY2FCY2_Murphy]614CFRE1FRE1_MurphyF230l.inl.T12a4aintteteroete10yhP2yhro20rrphrpP28u5r/0ugMhMoL63103-2[42RelativeAbundancego-42L0-6005101520253035-6-4-20246810024681012141618Log2[33hr/5hrProteinFC](AU)Log2ProteinT2Time(hr)Fig.S2.FoldChangeandHotellingT2ComparisontoMurphyetal.Comparisonof33vs5hrfoldchangesbetweenthisstudyandMurphyetal.(A).ComparisonofHotellingT2statisticsbetweenthisstudyandMurphyetal.(B).RelativeabundanceofselectproteinsacrossthetimecoursefromthisstudyandMurphyetal.showingapeakshifttolatertimepointsinthisstudy,affectingboth33vs5hrfoldchangesandHotellingT2statistics,duetodifferencesinstrainand/ormedia(BY4742vsDBY7286;syntheticcompletevsYPD)(C).

4S-4CDKSNF1CKIIFig.S3.MotifAnalysisofAllCategories.MotifanalysisusingthepLogotool(plogo.uconn.edu)forall9phosphopeptidebehavioralcategories.Redlinesrepresentp<0.05.InformativemotifshighlightedascoloredinFig.3:CDK(topleft)inpink,SNF1(topright)ingreen,CK2(centerbottom)inbrown.

5S-5A.B.41.5CDS1_44FYV8_1373CDS1_441.0FYV8_137Martínez-MontañésMartínez-Montañés20.510.01020304050Log2RatiotoLog2RatiotoFirstTimePoint0FirstTimePoint-0.51020304050-1Hr-1.0HrFig.S4.PhosphositeAbundancecomparison.ComparisonofCDS1_44(A)andFYV8_137(B)phosphositeabundanceasLog2foldchangetofirsttimepointacrossthetimecourseinthisstudy(black)toMartínez-Montañésetal.(red).ErrorbarsrepresentSEMofn=3replicates.