MetaboLights

application/xml

ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS12952/m_MTBLS12952_LC-MS_negative_reverse-phase_metabolite_profiling_v2_maf.tsvftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS12952/m_MTBLS12952_LC-MS_positive_reverse-phase_metabolite_profiling_v2_maf.tsvftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS12952/i_Investigation.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS12952/a_MTBLS12952_LC-MS_negative_reverse-phase_metabolite_profiling.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS12952/a_MTBLS12952_LC-MS_positive_reverse-phase_metabolite_profiling.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS12952/s_MTBLS12952.txtprimaryOK200ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS12952Metabolites were identified by matching experimental mass spectra and retention times against databases including HMDB, Metlin, and the Majorbio Database. Differential metabolites were screened using criteria of variable importance in projection (VIP) > 1 and p < 0.05, followed by KEGG pathway enrichment analysis to elucidate metabolic pathway alterations.MetaboLightsPublicLiquid Chromatography MS - negative - reverse phaseLiquid Chromatography MS - positive - reverse phaseChromatographic separation was performed on a Thermo UHPLC system equipped with an ACQUITY HSS T3 column. Mobile phase B (acetonitrile:isopropanol:water = 47.5:47.5:5, v/v/v) was used with gradient elution programs optimized for positive and negative ion modes, ensuring efficient separation of metabolites.Decoding the Regulatory Networks of Proteus mirabilis Under Succinic Acid Stress: A Multi-Omics Approach.Peking UniversityDuo KeaiCell culturemass spectrometryEach 50 mg aliquot was mixed with an extraction solution (methanol:water = 4:1, containing 0.02 mg/mL L-2-chlorophenylalanine as an internal standard), then processed via frozen grinding (Wonbio-96c) and low-temperature ultrasonication.Proteus mirabilisRaw mass spectrometry data were preprocessed using Progenesis QI to generate CSV matrices of metabolite features. These matrices were filtered (requiring detection in 80% of samples per group), imputed for missing values, sum-normalized, and uploaded to the Majorbio cloud platform for multivariate analyses including principal component analysis (PCA) and orthogonal partial least squares-discriminant analysis (OPLS-DA).Grouphttps://www.ebi.ac.uk/metabolights/MTBLS12952keaiduoduo998@126.comSingle colonies of Proteus mirabilis from Tryptic Soy Agar (TSA) plates were inoculated into Tryptic Soy Broth (TSB), incubated overnight at 37°C, centrifuged, resuspended to OD 550 =0.1, then treatment groups were mixed with MIC-level succinic acid (1:1 volumetric ratio) and control groups with sterile triple-distilled water, incubated at 37°C for 24 h, and finally centrifuged to collect pellets stored at -80°C.MetabolomicsBiofilm formationSuccinic acidProteus mirabilisMulti-omicsBiofilm formationSuccinic acidProteus mirabilisMulti-omicsMass spectrometric analysis was conducted on a Q Exactive HF-X spectrometer with an ESI source operating in data-dependent acquisition (DDA) mode. Full MS scans were acquired at a resolution of 60,000, and MS/MS scans at 7,500, with ion-spray voltage and collision energy optimized for metabolite detection.Phorbol-12,13-dibutyrateLaninamivir(3R,4S)-3,4,5-trihydroxy-3,4-dihydro-2H-naphthalen-1-oneUridine MonophosphateIle-Thr-Asngamma-Glu-SerPe(18:1/0:0)Phe-IleTyr-Tyr-LeuC75 transN1,N10-DicoumaroylspermidineImidazolelactic acidMPPa (Methyl pyropheophorbide-a)Val-Met2-phosphoglyceric acidAsp-Gln-LeuHexanoylglycine3-O-Demethylfortimicin APhenazepamTrans-4-Hydroxycyclohexylacetic acidCoumatetralyl1,2,3,4,5,6-Hexahydro-5-(1-hydroxyethylidene)-7H-cyclopenta[b]pyridin-7-onePEtOH(15:0/17:1)Thr-Pro-LysN-Formyl-met-leu-phe-lysL-Prolinamide, 5-oxo-L-prolyl-L-norvalyl-EvogliptinCyclohexa-1,3-diene-1,2-dicarboxylic acidGly-Gly-LeuFlavin mononucleotideGly-GluL-Monomenthyl glutarateMyristyl sulfateGlu-Lys-ThrGPEtn(17:1/16:0)3-Hydroxyanthranilic acidPe(o-13:1/4:0)ApstatinGly-Pro-ArgFlumioxazinBis(N-pantothenylamidoethyl) disulfideGly-Pro-Arg-ProPsychosine sulfateAsp-Asn-IleIndole-3-acetylglutamic acidN-Acetyl-DL-Valine2',3,4',5-Tetrahydroxy-4-prenylstilbene3',5'-Cyclic GMPAla-Ala-Gly11-beta-Hydroxyandrosterone-3-glucuronideTyr-Val-GlyAlpha-cyano-3-hydroxycinnamic acidSarmentosinPhosphoenol pyruvateLisinopril-tryptophanLicoricesaponin F3Asn-Asp-LeuKapporphinHyp-ProPro-GlnGlu-Asp-Leu7-BenzylidenenaltrexoneOleyl sarcosineClocapraminePseudouridineGly-Thr-IleCaffeic acidMet-GluPA(6 keto-PGF1alpha/10:0)Ent-6R,16bOH,17-Trihydroxy-7-oxo-6,7-seco-19,6-kauranolide 6-O-glucosideTetrahydroaldosterone-3-glucuronideOchromycinoneLinatine2,4-dihydroxybutanoic acidCyclokievitoneApigenin 7-o-glucosidePro-GluVal-Gly-Ile(-)-PinoresinolPg(16:0/17:1)Cinncassiol D2 glucosideLinalool oxide D 3-[apiosyl-(1->6)-glucoside]Gln-ProYohimbineDihydrofoliamenthic acidPetasitenineGuanosinePhe-GlnNeoandrographolideCytosine arabinoside monophosphatePropyl propane thiosulfonateMoxifloxacinDodecyl Hydrogen SulfateGlu-Trp-IleCarboxyfentanylPro-Gly-Ser(S)-TetrahydrocolumbamineO-CresolMorphSulfadoxineLeu-Ser-TyrLinagliptinGlyceric acidPro-HisHexadecanedioic acidPe(34:1)Phthalic acid(S)-3-Hydroxyisobutyric acidGly-Gln-IleN6-Acetyl-5S-hydroxy-L-lysineGly-Leu-Ser2-octylpent-2-enedioic acidDihydrobenzofuranIle-GlnAmphibine HIsorhynchophyllineLnape(16:1/n-16:1)Annomuricatin AAla-AlaPyrophosphateUridineLpe(19:1)Malonic acidAsn-ValImplitapideLysosulfatideTyr-GlnIsopentenyladenineHistidylarginineIsocitric acidD-Ribose-1-phosphateThr-AlaSilmitasertib4-dodecylbenzenesulfonic acidCDP-DG(PGF1alpha/i-12:0)Coumaryl acetateCitronellyl acetateAdenosine monophosphateUric acidNADGlu-Glu-LeuGlu-Thr-LeuFumaric acidLys-Tyr-TyrCis-3-hexen-1-olIpamorelinDsletGlu-Trp2-Octenedioic acidArphamenine BL-PhosphoarginineSulfo jasmonatePhenylpyruvic acidN-alpha-acetyllysineN-acetyl-l-methionineSagopiloneTetradecanedioic acidTraumatic acidUdp-n-acetylmuraminateDAF-25-(hydroxymethyl)-3-(1-hydroxy-8-methylnonyl)oxolan-2-one4-(Glutamylamino) butanoatePectenotoxin 2ModecainideDibekacinIntegerrimineTrp-Gln4-{[3-(diethylamino)propyl]amino}-4-oxobut-2-enoic acidSenkyunolide N6-MethoxymelleinPe(12:0/0:0)S-(9-hydroxy-PGA1)-glutathionePhalloidineAla-Val-Alagamma-Glu-HypIsovalerylureaDeoxynivalenol10-Hydroxy-2-decenoic acid(+)-DehydrovomifoliolMono(2-ethyl-5-oxohexyl)phthalateLigusticidegamma-Glu-PheN(G)-Nitroarginine-4-nitroanilideTrans-3-Octenedioic acidCholylasparagineMonoisobutylphthalic AcidNeuromedin B (4-10)Melibiitol1-Carboxycyclohexaneacetic AcidSwerosideAsp-MetIclaprimBms-275183Succinic anhydrideSuberic acid5,8,11-trihydroxyoctadec-9-enoic acidL-Threonic acid2-amino-6-chloropurineAla-Glu-LeuNorophthalmic acidN-Desmethyl TopotecanPyro(l-alpha-aminoadipyl)-L-histidyl-L-thiazolidine-4-carboxamideMoreollinIxabepilone1-(2,2-dimethylpropanoyl)pyrrolidine-2-carboxylic acid2,3-dihydroxyundecanedioic acidH-D-Val-Leu-Lys-pNA1-heptadecanoyl-glycero-3-phosphate5-(2-Methylpropyl)-3,6-dioxo-2-piperazinepropanoic acidCyclo(Trp-Asp-Pro-Ile-Leu)CarcinineN-lauroylsarcosineGlu-ValXanthosinePisumoside AButanedioic acid, octenyl-AristospanMelledonal ACitric acidAdenosine 2'-phosphateNorgestrelLatrunculin BJuzirine2-Aminoheptanedioic AcidVal-AsnVal-Asp6-Phosphogluconic AcidFipronilCis-Zeatin O-glucosideCalophymembranside B3-Oxovalproic acidAlpha-d-glucose4-hydroxyphenylacetic acidSerdexmethylphenidate4-amino-n'-hydroxypyrimidine-5-carboximidamidebeta-Ala-His2-{[(4-methyl-2-oxo-2h-chromen-7-yl)amino]carbonyl}benzoic acidN6-(Delta2-Isopentenyl)-adenineIlepatrilLeu-Gly-GlyDihydroergocornineGlucose 6-phosphateHygromycin B(+/-)-3-Hydroxybutyric acid8-HydroxyadenineZymonic acidFa(18:2+3o)Flavin adenine dinucleotide1-Octen-3-yl primeverosideIle-ValVelagliflozin2-Hydroxycaproic acidCinnamoylglycineMesaconitineLpe(o-6:0)3alpha-Hydroxyoreadone2-hydroxy-3-(5-methoxycarbonylcyclohexa-2,4-dien-1-yl)propanoic acidLeucinic AcidAsp-PheGln-Val-AlaOxyacanthineElaterinideDhesnTyr-Thr-Gly-Phe-Leu-Thr2-Keto-4-methylthiobutyric acidAsp-Phe-GlnMesobilirubinogenAmericine5-(4-sulfophenyl)undecaneL-malic acidGlabrin D2,2',4,4'-TetrachlorobiphenylEthenodeoxyadenosineMauritine AGly-Thr7,3',4'-Trihydroxyflavone3-hydroxymandelic acid6S,9R-Dihydroxy-4,7E-megastigmadien-3-one 9-[apiosyl-(1->6)-glucoside]Cefapime2-(3-(2-Aminoethyl)-1h-indol-5-yloxy)acetyl-l-tyrosyl-glycinamideEndomorphin-2GlycosidesPirmenolMet-Hyp3-Methyl-2-Oxovaleric AcidGln-gamma-GluPDE-4 Inhibitors4-Butyl-5-hydroxy-2-(4-hydroxyphenyl)-1-phenyl-1H-pyrazol-3(2H)-one5-Hydroxyhexyl glucosideHistidinohydroxylysinonorleucine4-Methyl-5-oxo-2-pentyl-2,5-dihydro-3-furancarboxylic acidLixivaptanGuanosine 5'-monophosphateGlycerol 3-PhosphateY-MorphineVal-Pro-Gly-Val-GlyNeoacrimarine K4-hydroxyphenylpyruvic acidGln-Ala-Leu3-furoic acidPinonic acidTtatpnEthyl myristatePhe-Pro-ArgRubiadin9-(2,3-dihydroxypropoxy)-9-oxononanoic acidGly-Glu-LeuIle-AspPe(16:1/0:0)Phe-Ala-Asp2-methoxybenzoic acidPe(17:1/18:1)Pro-LeuCitramalic AcidL-ThreonineTridecanedioic acid3-guanidinopropionic acid8-Amino-7-oxononanoic acidbeta-AlanineNetilmicinGliadinsMethyl glucosinolateDimerum acidDihydroouabainVinblastineEpidihydrophaseic acidGly-Leu(Z)-3-hydroxydodec-5-enoic acid10-hydroxydecanoic acidAsp-Gly-LeuImazapicDL-4-Hydroxyphenyllactic AcidNeuAc(alpha->6)GalNAc(alpha1->O)SerPreladenantS-(PGA1)-glutathionePhloionolic acidS-Prenyl-L-cysteineLoperamide4-Methylbenzoic AcidLansamide 43-amino-3-(4-chlorophenyl)propanoic acidMet-Thr-LeuValeryl 4-hydroxy valsartanLpe(o-5:0)Gly-Val-LeuAsp-Leu-SerMet-gamma-GluAsn-AlaLpe(16:1)DichloroisoproterenolDiphenhydramine N-glucuronidePhosphateD-Phenyllactic acid2-acetylaminofluoreneCapsianoside V(15a,20R)-Dihydroxypregn-4-en-3-one 20-[glucosyl-(1->4)-6-acetyl-glucoside]AmygdalinDihydrocoumarinIsopropylmaleic acid2-Propyl-2,4-pentadienoic acidNonactinic acidThymidine 5'-monophosphateCornosideLpe(16:0)ProtodioscinAla-Ala-Leu2-Hydroxysebacic acidGly-Thr-AlaFosteabineAureomycinGlu-Glu7-Epi-12-hydroxyjasmonic acidAla-IleAminocaproic acidGlu-Asp-Lys5-methoxysalicylic acid sulfateOphthalmic AcidNicotinamide-adenine-dinucleotide phosphateL-Glutamic AcidSarecyclineXi-Linalool 3-[rhamnosyl-(1->6)-glucoside]N-(3-acetamidopropyl)pyrrolidin-2-onePGP(5-iso PGF2VI/20:3(8Z,11Z,14Z))Leu-Pro-Glu17-aagIndoleacrylic acidXanthosine 5'-monophosphateEtiocholanolone glucuronideLpe(14:1)Glu-Gly-IleGly-Arg-Gly-Asp-Ser-ProSisomicin sulfatePhe-Phe-ThrPro-Lys-SerPro-HypLnape(17:1/n-17:0)CarvedilolSuccinic acidEndalinNPCBeta-Funaltrexamine7,3'-dihydroxyflavoneDaidzein-4'-glucosideN-Docosahexaenoyl GlycineHippuric acidAdenosine 5'-diphosphateEthyl 3-cyano-6-methyl-2-(phenylthio)isonicotinateTyr-Gly-GlyCarboxymethyl chitosan3-hydroxyphenylacetic acidMyelopeptidesSpongouridinUDP-D-GalactoseN,n-dimethyl-histidine2-hydroxy-3,4-dimethoxybenzoic acidAsn-Asp-Ile(2S)-2-Amino-6-[(3-formylpiperidin-1-yl)amino]hexanoic acid4-(decan-4-yl)benzenesulfonic acidLpe(15:0)Arg-His-Phe-Trp-Gln-GlnDammeSulfametroleSenecionine N-oxidePantolactoneEmorfazone2-Methylhippuric acidLys-Asp-Thr7-Hydroxy-6-methyl-8-ribityl lumazine(E)-3-Hydroxy Tamoxifen O-|A-D-GlucuronideN-acetyl-l-tyrosine4-Aminosalicylic acidBlumenol C O-[rhamnosyl-(1->6)-glucoside]EchothiophateN-Acetyl-1-methylhistidineTyr-Lys-Ser(3R)-Beta-LeucineInosine2-mercaptobenzothiazoleGPEtn(16:1/16:0)Pe(14:0/17:1)Gly-Ser-AlaIle-HypN-Acetyl-L-phenylalanine3-(2-hydroxybutan-2-yl)-5-oxooxolane-3-carboxylic acidPalmitic acidProtocatechuic acid5-(4-Tert-butylphenyl)-1,3,4-oxadiazole-2-thiol5-Aminovaleric AcidAla-GluAla-Gly-Leu2-[3-(sulfooxy)phenyl]acetic acidSer-Phe4-ethylamino-6-isopropylamino-1,3,5-triazin-2-olLeu-Pro-ProCholylglutamic acidLpe(18:1)Gly-Asp-Leu3-methoxyphenylacetic acidCucurbitacin A6-hydroxy-2-aminopurineLeu-Arg-Asn-ArgSer-Gly-Leu(S)-3-Hydroxy-N-methylcoclaurineIle-Glu-Thr-Asp-fluoromethyl ketone2-(1-hydroxyethyl)-4-(2-hydroxypropyl)-2h-furan-5-oneSoyasaponin I6-Phenyltetrazolo[1,5-b]pyridazin-7-olGlu-Gly-LeuGluten exorphin A53-Dehydroshikimic acidVal-Pro-LeuCd 1790NeobignonosideCyclic adp-riboseDienogestFucose2-Hydroxy-4-[(1R)-1-hydroxy-8-methyl-6-oxononyl]-3-methyl-2H-furan-5-one1-methylhydantoin4-(4-Methylcyclohexyl)-4-oxobutanoic acid(Z)-2-oct-7-enylpent-2-enedioic acidGlu-Leu-SerAvenalumin IIIThr-LeuMelanostatinPA(5-iso PGF2VI/12:0)Asn-Phe-SerDynasoreApigenin(2R,4S)-1-(Tert-butoxycarbonyl)-4-phenylpyrrolidine-2-carboxylic acidCorynantheineMicrocystin LWPS(5-iso PGF2VI/14:0)Pe(14:0/16:1)Cryptolepine2-MethylguanosineN-Acetylhistidine(S)-ReticulineDodecanedioic acidGly-Pro-Hyp9'-Carboxy-gamma-chromanolL-GlutamineDeoxyguanosineNorerythromycinPe(16:1/17:1)OmadacyclineMonotropeinS-(PGJ2)-glutathionePe(14:0/16:0)BromocriptineCyclosquamosin FThymidineGly-Glu-IleGlu-Tyr-Asp-Lys5-Chloro-2'-deoxyuridineTetrapeptideN-acetylornithine3-Hydroxysebacic AcidAsp-Gly-IleCinnamosideL-Aspartic Acid2-Isopropyl-5-methylphenol acetate2-Furoic acidN-Acetyl-D-alloisoleucine7-hydroxy-1,1-dimethyl-2,3,4,9-tetrahydropyrido[3,4-b]indole-3-carboxylic acidDmg-mino2,2'-(3-methylcyclohexane-1,1-diyl)diacetic acidUndecanedioic acidLesopitronMethyl jasmonatePro-Asn3-(6-hydroxy-7-methyloctyl)-3,6-dihydro-1H-furo[3,4-c]furan-4-oneMethyl 5-(hydroxymethyl)pyrrolidine-3-carboxylate(+/-)13-HpODE(Z)-6-methyl-2-(4-methylpent-3-enyl)hept-2-enedioic acidOxypurinol3-Ethoxypropanoic AcidProtoporphyrin IXSedoheptuloseN5-Acetyl-N2-gamma-L-glutamyl-L-ornithineAbscisic alcohol 11-glucosideMethyl 6-O-galloyl-beta-D-glucopyranosideP-Hydroxyhippuryl-his-leu-OHSer-Val-Gly-GluAzelaic acidAcetyl-Ser-Asp-Lys-ProLeu-SerCasokefamide(4E,7E)-dodeca-4,7-dienedioic acid28-Hydroxywithanolide EGPEtn(16:1/18:1)Pe(16:0/19:1)LeuphasylAsn-Ile-Thr-GluGlu-Asp-IleS-(11-OH-9-deoxy-delta9,12-PGD2)-glutathioneZiprasidonePyro-L-glutaminyl-L-glutamineSedoheptulose 7-phosphate11-(2-hydroxy-3,4-dimethyl-5-oxofuran-2-yl)undecanoic acid(2E)-4-hydroxy-5-methyl-2-propylidene-3(2H)-furanonePyroglutamyl-glutamyl-proline amideIndole-3-carboxylic acidN-Methyl-L-glutamateGly-Gly-MetNorvalineLpe(17:1)(1R,6R)-6-hydroxy-2-succinylcyclohexa-2,4-diene-1-carboxylatefalseDecoding the Regulatory Networks of Proteus mirabilis Under Succinic Acid Stress: A Multi-Omics ApproachProteus mirabilis, a key catheter-associated urinary tract infection pathogen that forms antibiotic-resistant crystalline biofilms, was shown via multi-omics analyses to be multimodally inhibited by succinic acid. At 15 mM, succinic acid reduced the bacterium’s growth by 70% and biofilm formation by 50%. Metabolomics revealed dysregulation in tryptophan/arginine metabolism, nucleotide biosynthesis, and the tricarboxylic acid cycle; transcriptomics showed downregulated ribosomal genes, oxidative phosphorylation, and efflux pumps plus upregulated arginine transport; and proteomics demonstrated suppressed T6SS virulence factors and iron acquisition proteins. Mechanistically, succinic acid is proposed to reduce K6 acetylation of the histone-like nucleoid structuring protein, enhancing its oligomerization to repress T6SS genes and inhibit biofilm formation. By targeting metabolism, virulence, and stress adaptation, succinic acid circumvents single-target resistance, offering a strategy to combat multidrug-resistant P. mirabilis via biofilm disruption and pathogenicity 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