Prideapplication/xmlftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/peptides_charge-TRUE_ordered_filt.csvftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/proteins_ordered_filt_norm.csvftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_044.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_035.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_048.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_026.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_053.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_023.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_039.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_040.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_045.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_047.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_032.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_054.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_050.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_038.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_041.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_033.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_046.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_020.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_042.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_029.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_024.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_051.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_028.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_021.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_034.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_030.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_036.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_022.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_052.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/olgas_M1308_027.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/InterProphet.pep.xmlftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/08/PXD006039/FeatureLinker.consensusXMLprimaryOK200003450aebersold@imsb.biol.ethz.chOlga T. SchubertMass SpectrometryShotgun proteomicsNot availableData-dependent acquisitionMycobacterium tuberculosisShotgun proteomicsOrbitraphttp://www.ebi.ac.uk/pride/archive/projects/PXD006039For proteomic analyses, samples were harvested from triplicate cultures immediately before addition of NO and 20 minutes, 6, 12, 24 and 48 hours after NO addition. For each sample, 25 mL of culture were spun down. Bacterial cell pellets were dissolved in lysis buffer containing 8 M Urea and 0.1% RapiGest (Waters) in 0.1 M ammonium bicarbonate buffer and were disrupted by applying two 40-second cycles with FastPrep®-24 (MP Biomedicals). Protein concentration was determined using a BCA assay according to manufacturer’s protocol (Thermo Fisher Scientific). Protein disulfide bonds were reduced by tris(2-carboxyethyl)phosphine (TCEP) and the resulting free cysteine residues were alkylated by iodoacetamide. Excessive iodoacteamide was captured by addition of N-acetyl cysteine. Extracted protein samples were diluted with ammonium bicarbonate buffer to reach a urea concentration of <2 M and then digested with sequencing-grade modified trypsin (Promega). To stop the tryptic digest and to precipitate RapiGest the pH was lowered to 2 using 50% trifluoro acetic acid (TFA). Water-immiscible degradation products of RapiGest were pelleted by centrifugation and the cleared peptide solution was desalted with C18 reversed-phase columns (Sep-Pak Vac C18, Waters), dried under vacuum, and re-solubilised to a final concentration of 1 mg/ml. One µg of each peptide sample was analysed on a nano-LC system (Eksigent Technologies) connected to an LTQ Orbitrap XL mass spectrometer equipped with a nanoelectrospray ion source (Thermo Fisher Scientific). Peptides were separated on a fused silica microcapillary column (10 cm x 75 µm, New Objective) packed in-house with C18 resin (Magic C18 AQ 3 µm diameter, 200 Å pore size, Michrom BioResources) with a linear gradient from 95% solvent A (2% acetonitrile/0.1% formic acid) and 2% solvent B (98% acetonitrile/0.1% formic) to 35% solvent B over 90 min at a flow rate of 300 nl/min. The data acquisition mode was set to obtain one MS1 scan in the orbitrap at a resolution of 60,000 full width at half maximum followed by collision induced dissociation of the five most abundant precursor ions with a dynamic exclusion for 30 s. MS2 spectra were acquired in the linear ion trap.PrideNot availableiodoacetamide derivatized residueThermo raw files were converted into mzXML format using ProteoWizard. The acquired MS2 spectra were searched with OMSSA and XTandem against an M. tuberculosis H37Rv protein database (TubercuList v2.6) additionally containing reversed sequences of all proteins in the database. Search parameters were as follows: semi-tryptic peptides (proteolytic cleavage after lysine and arginine unless followed by proline) and maximally one missed cleavage were allowed, mass tolerance for the precursor ions was set to 15 ppm and for the fragment ion to 0.4 Da. Carbamidomethylation at cysteines was set as a fixed modification. The output of the search engine was processed using PeptideProphet and iProphet as part of the TPP. Only peptides at a false discovery rate of less than 1% were taken into consideration for further analysis. For MS1-based label-free quantification the openMS framework was used. Signals were normalised on peptide feature level such that the median signal in each sample is the same. Abundances of the three most intense peptides were averaged to get a protein abundance value. The same peptides were used for protein quantification across all samples and proteins with less than three peptides were included.ProteomicsMultiomicsRuedi AebersoldLTQ OrbitrapPARTIALInstitute of Molecular Systems Biology, Department of Biology, ETH Zurich, SwitzerlandMycobacterium Tuberculosis H37rv28811595 Cortes T, Schubert OT, Banaei-Esfahani A, Collins BC, Aebersold R, Young DB. Delayed effects of transcriptional responses in Mycobacterium tuberculosis exposed to nitric oxide suggest other mechanisms involved in survival. Sci Rep. 2017 7(1):8208 10.1038/s41598-017-08306-1olga.schubert@gmail.comBiologicalETH ZurichSwitzerlandMycobacterium tuberculosis has succeeded as a human pathogen for tens of thousands of years thanks to its ability to resist and adapt to the adverse conditions it encounters upon infection. Bacterial adaptation to stress is commonly viewed in the context of transcriptional regulation, with the implicit expectation that an initial transcriptomic response is tightly coupled to an ensuing proteomic response. However, after challenging M. tuberculosis with nitric oxide we found that the rapid transcriptional responses, detectable within minutes of nitric oxide exposure, typically took several hours to manifest on the protein level. Furthermore, early proteomic responses were dominated by the degradation of a set of proteins, specifically those containing damaged iron-sulphur clusters. Overall, our findings are consistent with transcriptional responses participating mostly in late-stage recovery rather than in generating an immediate resistance to nitric oxide stress, suggesting that survival of M. tuberculosis under acute stress is contingent on mechanisms other than transcriptional regulation. These findings provide a revised molecular understanding of an important human pathogen.Delayed effects of transcriptional responses in Mycobacterium tuberculosis exposed to nitric oxide suggest other mechanisms involved in survival.Cortes Teresa T, Schubert Olga T OT, Banaei-Esfahani Amir A, Collins Ben C BC, Aebersold Ruedi R, Young Douglas B DBsodium salt, single-organism catabolic process, ammonium formate, 13C-labeled, MeCN, cadmium salt, PLXN5, ion, Vinegar, Basodexan, magnesium formate, mg/ml, zinc salt, Solvent, SeP, Bca, 5730420M11Rik, dmTAF[[II]]230, Polypeptides, protein polypeptide chains, STOP, E260, CEH, cobalt(II) formate dihydrate, CH3-C#N, Cultural, B1, Urea, NEPII, AGM4, SEH, Sep, SEP, bca, C, SET, ethnicity, Divorced, pore, TFIID TAF250, cel, catabolism, phosphatase 2A inhibitor I2PP2A, proteins, Divorces, T6G21.3, Acetic Acid Glacial, sEP, AI047805, DmelCG4299, set, decreased, column, Magics, scientific observation, sample, D1, MeCO2H, n, s, fused to, autolysin activity, Half Cystine, nickel salt, dTAF[[II]]230, Stars, Chp, Zinc Cysteinate, cobalt (+2) salt, TAF200, Cultural Background, Glacial, sodium (4:1:1) salt, Cultures, magnesium salt, Dm1, (2R)-2-amino-3-sulfanylpropanoic acid, Hydrogen Oxide, breakdown, HLA-DR-associated protein II, Ethylic acid, DI-2, LY57, I-2Dm, FU, formate, cromium (+3), inhibitor of granzyme A-activated DNase, study protocol, beta Trypsin, I-2PP1, TAF-IBETA, Taf250, Fu, bacteriolytic toxin activity, ammonium (4:1) salt, TAF-Ibeta, methyl cyanide, fused, lead (+2) salt, STARS, TAF230, FUSED, knobbly, breadth, nickel formate dihydrate, not genetically inherited., lead formate, aluminum salt, L-Zystein, Fused, Carbamide, precursor, protein-containing complex, body system, CG7826, Stable tubule-only polypeptide, Ly57, CG7835, CG42273, system, Half-Cystine, Carmol, Backgrounds, anatomical systems, dTAF[[II]]250, STOP145, thallium (+1) salt, cell, L Cysteine, E-920, beta-Trypsin, rubidium salt, 2pp2a, Cultural Relativisms, methanoic acid, ions, study assay, CG10574, Solution, CD156, dTAF250, 2PP2A, CYSTEINE, dSET, dSet, Customs, FREE CYSTEINE, peptidos, (2R)-2-amino-3-mercaptopropanoic acid, Kb, PTHB1, Ki, measuring, 2810411E12Rik, AcOH, 1-(14)C-labeled, degradation, Mell1, BG:DS00004.13, potassium formate, copper (+2) salt, Cultural Backgrounds, backward, acetonitrile, buffer, Cell, B930045J24, dTAF230, polypeptide, native protein, carbonyldiamide, I-2PP2A, C18, cupric formate, Dm I-2, TAF[[II]]250/230, 145-kDa STOP, aluminum formate, Taf[[II]]250, AU020952, lithium formate, holin, underdeveloped, Separations, Striated muscle activator of Rho-dependent signaling, (R)-2-amino-3-mercaptopropanoic acid, pore-forming toxin activity, ethanenitrile, CD156a, ME-IV, plan specification, MeCOOH, ACETIC ACID, Relativisms, E920, Relativism, Cultural Relativism, NEP2, Ethanoic acid, reversed, channel-forming toxin activity, multicellular organismal catabolic process, IPP2A2, E 920, NCMe, Nl1, zinc formate, Essigsaeure, lead salt, protein, L-cysteine, Cahp, lysis, peptide, Background, ammonium tetraformate, ClvPrd, peptido, Glacial Acetic Acid, kinky, NL1, Min, NL2, protein aggregate, present in fewer numbers in organism, DmelCG42273, peptides, TAF-I, E927b, E430039A18Rik, hypoplasia, Acetic Acid, min, mAPC, copper, SCAN, IGAAD, lithium salt, DmelCG10574, AI316800, ethoic acid, necrosis, Lyw-57, ammonium (2:1) salt, phapii, Dmel_CG7826, StF-IT-1, TAFII-250, TAF250/230, Cys, ur, SLP65, any method, carbamide, Ly-57, TAFII250, Ionen, MMEL2, bacteriocin activity, Mtap6, p24, nickel (+2) salt, Acetic acid, Dmel_CG7835, Mnb, MNB, parent ion, SLP-65, ammonium salt, BASH, MS/MS, cobaltous formate, L-Cysteine, CG4299, AW124434, CG17603, Sid470p, merged with, TAF[[II]], L-Cystein, organ system, nanospray, H2NC(O)NH2, lysin activity, precipited material, precursor ion, SR3-5, Acetamide, copper salt, Eph2, Polypeptide, AI046351, i2pp2a, 1728, Beliefs, d230, E-260, Cysteine Hydrochloride, cesium salt, CH3-COOH, dTAFII250, PLEXIN-B1, vac, EfW1, PHAPII, Buffer, formic acid, Karbamid, method, Methanecarboxylic acid, potassium salt, reduced, polypeptide chain, template-activating factor I, dmTAF1, Ms1, Taf230, subnumerary, 14C-labeled, method used in an experiment, Harnstoff, tiny, Separated, CH3CO2H, Pro-Mega, TAF250, Taf200, CG2916, MS1, iones, MS2, ipp2a2, Taf1p, decreased number, calcium formate, taf-ibeta, male sterility 1, SELP, cromium (+3) salt, mKIAA1278, culture, TAF, 2-iodo-, sodium formate, TCEP, BLNK-S, small, DYRK1, data, TAF[[II]]250, AA960066, 1500003O03Rik, nickel formate, 3H-labeled, protein complex, Map-6, igaad, strontium formate, l(3)84Ab, strontium salt, Peptide, Belief, sep5, Axin, HOAc, natural protein, p230, Protein, I2PP2A, TFIID, Dyrk1, Vacuums, connected anatomical system, ACETONITRILE, tandem MS, cyanomethane, MAP-6, Separation, 10^[-9], TAF[[II]]230, E 260, uree, MALE STERILITY 1 PROTEIN, urea, CC1, DmelCG2916, Tripcellim, L-2-Amino-3-mercaptopropionic acid, TAF[II]250, acide acetique, sample population, chromic formate, UREA, Trypure, dSET/TAF-Ibeta, 2610030F17Rik, DmelCG17603, Ion, concentration, joined with, calcium salt, INS No. 260, Peptid, acetic acid, AA407739, 1700112N14Rik, coalesced, TAF1Bacillus tuberculosis, Bacterium tuberculosis, Nitrogen Monoxide, Mycobacterium tuberculosis variant tuberculosis, Nitrogen oxide (NO), Endothelium-Derived, Mycobacterium tuberculosis H37Rv, exits through, Oxide, Mononitrogen, Endogenous, late, Vasodilator, exposed, Endogenous Nitrate Vasodilator, Monoxide, extruding from, Mononitrogen Monoxide, survival, Nitric Oxide, Nitric, Nitrogen, time of survival., Mycobacterium tuberculosis var. hominis, Endothelium Derived, Endogenous Nitrate, Nitrate Vasodilator, Mycobacterium tuberculosis typus humanus, Endothelium-Derived Nitric OxideBru, IPP2A2, Raw, ion, Lysine Hydrochloride, determination, False, L-arginine, DL-Arginine Acetate, cleavage, L Isomer, FBN, Gene, Monohydrate, protein, precursor, protein-containing complex, PHAPII, L-(+)-arginine, 5730420M11Rik, peptide, Polypeptides, protein polypeptide chains, Lysine Acetate, Drug Tolerance, peptido, ClvPrd, polypeptide chain, (2S)-2-amino-5-(carbamimidamido)pentanoic acid, template-activating factor I, Ms1, ECTOL1, L-Proline, Gene Products, Kochs disease, 2, Tuberculosis, Del(8)44H, Lysine, Arg, protein aggregate, WMS, InterProphet, L Lysine, Koch's Disease, Svc, Koch Disease, SET, Search Engines, proportion, (S)-2-amino-5-guanidinopentanoic acid, F, peptides, Infections, MS1, K, TAF-I, MS2, iones, phosphatase 2A inhibitor I2PP2A, (S)-2-Amino-5-guanidinovaleric acid, ipp2a2, E430039A18Rik, R, epsilon-diaminocaproic acid, Arginine, 2pp2a, TPP, proteins, Monohydrate DL-Arginine Acetate, T6G21.3, Mycobacterium tuberculosis Infections, ions, free, CG10574, CD156, OCTD, DmelCG4299, set, IGAAD, LYS, 2PP2A, 10^[-6], DmelCG10574, taf-ibeta, Lysin, ppm, male sterility 1, L Proline, sample, TB, dSET, dSet, L-Arg, peptidos, Mycobacterium tuberculosis, GPHYSD2, drug tolerance, SGS, L-Arginin, ratio, phapii, Stars, Kochs Disease, protein complex, immune system tolerance, Proteins, Arginine Hydrochloride, igaad, arginine, StF-IT-1, Search, backward, L-Isomer, DL Arginine Acetate, not genetically inherited, Peptide, Engine, tuberculosis disease, ACMICD, polypeptide, native protein, Immune Tolerance, natural protein, Ionen, L-Isomer Arginine, I-2PP2A, Acetate, Protein, Dm I-2, chemical analysis, I2PP2A, Infection, lysine, Hydrochloride, Immunologic Tolerance, MFS1, median, L Arginine, Tuberculoses, L-Lysine, tandem MS, Data Base, WMS2, L-Arginine, parent ion, Col4a-1, HLA-DR-associated protein II, DI-2, MALE STERILITY 1 PROTEIN, MS/MS, I-2Dm, (2S)-2-amino-5-guanidinopentanoic acid, proportionality, Striated muscle activator of Rho-dependent signaling, rate, alpha, MASS, CG4299, inhibitor of granzyme A-activated DNase, CD156a, sample population, Protein Gene Products, I-2PP1, Gene Proteins, dSET/TAF-Ibeta, 2610030F17Rik, Self Tolerance, TAF-IBETA, Tolerance, precursor ion, Ion, SSKS, quotient, Peptid, TAF-Ibeta, Polypeptide, assay, Mycobacterium tuberculosis Infection, 6-diaminohexanoic acid, AA407739, STARS, i2pp2a, Enisyl, Peptide., active tuberculosis, reversed, Immunological ToleranceRNA Sequence Determination, Transcriptome Profile, Peptidomics, Endothelium-Derived, Sequence Determination, RNA Sequence, Mononitrogen, Gene Expression Profile, Gene, Profiles, Spectrum Analyses, CG7826, diethylenetriamine monohydrochloride, Monoxide, Mononitrogen Monoxide, Nitric Oxide, responsivity, CG7835, Mass, CG42273, Kochs disease, Tuberculosis, Min, Analysis, DmelCG42273, Mass Spectroscopy, Koch's Disease, Mass Spectrum Analysis, study, reactivity, Koch Disease, Infections, Nitrogen oxide (NO), Analyses, Determination, Profile, diethylene triamine, min, Vasodilator, mAPC, Mycobacterium tuberculosis Infections, Sequence Determinations, Signatures, Sequencing, AI047805, extruding from, RNA Sequence Analyses, Expression Signature, time of survival, Nitric, TB, diethylenetriamine diacetate, Transcriptomes, Endogenous Nitrate, RNA Sequencing, Mycobacterium tuberculosis, Sequence Analyses, RNA, DYRK1, Nitrogen Monoxide, Transcriptome, Kochs Disease, RNA Sequence Determinations, exits through, Oxide, Expression Profiles, Dmel_CG7826, Endogenous, Spectrum Analysis, tuberculosis disease, Determinations, Endogenous Nitrate Vasodilator, Spectroscopy, Gene Expression, survival, Dm1, diethylenetriamine hydrochloride, ME-IV., Expression Signatures, Gene Expression Signatures, Infection, Gene Expression Signature, Dyrk1, Nitrate Vasodilator, Tuberculoses, Expression Profile, Dmel_CG7835, Mass Spectrum Analyses, Transcriptome Profiles, Mnb, MNB, AU020952, Mass Spectrum, diethylenetriamine trihydrofluoride, CC1, Spectrometry, exposed, AW124434, ME-IV, Gene Expression Profiles, Nitrogen, RNA Sequence Analysis, Endothelium Derived, response, Mycobacterium tuberculosis Infection, Signature, active tuberculosis, Endothelium-Derived Nitric Oxidemulticellular organismal catabolic process, single-organism catabolic process, IPP2A2, advanced, human being, Mycobacterium tuberculosis variant tuberculosis, Endothelium-Derived, developmental stage, Mononitrogen, Infestations and Infections, Gene, protein, protein-containing complex, PHAPII, 5730420M11Rik, Monoxide, protein polypeptide chains, Readability, Mononitrogen Monoxide, polypeptide chain, template-activating factor I, Nitric Oxide, Mycobacterium tuberculosis var. hominis, responsivity, resistance, Gene Products, symptoms, Kochs disease, Tuberculosis, 26Fe, DmF2, protein aggregate, Fs(3)Hor, Koch's Disease, lod, Bacillus tuberculosis, reactivity, Bacterium tuberculosis, Koch Disease, SET, hierro, DmelCG2684, Infections, Nitrogen oxide (NO), TAF-I, catabolism, phosphatase 2A inhibitor I2PP2A, ipp2a2, 2pp2a, Vasodilator, proteins, Mycobacterium tuberculosis Infections, NTef2, man, CG10574, DmelCG4299, Infestation and Infection, set, IGAAD, 2PP2A, DmelCG10574, taf-ibeta, Nitric, time of survival, TB, dSET, dSet, Endogenous Nitrate, Mycobacterium tuberculosis, stage, Infections and Infestations, phapii, screening, Nitrogen Monoxide, findings, Kochs Disease, degradation, protein complex, Oxide, Proteins, igaad, fer, Endogenous, StF-IT-1, late, tuberculosis disease, Fs(3)Sz11, Endogenous Nitrate Vasodilator, Acute onset, Iron 56, survival, native protein, natural protein, I-2PP2A, Protein, Dm I-2, I2PP2A, Infection, precocious, Nitrate Vasodilator, Tuberculoses, human., ferrum, breakdown, HLA-DR-associated protein II, DI-2, Iron, Mycobacterium tuberculosis H37Rv, I-2Dm, signs, Infection and Infestation, CG4299, inhibitor of granzyme A-activated DNase, Iron-56, Understanding, Lds, human, early, Fe, I-2PP1, Protein Gene Products, Gene Proteins, dSET/TAF-Ibeta, 2610030F17Rik, Eisen, TAF-IBETA, Horka, Nitrogen, CG2684, Endothelium Derived, Fs(3)Horka, regulation, TAF-Ibeta, response, Mycobacterium tuberculosis Infection, AA407739, iron, i2pp2a, active tuberculosis, Mycobacterium tuberculosis typus humanus, Endothelium-Derived Nitric OxideEndogenous Nitrate Vasodilator, Bacillus tuberculosis, Monoxide, Bacterium tuberculosis, Nitrogen Monoxide, Mononitrogen Monoxide, Endothelium-Derived Nitric Oxide., Mycobacterium tuberculosis variant tuberculosis, Nitrogen oxide (NO), Nitric Oxide, Nitric, Endothelium-Derived, Nitrogen, Mycobacterium tuberculosis var. hominis, Mycobacterium tuberculosis H37Rv, Oxide, Endothelium Derived, Endogenous Nitrate, Mononitrogen, Endogenous, Vasodilator, Nitrate Vasodilator, Mycobacterium tuberculosis typus humanus345trueMycobacterium tuberculosis under nitric oxide stressTo study the entire transcriptional and translational M. tuberculosis response from initial survival to eventual escape from nitric oxide (NO) stress, we exposed exponentially growing M. tuberculosis to 1 mM diethylenetriamine/nitric oxide (DETA/NO) and followed the adaptive response over 48 hours. Samples were obtained from two independent experiments performed in triplicate and we sampled aliquots for transcriptome profiling by RNA sequencing at 20 min, 2 h and 24 h and for mass spectrometry-based shotgun proteomics at 20 min, 40 min, 1 h, 2 h, 4 h, 8 h, 12 h, 24 h and 48 h post NO 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