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We sampled global bottom up proteomics data from 48 diverse bacteria and searched for sites of lysine acetylation. Bacteria came from 6 phyla: proteobacteria, cyanobacteria, firmicutes, bacteroidetes, actinobacteria, and fibrobacteres.
ORGANISM(S): Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482) Myxococcus xanthus DZ2 Faecalibacterium prausnitzii SL3/3 Cellulophaga baltica 18 Streptomyces sp. Bacteroides fragilis (strain 638R) Francisella tularensis subsp. novicida (strain U112) Chryseobacterium indologenes Algoriphagus marincola HL-49 Cyanobacterium stanieri Dorea longicatena DSM 13814 Rhodopseudomonas palustris Bacillus subtilis subsp. subtilis str. NCIB 3610 Acidiphilium cryptum (strain JF-5) Cellvibrio gilvus (strain ATCC 13127 / NRRL B-14078) Rhizobium radiobacter (Agrobacterium tumefaciens) (Agrobacterium radiobacter) Sulfobacillus thermosulfidooxidans unclassified Bacteria Rhodococcus sp. (strain RHA1) Bacillus subtilis subsp. subtilis str. 168 Fibrobacter succinogenes subsp. succinogenes S85 Micrococcus luteus (Micrococcus lysodeikticus) Cupriavidus necator (strain ATCC 43291 / DSM 13513 / N-1) (Ralstonia eutropha) Streptomyces griseorubens Campylobacter jejuni Legionella pneumophila Streptococcus agalactiae Mycobacterium smegmatis Paracoccus denitrificans bacteria Alcaligenes faecalis Citrobacter freundii Stigmatella aurantiaca (strain DW4/3-1) Bifidobacterium bifidum DSM 20456 = JCM 1255 bacteria Pseudomonas putida KT2440 Coprococcus comes ATCC 27758 Ruminococcus gnavus ATCC 29149 bacteria Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2) Bacillus cereus (strain ATCC 14579 / DSM 31) Paenibacillus polymyxa ATCC 842 Prevotella ruminicola (strain ATCC 19189 / JCM 8958 / 23) Bifidobacterium longum subsp. infantis (strain ATCC 15697 / DSM 20088 / JCM 1222 / NCTC 11817 / S12) Anaerococcus hydrogenalis DSM 7454 Delftia acidovorans (strain DSM 14801 / SPH-1) Lactobacillus casei subsp. casei ATCC 393
A collection of MS/MS data 112 microbial species. #BiodiversityLibrary
ORGANISM(S): Pseudonocardia Sp. (ncbitaxon:60912) Bacillus Anthracis Str. Ames (ncbitaxon:198094) Caulobacter Crescentus Cb15 (ncbitaxon:190650) Opitutaceae Bacterium Tav5 (ncbitaxon:794903) Enterobacter Cloacae Scf1 (ncbitaxon:701347) Heliobacterium Modesticaldum (ncbitaxon:35701) Salmonella Enterica Subsp. Enterica Serovar Typhimurium Str. 14028s (ncbitaxon:588858) Bacillus Subtilis Subsp. Subtilis Str. 168 (ncbitaxon:224308) Shewanella Sp. Ana-3 (ncbitaxon:94122) Sinorhizobium Meliloti 1021 (ncbitaxon:266834) Cyanothece Sp. Atcc 51142 (ncbitaxon:43989) Escherichia Coli Bl21 (ncbitaxon:511693) Diplosphaera Colitermitum Tav2 (ncbitaxon:278957) Anaplasma Phagocytophilum (ncbitaxon:948) Chloroflexus Aurantiacus (ncbitaxon:1108) Yersinia Pestis Co92 (ncbitaxon:214092) Yersinia Pseudotuberculosis Ip 32953 (ncbitaxon:273123) Syntrophobacter Fumaroxidans (ncbitaxon:119484) Saccharomonospora Viridis Dsm 43017 (ncbitaxon:471857) Brachybacterium Faecium Dsm 4810 (ncbitaxon:446465) Cenarchaeum Symbiosum (ncbitaxon:46770) Chloracidobacterium Thermophilum (ncbitaxon:458033) Acidiphilium Cryptum Jf-5 (ncbitaxon:349163) Geobacter Sulfurreducens Pca (ncbitaxon:243231) Nakamurella Multipartita Dsm 44233 (ncbitaxon:479431) Sulfolobus Acidocaldarius Dsm 639 (ncbitaxon:330779) Desulfovibrio Desulfuricans Nd132 (ncbitaxon:641491) Haloferax Volcanii (ncbitaxon:2246) Synechococcus Sp. Pcc 7002 (ncbitaxon:32049) Fibrobacter Succinogenes Subsp. Succinogenes S85 (ncbitaxon:59374) Sinorhizobium Medicae (ncbitaxon:110321) Deinococcus Radiodurans R1 (ncbitaxon:243230) Shewanella Sp. Mr-7 (ncbitaxon:60481) Cellulomonas Flavigena Dsm 20109 (ncbitaxon:446466) Mycobacterium Tuberculosis H37rv (ncbitaxon:83332) Chlorobaculum Tepidum (ncbitaxon:1097) Kosmotoga Olearia Tbf 19.5.1 (ncbitaxon:521045) Shewanella Frigidimarina Ncimb 400 (ncbitaxon:318167) Shewanella Putrefaciens 200 (ncbitaxon:399804) Prochlorococcus Marinus Subsp. Pastoris Str. Ccmp1986 (ncbitaxon:59919) Shewanella Baltica Os185 (ncbitaxon:402882) Hungateiclostridium Thermocellum (ncbitaxon:1515) Thiocapsa Marina (ncbitaxon:244573) Burkholderia Mallei (ncbitaxon:13373) Thermotoga Maritima (ncbitaxon:2336) Novosphingobium Aromaticivorans (ncbitaxon:48935) Arthrobacter Sp. Fb24 (ncbitaxon:290399) Salmonella Enterica Subsp. Enterica Serovar Typhimurium Str. Lt2 (ncbitaxon:99287) Xylanimonas Cellulosilytica Dsm 15894 (ncbitaxon:446471) Halorhabdus Utahensis Dsm 12940 (ncbitaxon:519442) Yersinia Enterocolitica (ncbitaxon:630) Thermosynechococcus Elongatus Bp-1 (ncbitaxon:197221) Geobacter Bemidjiensis Bem (ncbitaxon:404380) Kineococcus Radiotolerans Srs30216 (ncbitaxon:266940) Shewanella Oneidensis Mr-1 (ncbitaxon:211586) Delta Proteobacterium Naphs2 (ncbitaxon:88274) Desulfovibrio Vulgaris Str. Hildenborough (ncbitaxon:882) Ralstonia Pickettii (ncbitaxon:329) Ehrlichia Chaffeensis (ncbitaxon:945) Rhodobacter Capsulatus Sb 1003 (ncbitaxon:272942) Escherichia Coli Str. K-12 Substr. Mg1655 (ncbitaxon:511145) Rhodobacter Sphaeroides 2.4.1 (ncbitaxon:272943) Halogeometricum Borinquense Dsm 11551 (ncbitaxon:469382) Anabaena Variabilis (ncbitaxon:1172) Bartonella Henselae Str. Houston-1 (ncbitaxon:283166) Dethiosulfovibrio Peptidovorans Dsm 11002 (ncbitaxon:469381) Synechocystis Sp. Pcc 6803 (ncbitaxon:1148) Shewanella Loihica Pv-4 (ncbitaxon:323850) Geobacter Metallireducens Gs-15 (ncbitaxon:269799) Shewanella Baltica Os195 (ncbitaxon:399599) Roseiflexus Castenholzii (ncbitaxon:120962) Opitutaceae Bacterium Tav1 (ncbitaxon:278956) Borrelia Burgdorferi B31 (ncbitaxon:224326) Pseudomonas Aeruginosa Pao1 (ncbitaxon:208964) Sanguibacter Keddieii Dsm 10542 (ncbitaxon:446469) Methanosarcina Barkeri (ncbitaxon:2208) Thermosynechococcus Sp. Nk55a Slackia Heliotrinireducens Dsm 20476 (ncbitaxon:471855) Cyanothece Sp. Pcc 7822 (ncbitaxon:497965) Thermobispora Bispora Dsm 43833 (ncbitaxon:469371) Rhodopseudomonas Palustris (ncbitaxon:1076) Cyanothece Sp. Pcc 8801 (ncbitaxon:41431) Cyanothece Sp. Pcc 7424 (ncbitaxon:65393) Desulfovibrio Desulfuricans (ncbitaxon:876) Escherichia Coli Rk4353 Shewanella Putrefaciens Cn-32 (ncbitaxon:319224) Yersinia Pestis Kim10+ (ncbitaxon:187410) Candidatus Pelagibacter Ubique Htcc1062 (ncbitaxon:335992) Methanospirillum Hungatei Jf-1 (ncbitaxon:323259) Cyanothece Sp. Atcc 51472 (ncbitaxon:860575) Shewanella Sp. W3-18-1 (ncbitaxon:351745) Stackebrandtia Nassauensis Dsm 44728 (ncbitaxon:446470) Cyanothece Sp. Pcc 8802 (ncbitaxon:395962) Cryptobacterium Curtum Dsm 15641 (ncbitaxon:469378) Shewanella Amazonensis Sb2b (ncbitaxon:326297) Nocardiopsis Dassonvillei Subsp. Dassonvillei Dsm 43111 (ncbitaxon:446468) Dehalococcoides Ethenogenes 195 (ncbitaxon:243164) Shewanella Denitrificans Os217 (ncbitaxon:318161) Anaeromyxobacter Dehalogenans (ncbitaxon:161493) Actinosynnema Mirum Dsm 43827 (ncbitaxon:446462) Shewanella Baltica Os223 (ncbitaxon:407976) Geobacter Uraniireducens (ncbitaxon:351604) Pseudomonas Fluorescens Pf0-1 (ncbitaxon:205922) Pelobacter Carbinolicus Dsm 2380 (ncbitaxon:338963) Salmonella Enterica Subsp. Enterica Serovar Typhi Str. Ty2 (ncbitaxon:209261) Bacillus Anthracis Str. Sterne (ncbitaxon:260799) Yersinia Pseudotuberculosis Pb1/+ (ncbitaxon:502801) Methylophilales Bacterium Htcc2181 (ncbitaxon:383631) Shewanella Sp. Mr-4 (ncbitaxon:60480) Shewanella Baltica Os155 (ncbitaxon:325240) Cyanothece Sp. Pcc 7425 (ncbitaxon:395961)
abundance based on Spectral counting, MS/MS data, Interaction consistency score: 16.7, Coverage: 66
ORGANISM(S): 3702
ORGANISM(S): Homo Sapiens (ncbitaxon:9606)
A natural way to benchmark the performance of an analytical experimental setup is to use samples of known content, and see to what degree one can correctly infer the content of such a sample from the data. For shotgun proteomics, one of the inherent problems of interpreting data is that the measured...
ORGANISM(S): Escherichia Coli (ncbitaxon:562)
These files are associated with the publication of the LIQUID identification tool for lipid MS/MS spectra.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606)
For the pulse-chase experiment, E. coli BW25113 and its isogenic delta prmA strains were grown in M9 minimal medium and L-Lysine-2HCl (13C6, 15N2) was added to cultures in exponential and stationary phase. The cells were cultured for an additional 2 hr and harvested. Proteins from the wild-type and ...
ORGANISM(S): Escherichia Coli Bw25113 (ncbitaxon:679895)
We generated a protein database directly from soil metaproteomic data by identifying the microbial composition using the Kaiko model's de novo sequencing methods. We first analyzed the mass spectra de novo (without a database), identifying species from the observed peptides. We next gathered full p...
ORGANISM(S): Environmental Samples <bacteria> (ncbitaxon:48479)
Single cell dataset of human motor neurons laser-captured from postmortem ALS and control tissues
(1) ALS Pilot dataset
(2) TDP43 stratified dataset
Summary: Unbiased proteomics has been employed to interrogate central nervous system (CNS) tissues (brain, spinal cord) and fluid matrices (CSF, plas...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606)
Data used for the implementation of a Bayesian Proteoform Quantification model (BP-Quant) that uses statistically derived peptide signatures to identify peptides that are outside the dominant pattern, or the existence of multiple over-expressed patterns to improve relative protein abundance estimate...
ORGANISM(S): Mus Musculus (ncbitaxon:10090)