Dataset Information

Acetylation of Diverse Bacteria

ABSTRACT: 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.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Stigmatella Aurantiaca (strain Dw4/3-1) Bifidobacterium Bifidum Dsm 20456 = Jcm 1255 Legionella Pneumophila Streptococcus Agalactiae Chryseobacterium Indologenes Streptomyces Sp. Cellulophaga Baltica 18 Citrobacter Freundii Alcaligenes Faecalis Bacillus Subtilis Subsp. Subtilis Str. 168 Francisella Tularensis Subsp. Novicida (strain U112) Delftia Acidovorans (strain Dsm 14801 / Sph-1) Faecalibacterium Prausnitzii Sl3/3 Cupriavidus Necator (strain Atcc 43291 / Dsm 13513 / N-1) (ralstonia Eutropha) Bacteria Bacteroides Fragilis (strain 638r) Coprococcus Comes Atcc 27758 Pseudomonas Putida Kt2440 Bacteroides Thetaiotaomicron (strain Atcc 29148 / Dsm 2079 / Nctc 10582 / E50 / Vpi-5482) Fibrobacter Succinogenes Subsp. Succinogenes S85 Rhodococcus Sp. (strain Rha1) Lactobacillus Casei Subsp. Casei Atcc 393 Bacillus Subtilis Subsp. Subtilis Str. Ncib 3610 Cellvibrio Gilvus (strain Atcc 13127 / Nrrl B-14078) Bifidobacterium Longum Subsp. Infantis (strain Atcc 15697 / Dsm 20088 / Jcm 1222 / Nctc 11817 / S12) Campylobacter Jejuni Synechococcus Elongatus (strain Pcc 7942) (anacystis Nidulans R2) Prevotella Ruminicola (strain Atcc 19189 / Jcm 8958 / 23) Cyanobacterium Stanieri Unclassified Bacteria Paracoccus Denitrificans Micrococcus Luteus (micrococcus Lysodeikticus) Ruminococcus Gnavus Atcc 29149 Bacillus Cereus (strain Atcc 14579 / Dsm 31) Myxococcus Xanthus Dz2 Rhizobium Radiobacter (agrobacterium Tumefaciens) (agrobacterium Radiobacter) Sulfobacillus Thermosulfidooxidans Algoriphagus Marincola Hl-49 Rhodopseudomonas Palustris Streptomyces Griseorubens Acidiphilium Cryptum (strain Jf-5) Anaerococcus Hydrogenalis Dsm 7454 Mycobacterium Smegmatis Dorea Longicatena Dsm 13814 Paenibacillus Polymyxa Atcc 842

SUBMITTER: Matthew Monroe

LAB HEAD: Samuel H Payne

PROVIDER: PXD005851 | Pride | 2017-10-17

REPOSITORIES: Pride

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			Action	DRS
	Biodiversity_A_cryptum_FeTSB_anaerobic_1_01Jun16_Pippin_16-03-39.mzML.gz	Mzml
	Biodiversity_A_cryptum_FeTSB_anaerobic_1_01Jun16_Pippin_16-03-39.pride.mgf.gz	Mgf
	Biodiversity_A_cryptum_FeTSB_anaerobic_1_01Jun16_Pippin_16-03-39.raw	Raw
	Biodiversity_A_cryptum_FeTSB_anaerobic_1_01Jun16_Pippin_16-03-39_msgfplus.mzid.gz	Mzid
	Biodiversity_A_cryptum_FeTSB_anaerobic_2_01Jun16_Pippin_16-03-39.mzML.gz	Mzml

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Project description:The adult human gut microbial community is typically dominated by two bacterial phyla (divisions), the Firmicutes and the Bacteroidetes. Little is known about the factors that govern the interactions between their members. Here we examine the niches of representatives of both phyla in vivo. Finished genome sequences were generated from E. rectale and E. eligens, which belong to Clostridium Cluster XIVa, one of the most common gut Firmicute clades. Comparison of these and 25 other gut Firmicutes and Bacteroidetes indicated that the former possess smaller genomes and a disproportionately smaller number of glycan-degrading enzymes. Germ-free mice were then colonized with E. rectale and/or a prominent human gut Bacteroidetes, Bacteroides thetaiotaomicron, followed by whole genome transcriptional profiling of both organisms in their distal gut (cecal) habitat as well as host responses, high resolution proteomic analysis of cecal contents, and biochemical assays of carbohydrate metabolism. B. thetaiotaomicron adapts to E. rectale by upregulating expression of a variety of polysaccharide utilization loci (PULs) encoding numerous glycoside hydrolase gene families, and by signaling the host to produce mucosal glycans that it, but not E. rectale, can access. E. rectale adapts to B. thetaiotaomicron by decreasing production of its glycan-degrading enzymes, increasing expression of selected amino acid and sugar transporters, and facilitating glycolysis by reducing levels of NADH, in part via generation of butyrate from acetate, which in turn is utilized by the gut epithelium. This simplified model of the human gut microbiota illustrates niche specialization and functional redundancy within members of major gut bacterial phyla, and the importance of host glycans as a nutrient foundation that ensures ecosystem stability. The interactions between E. rectale and B. thetaiotaomicron were characterized by performing whole genome transcriptional profiling of each species after colonization of gnotobiotic mice with each organism alone, or in combination. E. rectale was also profiled during in vitro growth.

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Acetylation of Diverse Bacteria

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