{"database":"GPMDB","file_versions":[],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":22,"searchCount":5},"additional":{"omics_type":["Other"],"submitter":["Laouami S, et al."],"instrument_platform":["Instrument"],"disease":["Not Available"],"brenda_tissue":["Not available"],"species":["Human, Bacillus_cereus_atcc_14579"],"publication":["25216269"],"submitter_mail":["jean.armengaud@cea.fr"],"model":["http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004039","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004038","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004040","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004042","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004041","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004033","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004043","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004035","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004034","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004037","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004036"],"submitter_affiliation":["Avignon Universite/INRA, SQPOV UMR408, Avignon, France, et al."],"cell_type":["Not available"],"repository":["GPMDB"],"pubmed_abstract":["The facultative anaerobe, Bacillus cereus, causes diarrheal diseases in humans. Its ability to deal with oxygen availability is recognized to be critical for pathogenesis. The B. cereus genome comprises a gene encoding a protein with high similarities to the redox regulator, Rex, which is a central regulator of anaerobic metabolism in Bacillus subtilis and other Gram-positive bacteria. Here, we showed that B. cereus rex is monocistronic and down-regulated in the absence of oxygen. The protein encoded by rex is an authentic Rex transcriptional factor since its DNA binding activity depends on the NADH/NAD+ ratio. Rex deletion compromised the ability of B. cereus to cope with external oxidative stress under anaerobiosis while increasing B. cereus resistance against such stress under aerobiosis. The deletion of rex affects anaerobic fermentative and aerobic respiratory metabolism of B. cereus by decreasing and increasing, respectively, the carbon flux through the NADH-recycling lactate pathway. We compared both the cellular proteome and exoproteome of the wild-type and Δrex cells using a high throughput shotgun label-free quantitation approach and identified proteins that are under control of Rex-mediated regulation. Proteomics data have been deposited to the ProteomeXchange with identifier PXD000886. The data suggest that Rex regulates both the cross-talk between metabolic pathways that produce NADH and NADPH and toxinogenesis, especially in oxic conditions."],"pubmed_title":["Proteomic evidences for rex regulation of metabolism in toxin-producing Bacillus cereus ATCC 14579."],"pubmed_authors":["Laouami Sabrina S,Clair Géremy G,Armengaud Jean J,Duport Catherine C,","Laouami Sabrina S, Clair Géremy G, Armengaud Jean J, Duport Catherine C"],"name_synonyms":["beta-D-xylopyranosyl-(1->4)-beta-D-xylopyranosyl-(1->4)-beta-D-xylopyranose reducing-end xylanase activity, Bacillus cereus (strain ATCC 14579 / DSM 31)., Rex, toxins, regulation of metabolism, regulation of organismal metabolic process, reducing end xylose-releasing exo-oligoxylanase activity, regulation of multicellular organismal metabolic process"],"description_synonyms":["biochemical pathways, Metabolic Process, PLXN5, Slf, Processes, Metabolisms, vif Gene, Somatomedin-C, Metabolic Concepts, Nl1, vif, Gene, FPH2, PLEXIN-B1, A Genes, sor Gene, InChI=1/C, Metabolic Processes, P'-5'-ester with 3-(aminocarbonyl)-1-beta-D-ribofuranosylpyridinium, Bacillus uniflagellatus, SeP, Human, Stresses, InChIKey=OKTJSMMVPCPJKN-UHFFFAOYAS, CEH, Homo sapiens, dioxygene, Oxidative, Carbon-12, Metabolism, Nicotinamide-Adenine, resistance, Concepts, NEPII, NL1, NL2, SEH, Metabolism Concept, Phenomenon, Metabolism Phenomena, Man, SEP, Anaerobic, O=O, A, Coenzyme I, DPN, Adenine Dinucleotide, C, proportion, Man (Taxonomy), Genomes, availability, catabolism, sor Genes, absent from organism, carbon atom, Oxygen-16, Bacillus subtilis8, plasmid binding, Q, somatomedin-C, SF, NADH, Metabolic Concept, Kitl, proteins, metabolic process resulting in cell growth, Mast cell growth factor, sEP, 2-hydroxypropanoate., Kohlenstoff, microtubule/chromatin interaction, Oxidative Stresses, Dihydronicotinamide, IGF1, Vibrio subtilis, Nicotinamide Adenine Dinucleotide, Carbon, Mechano growth factor, SELP, biotransformation, Natto Bacteria, Soluble KIT ligand, Gram Positive Bacteria, Nucleotide, Sl, Catabolism, A Gene, lactate, molecular oxygen, InChI=1/O2/c1-2, inner salt, ratio, incorporation, IGF-I, data, Rex, Anaerobioses, steel factor, structure-specific DNA binding, Dinucleotide, Nadide, Oxygen 16, degradation, Process, hematopoietic growth factor KL, Modern, metabolism resulting in cell growth, somatomedin, O(2), Mell1, sor, Diphosphopyridine Nucleotide, Dihydronicotinamide Adenine, carbone, sKITLG, Anaerobic Metabolism, Concept, Metabolic Phenomena, carbono, polypeptide, epsilon-COP, Vitreous, Metabolism Concepts, MMEL2, mechano growth factor, InChIKey=MYMOFIZGZYHOMD-UHFFFAOYAM, Diseases, reducing end xylose-releasing exo-oligoxylanase activity, Phenomena, structure specific DNA binding, Anaerobic Metabolisms, Igf-1, Q Gene, regulator, metabolism, OXYGEN MOLECULE, Metabolic Phenomenon, Bacillus endorhythmos, Bacillus subtilis var. natto, O2, SHEP7, Disauerstoff, dioxygen, vif Genes, Q Genes, mobilization, multicellular organism metabolic process, Bacillus natto, Dihydronicotinamide Adenine Dinucleotide, Genes, absence, mast cell growth factor, biodegradation, Metabolic, Adenosine 5'-(trihydrogen diphosphate), 6C, Stem cell factor, proportionality, rate, whole genome, STAT5, Bacillus medusa, Bacillus subtilis (natto), turnover, Diphosphopyridine, Carbon 12, Nicotinamide-Adenine Dinucleotide, stem cell factor, Vitreous Carbon, single-organism metabolic process, KL-1, DEL, MGF, Modern Man, c-Kit ligand, Stress, carbonium, Aerobioses, quotient, beta-D-xylopyranosyl-(1->4)-beta-D-xylopyranosyl-(1->4)-beta-D-xylopyranose reducing-end xylanase activity, KITLG, Eph2, virulence, Bacillus globigii, SCF, NEP2, humans, Dioxygen, Anabolism"],"pubmed_title_synonyms":["beta-D-xylopyranosyl-(1->4)-beta-D-xylopyranosyl-(1->4)-beta-D-xylopyranose reducing-end xylanase activity, Bacillus cereus (strain ATCC 14579 / DSM 31)., Rex, toxins, regulation of metabolism, regulation of organismal metabolic process, reducing end xylose-releasing exo-oligoxylanase activity, regulation of multicellular organismal metabolic process"],"pubmed_abstract_synonyms":["biochemical pathways, Metabolic Process, Processes, Metabolisms, vif Gene, Metabolic Concepts, vif, A4, Gene, A Genes, sor Gene, InChI=1/C, Metabolic Processes, P'-5'-ester with 3-(aminocarbonyl)-1-beta-D-ribofuranosylpyridinium, TYPE, Bacillus uniflagellatus, SDR18C1, Human, Stresses, DAGA4, InChIKey=OKTJSMMVPCPJKN-UHFFFAOYAS, Homo sapiens, dioxygene, Oxidative, Carbon-12, Metabolism, Nicotinamide-Adenine, resistance, 2-hydroxypropanoate, Gene Products, Concepts, Metabolism Concept, MAM, Phenomenon, Metabolism Phenomena, SCG3, Man, Anaerobic, O=O, A, Coenzyme I, DPN, Adenine Dinucleotide, C, proportion, Man (Taxonomy), reference sample, Genomes, availability, catabolism, sor Genes, absent from organism, carbon atom, Oxygen-16, Bacillus subtilis8, plasmid binding, Q, 1200012F07Rik, NADH, Metabolic Concept, proteins, metabolic process resulting in cell growth, free, Kohlenstoff, microtubule/chromatin interaction, Oxidative Stresses, Dihydronicotinamide, Vibrio subtilis, Nicotinamide Adenine Dinucleotide, Carbon, biotransformation, Natto Bacteria, Gram Positive Bacteria, Nucleotide, Catabolism, A Gene, lactate, molecular oxygen, InChI=1/O2/c1-2, inner salt, Controlled, ratio, incorporation, Rex, Anaerobioses, Controlling, data, structure-specific DNA binding, Dinucleotide, Nadide, Oxygen 16, degradation, Process, Modern, metabolism resulting in cell growth, Proteins, O(2), sor, Diphosphopyridine Nucleotide, Dihydronicotinamide Adenine, carbone, Cell, Anaerobic Metabolism, LGMD2C, Concept, Metabolic Phenomena, DECR., carbono, polypeptide, epsilon-COP, Vitreous, Metabolism Concepts, InChIKey=MYMOFIZGZYHOMD-UHFFFAOYAM, Protein, Diseases, reducing end xylose-releasing exo-oligoxylanase activity, Phenomena, structure specific DNA binding, Anaerobic Metabolisms, Q Gene, regulator, metabolism, OXYGEN MOLECULE, Metabolic Phenomenon, Bacillus endorhythmos, NADPH, Bacillus subtilis var. natto, O2, Disauerstoff, dioxygen, vif Genes, Q Genes, mobilization, multicellular organism metabolic process, Bacillus natto, Dihydronicotinamide Adenine Dinucleotide, Genes, absence, biodegradation, DMDA1, Metabolic, Adenosine 5'-(trihydrogen diphosphate), 6C, proportionality, Nadph, rate, whole genome, Bacillus medusa, Bacillus subtilis (natto), turnover, Diphosphopyridine, Carbon 12, Nicotinamide-Adenine Dinucleotide, Protein Gene Products, Gene Proteins, Vitreous Carbon, single-organism metabolic process, DMDA, DEL, Modern Man, Stress, carbonium, SCARMD2, Aerobioses, quotient, Decr, beta-D-xylopyranosyl-(1->4)-beta-D-xylopyranosyl-(1->4)-beta-D-xylopyranose reducing-end xylanase activity, virulence, regulation, Bacillus globigii, Proteomes, humans, Dioxygen, Anabolism"],"view_count":["22"],"citation_count":["0"],"search_count":["5"],"full_dataset_link":["http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310004037"],"search_domains":["dbgap_ncbi~0","patentfamilies~0","rfam~0","merops~0","complex-portal~0","uniprot~0","wormbaseparasite~0","embl-covid19~0","reactome~0","emdb~0","wgs_masters~0","ebiweb_resources~0","opentargets_genetics~0","biomodels_all~0","ipd-mhc~0","ebiweb_teams~0","taxonomy~0","genome_assembly~0","sc-experiments~0","ebiweb_people~0","enzymeportal_enzymes~0","ipd-nhkir~0","cellosaurus~0","pdbe~0","chebi~0","patentproteins~0","interpro7~0","uniref~0","chembl~0","pdbekb~0","gpcrdb~0","hgnc~0","sc-genes~0","intact~0","rhea~0","ebiweb_training~0","alphafold~0","imgt-hla~0","patentnucleotides~0","ensemblroot~0","eva_studies~0","non-coding~0","europepmc~0","pubmed~1","identifiers_registry~0","pdbechem~0","hpa-covid19~0","eva-variants-covid19~0","biosamples~0","gwas_catalog~0","biotools~0","tls_masters~0","mesh~0","coding~0","sra~0","opentargets~0","efo~0","embl-pathogen~0","project~0","pride~1","human_diseases~0","geo_datasets~0","embl~0","treefam~0","uniparc~0","ols~0","dgva~0","intenz~0","go~0","tsa_masters~0","biosamples-covid19~0","ebiweb_corporate~0","omim~0","lrg~0","earlycause-molecular-sequences~0","ipd-kir~0","empiar~0","rnacentral~0","orcid_data_claims~0","gpmdb~2","lineage-covid19~0","metagenomics~0","pfam~0","pride archive~1","varsite~0"],"reanalysis_count":["0"],"submitter_keywords":["Resource Reanalysis"],"citation_count_scaled":["0.0"],"reanalysis_count_scaled":["0.0"],"view_count_scaled":["0.006785934608266502"],"download_count_scaled":["0.0"],"normalized_connections":["1.0"],"additional_accession":[]},"is_claimable":false,"name":"Proteomic Evidences for Rex Regulation of Metabolism in Toxin-Producing Bacillus cereus ATCC 14579.","description":"Data from ProteomeXchange, PXD ID: PXD000886. File: F055536.mgf. Published as part of PLoS One. 2014 Sep 12;9(9):e107354  . From the Abstract: {{i}} The facultative anaerobe, Bacillus cereus, causes diarrheal diseases in humans. Its ability to deal with oxygen availability is recognized to be critical for pathogenesis. The B. cereus genome comprises a gene encoding a protein with high similarities to the redox regulator, Rex, which is a central regulator of anaerobic metabolism in Bacillus subtilis and other Gram-positive bacteria. Here, we showed that B. cereus rex is monocistronic and down-regulated in the absence of oxygen. The protein encoded by rex is an authentic Rex transcriptional factor since its DNA binding activity depends on the NADH/NAD+ ratio. Rex deletion compromised the ability of B. cereus to cope with external oxidative stress under anaerobiosis while increasing B. cereus resistance against such stress under aerobiosis. The deletion of rex affects anaerobic fermentative and aerobic respiratory metabolism of B. cereus by decreasing and increasing, respectively, the carbon flux through the NADH-recycling lactate pathway. {{/i}}","dates":{"submission":"2014-09-25"},"accession":"GPM32310004037","cross_references":{"pubmed":["25216269"],"Pride":["PXD000886"],"pride":[],"Pride Archive":["PXD000886"]}}