Datapunk Opus23 | Pectobacterium

Pectobacterium

RANK: Genus

TAXONOMY: cellular organisms -> Bacteria -> Proteobacteria -> Gammaproteobacteria -> Enterobacteriales -> Enterobacteriaceae -> Pectobacterium

OVERVIEW:

Straight rods, 0.5–1.0 × 1.0–3.0 µm, rounded ends; occur singly or in pairs. Gram-negative. Motile by peritrichous flagella. Fermentative. Facultatively anaerobic. Optimum growth temperature, 27–30°C; maximum temperature for growth is 40°C. Oxidase negative. Catalase positive. Acid is produced from N-acetyl-glucosamine, fructose, d-galactose, d-glucose, d-mannose, l-rhamnose, d-ribose, salicin, and sucrose but not from adonitol, l-arabitol, d-lyxose, α-methylmannoside, l-sorbose, starch, or d-tagatose. Utilize acetate, arbutin, fructose, fumarate, d-galactose, d-glucose, glycerol, malate, d-mannitol, mannose, β-methylglucoside, ribose, salicin, succinate, and sucrose but not adipate, benzoate, betaine, butanol, gallate, methanol, oxalate, propionate, or sorbose as carbon and energy-yielding sources. Utilize l-alanine, allantoin, γ-aminobutanic acid, ammonium chloride, arginine, asparagine, asparaginic acid, citrulline, glucosamine, glutamine, l-glutaminic acid, glutathione, glycine, glycylglycine, histidine, leucine, l-methionine, phenylalanine, l-serine, l-tryptophan, tyrosine, and urea, but not anthranilic acid, betaine, choline, cysteamine, hydroxyproline, kynureninic acid, quinolinic acid, sarcosine, spermidine, spermine, trigonelline, or trimethylammonium as nitrogen sources. No decarboxylases are formed for arginine, lysine or ornithine. Do not possess tryptophan deaminase or urease. Hydrolyze esculin but not starch.

The mol% G + C of the DNA is: 50.5–56.1.

Type species: Pectobacterium carotovorum

TAGS

Keystone	Core species	Type species	Pathogen	Dysbiosis associated	Flora/ commensal	Gut associated	Probiotic
Leanness	Obesity	Skin microbiome	Fecal distribution	Oral microbiome	Vaginal microbiome	Butyrate producer	Catalase producer
Histamine producer	Food fermenter	Amylolytic	Propionate producer	Nitrifying

DESCENDANTS Pectobacterium ST12.14/479 Pectobacterium aroidearum Pectobacterium atrosepticum Pectobacterium betavasculorum Pectobacterium cacticida Pectobacterium carotovorum Pectobacterium endosymbiont of Cicadella viridis Pectobacterium symbiont of Cicadella viridis Pectobacterium symbiont of Pieris brassicae Pectobacterium wasabiae environmental samples	INTERACTIONS ENHANCES Bacteroidales Bacteroides Odoribacter Peptococcaceae INHIBITS Bifidobacterium Coriobacteriales Adlercreutzia Collinsella Porphyromonas Prevotella Clostridium Clostridiales incertae sedis Clostridiales Family XIII. Incertae Sedis Blautia Coprococcus Dorea Lachnospiraceae Ruminococcaceae Ruminococcus Dialister Campylobacteraceae Erysipelotrichaceae	KEGG PATHWAYS 2-Oxocarboxylic acid metabolism ABC transporters Acarbose and validamycin biosynthesis Alanine, aspartate and glutamate metabolism Amino sugar and nucleotide sugar metabolism Aminoacyl-tRNA biosynthesis Aminobenzoate degradation Arachidonic acid metabolism Arginine and proline metabolism Arginine biosynthesis Ascorbate and aldarate metabolism Atrazine degradation Bacterial chemotaxis Bacterial secretion system Base excision repair Benzoate degradation Biosynthesis of amino acids Biosynthesis of antibiotics Biosynthesis of secondary metabolites Biosynthesis of siderophore group nonribosomal peptides Biosynthesis of unsaturated fatty acids Biotin metabolism Butanoate metabolism C5-Branched dibasic acid metabolism Caprolactam degradation Carbapenem biosynthesis Carbon metabolism Cationic antimicrobial peptide (CAMP) resistance Chloroalkane and chloroalkene degradation Chlorocyclohexane and chlorobenzene degradation Citrate cycle (TCA cycle) Cyanoamino acid metabolism Cysteine and methionine metabolism D-Alanine metabolism D-Arginine and D-ornithine metabolism D-Glutamine and D-glutamate metabolism DNA replication Degradation of aromatic compounds Dioxin degradation Ether lipid metabolism Fatty acid biosynthesis Fatty acid degradation Fatty acid metabolism Flagellar assembly Fluorobenzoate degradation Folate biosynthesis Fructose and mannose metabolism Galactose metabolism Geraniol degradation Glutathione metabolism Glycerolipid metabolism Glycerophospholipid metabolism Glycine, serine and threonine metabolism Glycolysis / Gluconeogenesis Glyoxylate and dicarboxylate metabolism Histidine metabolism Homologous recombination Inositol phosphate metabolism Limonene and pinene degradation Linoleic acid metabolism Lipoic acid metabolism Lipopolysaccharide biosynthesis Lysine biosynthesis Lysine degradation Metabolic pathways Methane metabolism Microbial metabolism in diverse environments Mismatch repair Monobactam biosynthesis Naphthalene degradation Nicotinate and nicotinamide metabolism Nitrogen metabolism Nitrotoluene degradation Nonribosomal peptide structures Novobiocin biosynthesis Nucleotide excision repair One carbon pool by folate Other glycan degradation Oxidative phosphorylation Pantothenate and CoA biosynthesis Pentose and glucuronate interconversions Pentose phosphate pathway Peptidoglycan biosynthesis Phenylalanine metabolism Phenylalanine, tyrosine and tryptophan biosynthesis Phosphonate and phosphinate metabolism Phosphotransferase system (PTS) Polyketide sugar unit biosynthesis Porphyrin and chlorophyll metabolism Propanoate metabolism Protein export Purine metabolism Pyrimidine metabolism Pyruvate metabolism Quorum sensing00253 RNA degradation RNA polymerase Riboflavin metabolism Ribosome Secondary bile acid biosynthesis Selenocompound metabolism Sphingolipid metabolism Starch and sucrose metabolism Streptomycin biosynthesis Sulfur metabolism Sulfur relay system Taurine and hypotaurine metabolism Terpenoid backbone biosynthesis Thiamine metabolism Toluene degradation Tryptophan metabolism Two-component system Tyrosine metabolism Ubiquinone and other terpenoid-quinone biosynthesis Valine, leucine and isoleucine biosynthesis Valine, leucine and isoleucine degradation Vancomycin resistance Vitamin B6 metabolism Xylene degradation alpha-Linolenic acid metabolism beta-Alanine metabolism beta-Lactam resistance CLUSTERS WITH	METABOLOMICS NUTRIENTS/ SUBSTRATES D-Glucose Iron supplements [parent] Acetoin [parent] D-Mannitol D-Fructose N-Acetyl-D-glucosamine D-Galactose D-Mannose Succinate Esculin Malate Sucrose ENDPRODUCTS 2,3-Butanediol [parent] INHIBITED BY Pomegranate ellagitannins [parent] ENHANCED BY Aspartame [parent] BIOTRANSFORMS BIOTRANFORM
ANTIBIOTIC RESISTANCE Aminoglycoside (acrb) Glycylcycline (acrb) Macrolide (acrb) Beta lactam (acrb) Acriflavin (acrb) Bacitracin (baca)	BIOFILM FORMERS Pectobacterium atrosepticum Pectobacterium wasabiae Pectobacterium carotovorum	COGEM PATHOGENICITY Pectobacterium atrosepticum (1) Pectobacterium wasabiae (1) Pectobacterium carotovorum (1)

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