Strain identifier

BacDive ID: 13141

Type strain: Yes

Species: Pseudomonas azotoformans

Strain history: CIP <- 2000, IAM <- H. Iizuka & K. Komagata: strain AJ 2173

NCBI tax ID(s): 1215094 (strain), 47878 (species)

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General

@ref: 7752

BacDive-ID: 13141

DSM-Number: 18862

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile

description: Pseudomonas azotoformans DSM 18862 is an aerobe, mesophilic, motile bacterium that was isolated from paddies.

NCBI tax id

NCBI tax idMatching level
1215094strain
47878species

strain history

@refhistory
7752<- IAM
67770K. Komagata KS 0034 <-- AJ 2173 <-- IAM 1603 <-- H. Iizuka and K. Komagata F3.
116693CIP <- 2000, IAM <- H. Iizuka & K. Komagata: strain AJ 2173

doi: 10.13145/bacdive13141.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pseudomonadales
  • family: Pseudomonadaceae
  • genus: Pseudomonas
  • species: Pseudomonas azotoformans
  • full scientific name: Pseudomonas azotoformans Iizuka and Komagata 1963 (Approved Lists 1980)

@ref: 7752

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas azotoformans

full scientific name: Pseudomonas azotoformans Iizuka and Komagata 1963

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes97.278
69480100negative
116693yesnegativerod-shaped

pigmentation

  • @ref: 116693
  • production: yes
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7752TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
39570MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116693CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7752positivegrowth28mesophilic
39570positivegrowth25mesophilic
45735positivegrowth20-30
67770positivegrowth30mesophilic
116693positivegrowth5-30
116693nogrowth37mesophilic
116693nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
45735aerobe
116693obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.987

halophily

@refsaltgrowthtested relationconcentration
116693NaClpositivegrowth0-6 %
116693NaClnogrowth8 %
116693NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: Q-9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate+assimilation
6836927689decanoate+assimilation
6836924265gluconate+assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol+assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose+assimilation
683695291gelatin+hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine+hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction
11669316947citrate+carbon source
1166934853esculin-hydrolysis
11669317632nitrate+reduction
11669316301nitrite+reduction
11669317632nitrate+respiration

antibiotic resistance

  • @ref: 116693
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11669335581indoleno

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase+3.5.3.6
116693oxidase+
116693beta-galactosidase-3.2.1.23
116693alcohol dehydrogenase-1.1.1.1
116693gelatinase+/-
116693amylase-
116693DNase-
116693caseinase+3.4.21.50
116693catalase+1.11.1.6
116693tween esterase-
116693lecithinase+
116693lipase+
116693lysine decarboxylase-4.1.1.18
116693ornithine decarboxylase-4.1.1.17
116693protease+
116693tryptophan deaminase-
116693urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase+3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116693-+++++++++++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
7752+--+--+-+++++-+++++-+
7752+--+--+-+++++-+++++-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116693+++++--+-----------+++----+++--+++--++-++--+++-+++++-++++-+++-+++-----++++-+++-++++++++++++++++++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
7752paddiesJapanJPNAsia
45735Japanese unhulled riceJapanJPNAsiaTokyo
116693Food, Japanese unhulled rice

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Field
#Host#Plants#Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_199.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_98;99_199&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: D84009
  • Sequence Identity:
  • Total samples: 8172
  • soil counts: 874
  • aquatic counts: 1631
  • animal counts: 3216
  • plant counts: 2451

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
77521Risk group (German classification)
1166931Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
7752Pseudomonas azotoformans 16S rRNA gene, complete sequenceD840091522ena47878
67770Pseudomonas azotoformans gene for 16S rRNA, partial sequence, strain: NBRC 12693AB6803221462ena47878

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas azotoformans LMG 21611GCA_900103345chromosomencbi47878
66792Pseudomonas azotoformans NBRC 12693 strain NBRC 126931215094.4wgspatric1215094
66792Pseudomonas azotoformans strain DSM 1886247878.17wgspatric47878
66792Pseudomonas azotoformans strain LMG 2161147878.14wgspatric47878
66792Pseudomonas azotoformans strain LMG 2161147878.15completepatric47878
66792Pseudomonas azotoformans LMG 216112636416017draftimg47878
66792Pseudomonas azotoformans LMG 216112917113043draftimg47878
66792Pseudomonas azotoformans DSM 188622917196912draftimg47878
67770Pseudomonas azotoformans NBRC 12693GCA_002091515contigncbi1215094
67770Pseudomonas azotoformans LMG 21611GCA_001870415contigncbi47878
67770Pseudomonas azotoformans DSM 18862GCA_001983205contigncbi47878
67770Pseudomonas azotoformans NCTC11032GCA_900624915contigncbi47878

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.093no
anaerobicno98.481no
halophileno91.291no
spore-formingno95.974no
glucose-utilyes94.552yes
aerobicyes94.698yes
thermophileno99.898no
motileyes90.444no
flagellatedyes75.968no
glucose-fermentno88.196no

External links

@ref: 7752

culture collection no.: DSM 18862, IAM 1603, CCUG 12536, JCM 2777, CIP 106744, IFO 12693, AJ 2173, CGMCC 1.1792, LMG 21611, NBRC 12693

straininfo link

  • @ref: 82349
  • straininfo: 56505

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism15066172S-stereoselective piperazine-2-tert-butylcarboxamide hydrolase from Pseudomonas azotoformans IAM 1603 is a novel L-amino acid amidase.Komeda H, Harada H, Washika S, Sakamoto T, Ueda M, Asano YEur J Biochem10.1111/j.1432-1033.2004.04056.x2004Amides/chemistry/*metabolism, Amidohydrolases/chemistry/genetics/*metabolism, Amino Acid Sequence, Amino Acids/chemistry/metabolism, Escherichia coli/cytology/metabolism, Hydrolases/chemistry/genetics/*metabolism, Hydrolysis, Molecular Sequence Data, Mycobacterium/enzymology/genetics, Ochrobactrum anthropi/enzymology, Piperazines/chemistry/*metabolism, Proline/*analogs & derivatives/metabolism, Pseudomonas/*enzymology/genetics, Pseudomonas putida/enzymology, Recombinant Proteins/chemistry/genetics/metabolism, Sequence Alignment, Stereoisomerism, Substrate SpecificityEnzymology
Enzymology17586677New enzymatic method of chiral amino acid synthesis by dynamic kinetic resolution of amino acid amides: use of stereoselective amino acid amidases in the presence of alpha-amino-epsilon-caprolactam racemase.Yamaguchi S, Komeda H, Asano YAppl Environ Microbiol10.1128/AEM.00807-072007Achromobacter/enzymology, Amides/chemistry/*metabolism, Amidohydrolases/*metabolism, Amino Acid Isomerases/*metabolism, Amino Acids/chemistry/*metabolism, Aminopeptidases/metabolism, Kinetics, Molecular Structure, Ochrobactrum anthropi/enzymology, Pseudomonas/enzymology, Stereoisomerism, TemperatureMetabolism
Phylogeny20232682Isolation, identification and characterization of a new lipolytic pseudomonas sp., strain AHD-1, from Tunisian soil.Fendri I, Chaari A, Dhouib A, Jlassi B, Abousalham A, Carriere F, Sayadi S, Abdelkafi SEnviron Technol10.1080/095933309033699942010Lipid Metabolism/*physiology, Lipolysis/*physiology, Pseudomonas/*classification/isolation & purification/*physiology, *Soil Microbiology, Species Specificity, TunisiaMetabolism
Phylogeny28141500Pseudomonas lactis sp. nov. and Pseudomonas paralactis sp. nov., isolated from bovine raw milk.von Neubeck M, Huptas C, Gluck C, Krewinkel M, Stoeckel M, Stressler T, Fischer L, Hinrichs J, Scherer S, Wenning MInt J Syst Evol Microbiol10.1099/ijsem.0.0018362017Animals, Bacterial Typing Techniques, Base Composition, Cattle, DNA, Bacterial/genetics, Fatty Acids/chemistry, Milk/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pseudomonas/*classification/genetics/isolation & purification, Quinones/chemistry, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome
Phylogeny31922466Pseudomonas carnis sp. nov., isolated from meat.Lick S, Krockel L, Wibberg D, Winkler A, Blom J, Bantleon A, Goesmann A, Kalinowski JInt J Syst Evol Microbiol10.1099/ijsem.0.0039282020Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Food Microbiology, Genes, Bacterial, Germany, Meat/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Poultry, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Swine, Ubiquinone/chemistryBiotechnology

Reference

@idauthorscataloguedoi/urltitle
7752Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18862)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18862
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
39570Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18908
45735Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 12536)https://www.ccug.se/strain?id=12536
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
82349Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID56505.1StrainInfo: A central database for resolving microbial strain identifiers
116693Curators of the CIPCollection of Institut Pasteur (CIP 106744)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106744