Strain identifier
BacDive ID: 13141
Type strain:
Species: Pseudomonas azotoformans
Strain history: CIP <- 2000, IAM <- H. Iizuka & K. Komagata: strain AJ 2173
NCBI tax ID(s): 1215094 (strain), 47878 (species)
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 id | Matching level |
---|---|
1215094 | strain |
47878 | species |
strain history
@ref | history |
---|---|
7752 | <- IAM |
67770 | K. Komagata KS 0034 <-- AJ 2173 <-- IAM 1603 <-- H. Iizuka and K. Komagata F3. |
116693 | CIP <- 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
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 97.278 | ||
69480 | 100 | negative | ||
116693 | yes | negative | rod-shaped |
pigmentation
- @ref: 116693
- production: yes
- name: Pyocyanin
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7752 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
39570 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
116693 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7752 | positive | growth | 28 | mesophilic |
39570 | positive | growth | 25 | mesophilic |
45735 | positive | growth | 20-30 | |
67770 | positive | growth | 30 | mesophilic |
116693 | positive | growth | 5-30 | |
116693 | no | growth | 37 | mesophilic |
116693 | no | growth | 41 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
45735 | aerobe |
116693 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.987 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
116693 | NaCl | positive | growth | 0-6 % |
116693 | NaCl | no | growth | 8 % |
116693 | NaCl | no | growth | 10 % |
observation
- @ref: 67770
- observation: quinones: Q-9
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68369 | 25115 | malate | + | assimilation |
68369 | 17128 | adipate | + | assimilation |
68369 | 27689 | decanoate | + | assimilation |
68369 | 24265 | gluconate | + | assimilation |
68369 | 17306 | maltose | - | assimilation |
68369 | 59640 | N-acetylglucosamine | + | assimilation |
68369 | 16899 | D-mannitol | + | assimilation |
68369 | 16024 | D-mannose | + | assimilation |
68369 | 30849 | L-arabinose | + | assimilation |
68369 | 17634 | D-glucose | + | assimilation |
68369 | 5291 | gelatin | + | hydrolysis |
68369 | 4853 | esculin | - | hydrolysis |
68369 | 16199 | urea | - | hydrolysis |
68369 | 29016 | arginine | + | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | + | reduction |
116693 | 16947 | citrate | + | carbon source |
116693 | 4853 | esculin | - | hydrolysis |
116693 | 17632 | nitrate | + | reduction |
116693 | 16301 | nitrite | + | reduction |
116693 | 17632 | nitrate | + | 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
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68369 | 35581 | indole | no |
116693 | 35581 | indole | no |
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68369 | cytochrome oxidase | + | 1.9.3.1 |
68369 | gelatinase | + | |
68369 | beta-glucosidase | - | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | + | 3.5.3.6 |
116693 | oxidase | + | |
116693 | beta-galactosidase | - | 3.2.1.23 |
116693 | alcohol dehydrogenase | - | 1.1.1.1 |
116693 | gelatinase | +/- | |
116693 | amylase | - | |
116693 | DNase | - | |
116693 | caseinase | + | 3.4.21.50 |
116693 | catalase | + | 1.11.1.6 |
116693 | tween esterase | - | |
116693 | lecithinase | + | |
116693 | lipase | + | |
116693 | lysine decarboxylase | - | 4.1.1.18 |
116693 | ornithine decarboxylase | - | 4.1.1.17 |
116693 | protease | + | |
116693 | tryptophan deaminase | - | |
116693 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | + | |
68382 | cystine arylamidase | + | 3.4.11.3 |
68382 | trypsin | + | 3.4.21.4 |
68382 | alpha-chymotrypsin | + | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116693 | - | + | + | + | + | + | + | + | + | + | + | + | - | - | - | - | - | - | - | - |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
7752 | + | - | - | + | - | - | + | - | + | + | + | + | + | - | + | + | + | + | + | - | + |
7752 | + | - | - | + | - | - | + | - | + | + | + | + | + | - | + | + | + | + | + | - | + |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116693 | + | + | + | + | + | - | - | + | - | - | - | - | - | - | - | - | - | - | - | + | + | + | - | - | - | - | + | + | + | - | - | + | + | + | - | - | + | + | - | + | + | - | - | + | + | + | - | + | + | + | + | + | - | + | + | + | + | - | + | + | + | - | + | + | + | - | - | - | - | - | + | + | + | + | - | + | + | + | - | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | geographic location |
---|---|---|---|---|---|
7752 | paddies | Japan | JPN | Asia | |
45735 | Japanese unhulled rice | Japan | JPN | Asia | Tokyo |
116693 | Food, Japanese unhulled rice |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | biosafety level | biosafety level comment |
---|---|---|
7752 | 1 | Risk group (German classification) |
116693 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
7752 | Pseudomonas azotoformans 16S rRNA gene, complete sequence | D84009 | 1522 | ena | 47878 |
67770 | Pseudomonas azotoformans gene for 16S rRNA, partial sequence, strain: NBRC 12693 | AB680322 | 1462 | ena | 47878 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Pseudomonas azotoformans LMG 21611 | GCA_900103345 | chromosome | ncbi | 47878 |
66792 | Pseudomonas azotoformans NBRC 12693 strain NBRC 12693 | 1215094.4 | wgs | patric | 1215094 |
66792 | Pseudomonas azotoformans strain DSM 18862 | 47878.17 | wgs | patric | 47878 |
66792 | Pseudomonas azotoformans strain LMG 21611 | 47878.14 | wgs | patric | 47878 |
66792 | Pseudomonas azotoformans strain LMG 21611 | 47878.15 | complete | patric | 47878 |
66792 | Pseudomonas azotoformans LMG 21611 | 2636416017 | draft | img | 47878 |
66792 | Pseudomonas azotoformans LMG 21611 | 2917113043 | draft | img | 47878 |
66792 | Pseudomonas azotoformans DSM 18862 | 2917196912 | draft | img | 47878 |
67770 | Pseudomonas azotoformans NBRC 12693 | GCA_002091515 | contig | ncbi | 1215094 |
67770 | Pseudomonas azotoformans LMG 21611 | GCA_001870415 | contig | ncbi | 47878 |
67770 | Pseudomonas azotoformans DSM 18862 | GCA_001983205 | contig | ncbi | 47878 |
67770 | Pseudomonas azotoformans NCTC11032 | GCA_900624915 | contig | ncbi | 47878 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
gram-positive | no | 98.093 | no |
anaerobic | no | 98.481 | no |
halophile | no | 91.291 | no |
spore-forming | no | 95.974 | no |
glucose-util | yes | 94.552 | yes |
aerobic | yes | 94.698 | yes |
thermophile | no | 99.898 | no |
motile | yes | 90.444 | no |
flagellated | yes | 75.968 | no |
glucose-ferment | no | 88.196 | no |
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
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Metabolism | 15066172 | S-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 Y | Eur J Biochem | 10.1111/j.1432-1033.2004.04056.x | 2004 | Amides/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 Specificity | Enzymology |
Enzymology | 17586677 | New 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 Y | Appl Environ Microbiol | 10.1128/AEM.00807-07 | 2007 | Achromobacter/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, Temperature | Metabolism |
Phylogeny | 20232682 | Isolation, 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 S | Environ Technol | 10.1080/09593330903369994 | 2010 | Lipid Metabolism/*physiology, Lipolysis/*physiology, Pseudomonas/*classification/isolation & purification/*physiology, *Soil Microbiology, Species Specificity, Tunisia | Metabolism |
Phylogeny | 28141500 | Pseudomonas 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 M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001836 | 2017 | Animals, 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, DNA | Transcriptome |
Phylogeny | 31922466 | Pseudomonas carnis sp. nov., isolated from meat. | Lick S, Krockel L, Wibberg D, Winkler A, Blom J, Bantleon A, Goesmann A, Kalinowski J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003928 | 2020 | Animals, 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/chemistry | Biotechnology |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
7752 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18862) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18862 | |
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
39570 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/18908 | ||
45735 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 12536) | https://www.ccug.se/strain?id=12536 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
68369 | Automatically annotated from API 20NE | |||
68382 | Automatically annotated from API zym | |||
69479 | João 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 | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
82349 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID56505.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
116693 | Curators of the CIP | Collection of Institut Pasteur (CIP 106744) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106744 |