Strain identifier

BacDive ID: 12866

Type strain: Yes

Species: Pseudomonas mendocina

Strain Designation: CH50, CH 50

Strain history: CIP <- 1975, F. Pichinoty, CNRS, Marseille, France <- R.E. Solanes, Mendoza, Argentina: strain CH 50

NCBI tax ID(s): 1215108 (strain), 300 (species)

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General

@ref: 12606

BacDive-ID: 12866

DSM-Number: 50017

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Pseudomonas mendocina CH50 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil, enrichment with ethanol.

NCBI tax id

NCBI tax idMatching level
1215108strain
300species

strain history

@refhistory
12606<- ATCC; ATCC 25411 <- N. J. Palleroni; CH50
67770Y. Kosako 85008 <-- Nissui Pharm. Co., Ltd. <-- ATCC 25411 <-- N. J. Palleroni CH 50.
120892CIP <- 1975, F. Pichinoty, CNRS, Marseille, France <- R.E. Solanes, Mendoza, Argentina: strain CH 50

doi: 10.13145/bacdive12866.20230509.8.1

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 mendocina
  • full scientific name: Pseudomonas mendocina Palleroni 1970 (Approved Lists 1980)

@ref: 12606

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas mendocina

full scientific name: Pseudomonas mendocina Palleroni 1970

strain designation: CH50, CH 50

type strain: yes

Morphology

cell morphology

  • @ref: 120892
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12606NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
35027MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
120892CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
120892CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
12606positivegrowth30mesophilic
35027positivegrowth30mesophilic
44420positivegrowth30-37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44420aerobe
120892obligate aerobe

compound production

  • @ref: 12606
  • compound: polyhydroxyalkanoic acids

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836927689decanoate+assimilation
6836924265gluconate+assimilation
6836917306maltose-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine+hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
12089217632nitrate+reduction
12089216301nitrite+reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12089235581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase+3.5.3.6
120892oxidase+
120892catalase+1.11.1.6
120892urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase-3.4.11.3
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
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
44420-+++-+----+---------
120892-++++++-+-++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
12606---+--+-+--++-+++++-+
44420+--+----+-----++-++-+
12606+--+----+-----++-++-+

Isolation, sampling and environmental information

isolation

@refsample type
12606soil, enrichment with ethanol
44420Soil enriched with ethanol
67770Soil enrichment with ethanol as carbon source
120892Environment, Soil enriched with ethanol as carbon source

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
126062Risk group (German classification)
1208921Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pseudomonas mendocina strain ATCC 25411 16S ribosomal RNA gene, partial sequenceAF0947341457ena300
20218Pseudomonas mendocina partial 16S rRNA gene, type strain ICMP 13540TAJ3083101349ena300
20218Pseudomonas mendocina 16S ribosomal RNA (16S rRNA) gene, transfer RNA-Ile (tRNA-Ile) gene, transfer RNA-Ala (tRNA-Ala) gene, 23S ribosomal RNA (23S rRNA) geneL28159702ena300
20218Pseudomonas mendocina 16S ribosomal RNA (16S rRNA) gene, transfer RNA-Ile (tRNA-Ile) gene, transfer RNA-Ala (tRNA-Ala) gene, 23S ribosomal RNA (23S rRNA) geneL28160705ena300
20218Pseudomonas mendocina 16S ribosomal RNA (16S rRNA) gene, transfer RNA-Ile (tRNA-Ile) gene, transfer RNA-Ala (tRNA-Ala) gene, 23S ribosomal RNA (23S rRNA) geneL28161705ena300
20218Pseudomonas mendocina 16S ribosomal RNA (16S rRNA) gene, transfer RNA-Ile (tRNA-Ile) gene, transfer RNA-Ala (tRNA-Ala) gene, 23S ribosomal RNA (23S rRNA) geneL28162707ena300
20218Pseudomonas mendocina 16S ribosomal RNAM591541490ena300
20218Pseudomonas mendocina strain BCRC 10458 16S-23S ribosomal RNA intergenic spacer, complete sequenceEU014574516ena300
20218P.mendocina (strain DSM 50017T) 16S rRNA geneZ766741451ena300
20218P.mendocina (strain LMG 1223T) 16S rRNA geneZ766641456ena300
20218Pseudomonas mendocina gene for 16S rRNA, partial sequence, strain: NBRC 14162AB6805701462ena300
20218Pseudomonas mendocina 16S rRNA gene, complete sequenceD840161526ena300

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas mendocina NCTC10897GCA_900636545completencbi300
66792Pseudomonas mendocina NBRC 14162GCA_000813265contigncbi1215108
66792Pseudomonas mendocina NBRC 141621215108.3wgspatric1215108
66792Pseudomonas mendocina strain NCTC10897300.59completepatric300
66792Pseudomonas mendocina NBRC 141622627854063draftimg1215108

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedyes90.451no
gram-positiveno98.889no
anaerobicno97.919yes
aerobicyes94.758yes
halophileno81.768no
spore-formingno95.737no
thermophileno99.741no
glucose-utilyes91.198yes
motileyes90.487no
glucose-fermentno90.851yes

External links

@ref: 12606

culture collection no.: DSM 50017, ATCC 25411, CCUG 1781, CCUG 12440, JCM 5966, BCRC 10458, CCM 3590, CECT 320, CGMCC 1.1804, CIP 75.21, ICPB 3725, IFO 14162, LMG 1223, NBRC 14162, NCIMB 10541, NCTC 10897, VKM B-972, VTT E-99945, IMET 11176

straininfo link

  • @ref: 82078
  • straininfo: 4159

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism12596245Comparison of aspartate transcarbamoylase regulation in Pseudomonas alcaligenes and Pseudomonas mendocina.Santiago MF, West TPJ Basic Microbiol10.1002/jobm.2003900082003Aspartate Carbamoyltransferase/*metabolism, Diphosphates/metabolism, Nucleotides/metabolism, Phosphates/metabolism, Pseudomonas/classification/*enzymologyEnzymology
Phylogeny19126738Pseudomonas tuomuerensis sp. nov., isolated from a bird's nest.Xin YH, Zhang DC, Liu HC, Zhou HL, Zhou YGInt J Syst Evol Microbiol10.1099/ijs.0.000547-02009Animals, Bacterial Typing Techniques, Base Composition, *Birds, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, *Housing, Animal, Nucleic Acid Hybridization, Phenotype, Phylogeny, Pseudomonas/*classification/genetics/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityPhenotype
Phylogeny23918786Pseudomonas guguanensis sp. nov., a gammaproteobacterium isolated from a hot spring.Liu YC, Young LS, Lin SY, Hameed A, Hsu YH, Lai WA, Shen FT, Young CCInt J Syst Evol Microbiol10.1099/ijs.0.047712-02013Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Hot Springs/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Pseudomonas/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan, Ubiquinone/chemistryGenetics
Phylogeny32242797Pseudomonas hydrolytica sp. nov., multiple polymer-degrading bacteria isolated from soil in China.Zhou S, Wang Y, Xia H, Liu D, Chen S, Li FInt J Syst Evol Microbiol10.1099/ijsem.0.0041292020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Forests, Genes, Bacterial, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Polymers, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistryTranscriptome
Phylogeny35059829Arsenic Resistance Mechanisms in Pseudomonas mendocina SMSKVR-3 Strain Isolated from Khetri Copper Mines, Rajasthan, India.Mishra S, Kumar S, Verma SKCurr Microbiol10.1007/s00284-021-02749-62022*Arsenic/analysis, Copper/pharmacology, India, *Pseudomonas mendocina, Siderophores
36526696Class II LitR serves as an effector of "short" LOV-type blue-light photoreceptor in Pseudomonas mendocina.Maruyama T, Sumi S, Kobayashi M, Ebuchi T, Kanesaki Y, Yoshikawa H, Ueda K, Takano HSci Rep10.1038/s41598-022-26254-32022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
12606Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 50017)https://www.dsmz.de/collection/catalogue/details/culture/DSM-50017
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
35027Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/10758
44420Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 1781)https://www.ccug.se/strain?id=1781
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
82078Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID4159.1StrainInfo: A central database for resolving microbial strain identifiers
120892Curators of the CIPCollection of Institut Pasteur (CIP 75.21)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2075.21