Strain identifier

BacDive ID: 8088

Type strain: Yes

Species: Acinetobacter johnsonii

Strain Designation: 3865/60

Strain history: CIP <- 1964, W. Mannheim, Hyg. Inst., Marburg, Germany: strain 3865/60, "Achromobacter metalcaligenes"

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 2924

BacDive-ID: 8088

DSM-Number: 6963

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

description: Acinetobacter johnsonii 3865/60 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from human duodenum.

NCBI tax id

NCBI tax idMatching level
40214species
1217663strain

strain history

@refhistory
2924<- ATCC; ATCC 17909 <- NCTC; NCTC 10308 <- W. Stenzel; 3865/60
421541964, W. Mannheim, Hyg. Inst., Marburg, Germany: strain 3865/60, "Achromobacter metalcaligenes"
120358CIP <- 1964, W. Mannheim, Hyg. Inst., Marburg, Germany: strain 3865/60, "Achromobacter metalcaligenes"

doi: 10.13145/bacdive8088.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pseudomonadales
  • family: Moraxellaceae
  • genus: Acinetobacter
  • species: Acinetobacter johnsonii
  • full scientific name: Acinetobacter johnsonii Bouvet and Grimont 1986

@ref: 2924

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Moraxellaceae

genus: Acinetobacter

species: Acinetobacter johnsonii

full scientific name: Acinetobacter johnsonii Bouvet and Grimont 1986

strain designation: 3865/60

type strain: yes

Morphology

cell morphology

  • @ref: 120358
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

@reftype of hemolysisincubation periodhemolysis ability
2924gamma1-2 days
1203581

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2924NUTRIENT 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
42154MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
2924TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
2924COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
120358CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
2924positivegrowth30mesophilic
42154positivegrowth30mesophilic
46953positivegrowth28-37mesophilic
2924positivegrowth28mesophilic
120358positivegrowth30mesophilic
120358nogrowth10psychrophilic
120358nogrowth25mesophilic
120358nogrowth37mesophilic
120358nogrowth41thermophilic
120358nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
46953aerobe
120358obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
120358NaClpositivegrowth0-4 %
120358NaClnogrowth6 %
120358NaClnogrowth8 %
120358NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
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
12035816947citrate-carbon source
12035817632nitrate+reduction
12035816301nitrite-reduction
12035817234glucose-degradation
12035817632nitrate-respiration
6837418257ornithine-degradation
6837429016arginine-hydrolysis
6837425094lysine-degradation
6837416199urea-hydrolysis
6837418403L-arabitol-builds acid from
6837418024D-galacturonic acid-builds acid from
68374Potassium 5-ketogluconate-builds acid from
6837416899D-mannitol-builds acid from
6837417306maltose-builds acid from
6837415963ribitol-builds acid from
6837418394palatinose-builds acid from
6837415792malonate-assimilation
6837427897tryptophan-energy source
6837417634D-glucose-builds acid from
6837417992sucrose-builds acid from
6837430849L-arabinose-builds acid from
6837418333D-arabitol-builds acid from
6837427082trehalose-builds acid from
6837462345L-rhamnose-builds acid from
6837417268myo-inositol-builds acid from
6837417057cellobiose-builds acid from
6837430911sorbitol-builds acid from

antibiotic resistance

  • @ref: 120358
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6837435581indoleno
6836935581indoleno
12035835581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6837435581indole-
6836935581indole-
12035815688acetoin-
12035817234glucose-

enzymes

@refvalueactivityec
2924catalase+1.11.1.6
2924cytochrome-c oxidase-1.9.3.1
68374L-aspartate arylamidase+3.4.11.21
68374alpha-maltosidase-
68374alpha-galactosidase-3.2.1.22
68374alpha-glucosidase-3.2.1.20
68374beta-galactosidase-3.2.1.23
68374N-acetyl-beta-glucosaminidase-3.2.1.52
68374beta-glucuronidase-3.2.1.31
68374beta-glucosidase-3.2.1.21
68374lipase-
68374urease-3.5.1.5
68374lysine decarboxylase-4.1.1.18
68374arginine dihydrolase-3.5.3.6
68374ornithine decarboxylase-4.1.1.17
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
120358oxidase-
120358beta-galactosidase-3.2.1.23
120358gelatinase-
120358catalase+1.11.1.6
120358gamma-glutamyltransferase-2.3.2.2
120358urease-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
120358-++++++---++------+-

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
2924---------------+-+--+
2924---------------+-----
2924---------------+--+-
2924---------------+-+---

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
46953--------+----------------------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120358-------------------------------------------------+------------+----+-----+-+++--+--------+++++--++-

Isolation, sampling and environmental information

isolation

@refsample type
2924human duodenum
46953Duodenum
120358Human, Duodenum

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Infection#Patient
#Host Body-Site#Gastrointestinal tract#Small intestine

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
29242Risk group (German classification)
1203581Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Acinetobacter johnsonii a6aw 16S ribosomal RNA gene, partial sequenceAF311990496ena40214
20218Acinetobacter johnsonii a6b 16S ribosomal RNA gene, partial sequenceAF311991496ena40214
20218Acinetobacter johnsonii a25 16S ribosomal RNA gene, partial sequenceAF311992493ena40214
20218Acinetobacter johnsonii a39b 16S ribosomal RNA gene, partial sequenceAF311993493ena40214
20218Acinetobacter johnsonii a22 16S ribosomal RNA gene, partial sequenceAF311994489ena40214
20218Acinetobacter johnsonii 16S rRNA gene, partialAJ247202452ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 01HE651868693ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 03HE651869707ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 04HE651870717ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 05HE651871707ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 06HE651872731ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 09HE651873731ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 11HE651874717ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 12HE651875707ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 13HE651876717ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 14HE651877693ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 15HE651878693ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 16HE651879703ena40214
20218Acinetobacter johnsonii genomic DNA containing 16S-23S IGS, strain ATCC 17909, clone 18HE651880717ena40214
20218Acinetobacter johnsonii 16S rRNA gene (strain ATCC 17909T)Z934401417ena40214
2924A.johnsonii 16S rRNA gene (DSM6963)X816631460ena40214
2924Acinetobacter johnsonii 16S rRNA gene, strain ATCC 17909HE6519201530ena40214

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acinetobacter johnsonii DSMZ 6963GCA_000949655contigncbi40214
66792Acinetobacter johnsonii CIP 64.6GCA_000368045scaffoldncbi1217663
66792Acinetobacter johnsonii NCTC10308GCA_900444855contigncbi40214
66792Acinetobacter johnsonii CIP 64.61217663.8wgspatric1217663
66792Acinetobacter johnsonii CIP 64.61217663.3wgspatric1217663
66792Acinetobacter johnsonii strain DSM 696340214.29wgspatric40214
66792Acinetobacter johnsonii strain DSMZ 696340214.15wgspatric40214
66792Acinetobacter johnsonii strain FDAARGOS_91040214.169completepatric40214
66792Acinetobacter johnsonii strain NCTC1030840214.47wgspatric40214
66792Acinetobacter johnsonii CIP 64.62537561556draftimg1217663
66792Acinetobacter johnsonii DSM 69632657245534draftimg40214

GC content

  • @ref: 2924
  • GC-content: 44.0
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno97.901no
anaerobicno97.959yes
halophileno89.098no
spore-formingno97.419no
glucose-utilno90.674no
aerobicyes91.952yes
flagellatedno96.486no
thermophileno99.907yes
motileno92.25no
glucose-fermentno92.116yes

External links

@ref: 2924

culture collection no.: DSM 6963, ATCC 17909, CIP 64.6, NCTC 10308, CCUG 19095, NCTC 12154, LMG 999, NCIMB 12460

straininfo link

  • @ref: 77515
  • straininfo: 389267

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17056692Diverse responses to UV-B radiation and repair mechanisms of bacteria isolated from high-altitude aquatic environments.Fernandez Zenoff V, Sineriz F, Farias MEAppl Environ Microbiol10.1128/AEM.01333-062006Acinetobacter/growth & development/isolation & purification/radiation effects, *Altitude, Colony Count, Microbial, Cytophaga/growth & development/isolation & purification/radiation effects, DNA Damage, *DNA Repair, Ecosystem, Fresh Water/*microbiology, Gram-Negative Bacteria/classification/growth & development/isolation & purification/*radiation effects, Pseudomonas/growth & development/isolation & purification/radiation effects, Radiation Tolerance, Serratia marcescens/isolation & purification/radiation effects, Sunlight, Ultraviolet Rays/*adverse effectsEnzymology
Phylogeny21221930Acinetobacter kyonggiensis sp. nov., a beta-glucosidase-producing bacterium, isolated from sewage treatment plant.Lee HJ, Lee SSJ Microbiol10.1007/s12275-010-0355-82011Acinetobacter/chemistry/*enzymology/genetics/*isolation & purification, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Sewage/*microbiology, Ubiquinone/analysis, Water Purification, beta-Glucosidase/*metabolismEnzymology
Phylogeny23950148Acinetobacter kookii sp. nov., isolated from soil.Choi JY, Ko G, Jheong W, Huys G, Seifert H, Dijkshoorn L, Ko KSInt J Syst Evol Microbiol10.1099/ijs.0.047969-02013Acinetobacter/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Germany, Malaysia, Molecular Sequence Data, Netherlands, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, ThailandGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2924Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6963)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6963
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
42154Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/10105
46953Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 19095)https://www.ccug.se/strain?id=19095
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)
68369Automatically annotated from API 20NE
68374Automatically annotated from API ID32E
68382Automatically annotated from API zym
77515Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID389267.1StrainInfo: A central database for resolving microbial strain identifiers
120358Curators of the CIPCollection of Institut Pasteur (CIP 64.6)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2064.6