Strain identifier

BacDive ID: 15

Type strain: Yes

Species: Acetobacter cibinongensis

Strain Designation: 4H-1

Strain history: CIP <- 2002, JCM <- 2001, NRIC <- P. Lisdiyanti: strain 4H-1

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General

@ref: 5995

BacDive-ID: 15

DSM-Number: 15549

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, Gram-negative

description: Acetobacter cibinongensis 4H-1 is an obligate aerobe, Gram-negative bacterium that was isolated from fruit of montain soursop, Annona montanae.

NCBI tax id

NCBI tax idMatching level
146475species
1307904strain

strain history

@refhistory
5995<- IFO
67770NRIC 0482 <-- P. Lisdiyanti 4H-1.
118275CIP <- 2002, JCM <- 2001, NRIC <- P. Lisdiyanti: strain 4H-1

doi: 10.13145/bacdive15.20240510.9

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Acetobacteraceae
  • genus: Acetobacter
  • species: Acetobacter cibinongensis
  • full scientific name: Acetobacter cibinongensis Lisdiyanti et al. 2002

@ref: 5995

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Acetobacter

species: Acetobacter cibinongensis

full scientific name: Acetobacter cibinongensis Lisdiyanti et al. 2002

strain designation: 4H-1

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative97.834
118275negativeoval-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5995ACETIC ACID BACTERIUM MEDIUM (DSMZ Medium 989)yeshttps://mediadive.dsmz.de/medium/989Name: ACETIC ACID BACTERIUM MEDIUM (DSMZ Medium 989) Composition: Agar 15.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Bacto peptone 5.0 g/l MgSO4 x 7 H2O 1.0 g/l Distilled water
40567MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
118275CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperature
5995positivegrowth30
40567positivegrowth30
67770positivegrowth30
118275positivegrowth22-41
118275nogrowth10
118275nogrowth45

Physiology and metabolism

oxygen tolerance

  • @ref: 118275
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 95.069

halophily

@refsaltgrowthtested relationconcentration
118275NaClpositivegrowth0 %
118275NaClnogrowth2 %
118275NaClnogrowth4 %
118275NaClnogrowth6 %
118275NaClnogrowth8 %
118275NaClnogrowth10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
118275606565hippurate-hydrolysis
11827517632nitrate-reduction
11827516301nitrite-reduction

antibiotic resistance

  • @ref: 118275
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 118275
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
118275oxidase-
118275beta-galactosidase-3.2.1.23
118275gelatinase-
118275catalase+1.11.1.6
118275gamma-glutamyltransferase+2.3.2.2
118275urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118275--+--+----+---------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118275-----------------------------------------------------+--------+--+---------+----------+------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentisolation date
5995fruit of montain soursop, Annona montanaeAnnona montanaeIndonesiaIDNAsia
67770Mountain soursop (Annona montanae)Annona montanaeIndonesiaIDNAsia
118275Mountain soursopIndonesiaIDNAsia1996

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body-Site#Plant#Fruit (Seed)

taxonmaps

  • @ref: 69479
  • File name: preview.99_5944.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_152;97_827;98_961;99_5944&stattab=map
  • Last taxonomy: Acetobacter
  • 16S sequence: AB681085
  • Sequence Identity:
  • Total samples: 107
  • soil counts: 13
  • aquatic counts: 12
  • animal counts: 27
  • plant counts: 55

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
59951Risk group (German classification)
1182751Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Acetobacter cibinongensis gene for 16S rRNA, partial sequence, strain: NBRC 16605AB6810851417nuccore146475
5995Acetobacter cibinongensis gene for 16S ribosomal RNA, strain: 4H-1AB0527101414nuccore146475

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acetobacter cibinongensis 4H-11231339.3wgspatric1307904
66792Acetobacter cibinongensis strain NBRC 16605146475.5wgspatric146475
66792Acetobacter cibinongensis 4H-12901808964draftimg146475
67770Acetobacter cibinongensis 4H-1GCA_000963925contigncbi146475
67770Acetobacter cibinongensis NBRC 16605GCA_007989305contigncbi146475

GC content

  • @ref: 67770
  • GC-content: 54.5
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno69.155no
gram-positiveno97.834no
anaerobicno98.924no
aerobicyes87.208no
halophileno92.4no
spore-formingno95.069no
thermophileno97.07no
glucose-utilyes84.004no
flagellatedno95.204no
glucose-fermentno88.79no

External links

@ref: 5995

culture collection no.: DSM 15549, IFO 16605, JCM 11196, NBRC 16605, NRIC 0482, CIP 107380

straininfo link

  • @ref: 69699
  • straininfo: 265203

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5995Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15549)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15549
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
40567Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4809
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/
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)
69699Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID265203.1StrainInfo: A central database for resolving microbial strain identifiers
118275Curators of the CIPCollection of Institut Pasteur (CIP 107380)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107380