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

NCBI tax ID(s): 1307904 (strain), 146475 (species)

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General

@ref: 5995

BacDive-ID: 15

DSM-Number: 15549

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

description: Acetobacter cibinongensis 4H-1 is an obligate aerobe, mesophilic, 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/bacdive15.20230509.8.1

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

  • @ref: 118275
  • gram stain: negative
  • cell shape: oval-shaped
  • motility: no

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

@refgrowthtypetemperaturerange
5995positivegrowth30mesophilic
40567positivegrowth30mesophilic
67770positivegrowth30mesophilic
118275positivegrowth22-41
118275nogrowth10psychrophilic
118275nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 118275
  • oxygen tolerance: obligate aerobe

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 16605AB6810851417ena146475
5995Acetobacter cibinongensis gene for 16S ribosomal RNA, strain: 4H-1AB0527101414ena146475

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
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