Strain identifier

BacDive ID: 14

Type strain: Yes

Species: Acetobacter syzygii

Strain Designation: 9H-2

Strain history: CIP <- 2002, JCM <- 2001, NRIC <- P. Lisdiyanti: strain 9H-2

NCBI tax ID(s): 1307919 (strain), 146476 (species)

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General

@ref: 5994

BacDive-ID: 14

DSM-Number: 15548

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

description: Acetobacter syzygii 9H-2 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from fruit of Malay rose apple, Syzygium malaccense.

NCBI tax id

NCBI tax idMatching level
1307919strain
146476species

strain history

@refhistory
5994<- IFO
67770NRIC 0483 <-- P. Lisdiyanti 9H-2.
123402CIP <- 2002, JCM <- 2001, NRIC <- P. Lisdiyanti: strain 9H-2

doi: 10.13145/bacdive14.20230509.8.1

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 syzygii
  • full scientific name: Acetobacter syzygii Lisdiyanti et al. 2002

@ref: 5994

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Acetobacter

species: Acetobacter syzygii

full scientific name: Acetobacter syzygii Lisdiyanti et al. 2002

strain designation: 9H-2

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.994
123402negativerod-shapedyes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5994ACETIC 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
33119MEDIUM 314 - for Gluconacetobacter xylinus subsp. sucrofermentansyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (100.000 g);Yeast extract (10.000 g);Calcium carbonate (30.000 g)
123402CIP Medium 314yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=314

culture temp

@refgrowthtypetemperaturerange
5994positivegrowth30mesophilic
33119positivegrowth30mesophilic
67770positivegrowth30mesophilic
123402positivegrowth22-37
123402nogrowth10psychrophilic
123402nogrowth41thermophilic
123402nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123402
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

halophily

@refsaltgrowthtested relationconcentration
123402NaClpositivegrowth0 %
123402NaClnogrowth2 %
123402NaClnogrowth4 %
123402NaClnogrowth6 %
123402NaClnogrowth8 %
123402NaClnogrowth10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
123402606565hippurate-hydrolysis
12340217632nitrate-reduction
12340216301nitrite-reduction

antibiotic resistance

  • @ref: 123402
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 123402
  • 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
123402oxidase-
123402beta-galactosidase-3.2.1.23
123402alcohol dehydrogenase-1.1.1.1
123402gelatinase-
123402catalase+1.11.1.6
123402gamma-glutamyltransferase-2.3.2.2
123402lysine decarboxylase-4.1.1.18
123402ornithine decarboxylase-4.1.1.17
123402urease-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
123402--++-+----++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123402------------------+--------------------------------------------------------+-----------------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentisolation date
5994fruit of Malay rose apple, Syzygium malaccenseSyzygium malaccenseIndonesiaIDNAsia
67770Fruit of Malay rose apple (Syzygium malaccense)Syzygium malaccenseIndonesiaIDNAsia
123402Food, Fruit, Malay rose appleIndonesiaIDNAsia1996

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_1246.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_152;97_163;98_985;99_1246&stattab=map
  • Last taxonomy: Acetobacter
  • 16S sequence: AB681084
  • Sequence Identity:
  • Total samples: 3246
  • soil counts: 352
  • aquatic counts: 428
  • animal counts: 2157
  • plant counts: 309

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
59941Risk group (German classification)
1234021Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Acetobacter syzygii gene for 16S rRNA, partial sequence, strain: JCM 11197AB6650781412ena146476
20218Acetobacter syzygii gene for 16S rRNA, partial sequence, strain: NBRC 16604AB6810841415ena146476
5994Acetobacter syzygii gene for 16S ribosomal RNA, strain: 9H-2AB0527121412ena146476

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acetobacter syzygii NBRC 16604GCA_007989285contigncbi146476
66792Acetobacter syzygii 9H-21231343.3wgspatric1307919
66792Acetobacter syzygii strain NBRC 16604146476.13wgspatric146476
66792Acetobacter syzygii 9H-22905254764draftimg146476
67770Acetobacter syzygii 9H-2GCA_000964225scaffoldncbi146476

GC content

  • @ref: 67770
  • GC-content: 55.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes73.931no
gram-positiveno96.47no
anaerobicno99.061no
aerobicyes94.164no
halophileno90.361no
spore-formingno95.421no
thermophileno95.036yes
glucose-utilyes74.055no
flagellatedno79.115no
glucose-fermentno90.11no

External links

@ref: 5994

culture collection no.: DSM 15548, IFO 16604, JCM 11197, NBRC 16604, NRIC 0483, CIP 107378

straininfo link

  • @ref: 69698
  • straininfo: 130934

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5994Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15548)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15548
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
33119Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4807
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
69698Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID130934.1StrainInfo: A central database for resolving microbial strain identifiers
123402Curators of the CIPCollection of Institut Pasteur (CIP 107378)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107378