Strain identifier

BacDive ID: 41

Type strain: Yes

Species: Gluconacetobacter liquefaciens

Strain history: CIP <- 1988, NCIB <- H. Iizuka: strain G1, Gluconobacter liquefaciens

NCBI tax ID(s): 89584 (species)

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General

@ref: 2250

BacDive-ID: 41

DSM-Number: 5603

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile

description: Gluconacetobacter liquefaciens DSM 5603 is an aerobe, mesophilic, motile bacterium that was isolated from dried fruit .

NCBI tax id

  • NCBI tax id: 89584
  • Matching level: species

strain history

@refhistory
2250<- IFO <- Shizuoka University <- IAM <- T. Asai
67770LMG 1381 <-- NCIMB 9136 <-- H. Iizuka <-- IAM 1834 <-- T. Asai G-1.
120623CIP <- 1988, NCIB <- H. Iizuka: strain G1, Gluconobacter liquefaciens

doi: 10.13145/bacdive41.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Acetobacteraceae
  • genus: Gluconacetobacter
  • species: Gluconacetobacter liquefaciens
  • full scientific name: Gluconacetobacter liquefaciens corrig. (Asai 1935) Yamada et al. 1998

  • synonyms

    @refsynonym
    20215Acetobacter aceti subsp. liquefaciens
    20215Gluconobacter liquefaciens
    20215Gluconobacter liquifaciens
    20215Acetobacter liquefaciens
    20215Gluconoacetobacter liquefaciens

@ref: 2250

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Gluconacetobacter

species: Gluconacetobacter liquefaciens

full scientific name: Gluconacetobacter liquefaciens (Asai 1935) Yamada et al. 1998

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes91.304
6948099.995negative
120623nonegativerod-shaped

colony morphology

  • @ref: 46759
  • incubation period: 3 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2250YPM MEDIUM (DSMZ Medium 360)yeshttps://mediadive.dsmz.de/medium/360Name: YPM MEDIUM (DSMZ Medium 360) Composition: Mannitol 25.0 g/l Agar 12.0 g/l Yeast extract 5.0 g/l Peptone 3.0 g/l Distilled water
2250GLUCONOBACTER OXYDANS MEDIUM (DSMZ Medium 105)yeshttps://mediadive.dsmz.de/medium/105Name: GLUCONOBACTER OXYDANS MEDIUM (DSMZ Medium 105) Composition: Glucose 100.0 g/l CaCO3 20.0 g/l Agar 15.0 g/l Yeast extract 10.0 g/l Distilled water
34114MEDIUM 1 - for Acetobacter, Azotobacter, Gluconobacter, Gluconacetobacter, Mesorhizodium ciceri and Pseudomonas doudoroffiiyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Yeast extract (5.000 g);Peptone (3.000 g);Mannitol (25.000 g)
120623CIP Medium 1yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=1

culture temp

@refgrowthtypetemperaturerange
2250positivegrowth28mesophilic
34114positivegrowth30mesophilic
46759positivegrowth30mesophilic
67770positivegrowth30mesophilic
120623positivegrowth22-37
120623nogrowth10psychrophilic
120623nogrowth41thermophilic
120623nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
46759aerobe
120623obligate aerobe

spore formation

@refspore formationconfidence
69481no92
69480no100

compound production

  • @ref: 2250
  • compound: restriction endonuclease AacI (BamHI)

halophily

@refsaltgrowthtested relationconcentration
120623NaClpositivegrowth0 %
120623NaClnogrowth2 %
120623NaClnogrowth4 %
120623NaClnogrowth6 %
120623NaClnogrowth8 %
120623NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
120623606565hippurate+hydrolysis
12062317632nitrate-reduction
12062316301nitrite-reduction

antibiotic resistance

  • @ref: 120623
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 120623
  • 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
120623oxidase-
120623beta-galactosidase-3.2.1.23
120623gelatinase-
120623catalase+1.11.1.6
120623gamma-glutamyltransferase-2.3.2.2
120623urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    46759C14:06.914
    46759C16:010.716
    46759C13:1 at 12-131.612.931
    46759C14:0 2OH11.315.205
    46759C14:0 3OH/C16:1 ISO I2.815.485
    46759C16:0 2OH1317.233
    46759C16:0 3OH3.117.52
    46759C18:0 3OH0.919.551
    46759C18:1 ω7c /12t/9t47.817.824
    46759C19:0 CYCLO ω8c218.9
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120623--++-++++-++-----+--

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentsampling dategeographic locationisolation date
2250dried fruit (Diospyros sp.)DiospyrosJapanJPNAsia
46759Fruit,dried of persimmon,Diospyros sp.JapanJPNAsia1935
120623Food, Dried fruitJapanJPNAsiaPersimmon1935

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_15747.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_64;97_2865;98_3566;99_15747&stattab=map
  • Last taxonomy: Gluconacetobacter
  • 16S sequence: X75617
  • Sequence Identity:
  • Total samples: 322
  • soil counts: 59
  • aquatic counts: 68
  • animal counts: 111
  • plant counts: 84

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
22501Risk group (German classification)
1206231Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Gluconacetobacter liquefaciens strain DSM 5603 16S ribosomal RNA gene, partial sequenceJF7939971354ena89584
20218Acetobacter liquefaciens 16S rRNA, partial sequenceAB003981155ena89584
20218A.liquefaciens gene for 16S ribosomal RNAX756171483ena89584
20218Gluconacetobacter liquefaciens gene for 16S rRNA, partial sequence, strain: JCM 17840AB6489111413ena89584
20218Gluconacetobacter liquefaciens strain LMG 1381 16S ribosomal RNA gene, partial sequenceJF7939961354ena89584
20218Gluconacetobacter liquefaciens gene for 16S rRNA, partial sequence, strain: NBRC 12388AB6802811416ena89584
67770Acetobacter liquefaciens 16S rRNA, partial sequenceAB003979155ena89584

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Gluconacetobacter liquefaciens strain DSM 560389584.5wgspatric89584
66792Gluconacetobacter liquefaciens strain LMG 138289584.9wgspatric89584
66792Gluconacetobacter liquefaciens strain NBRC 1238889584.7wgspatric89584
66792Gluconacetobacter liquefaciens DSM 56032756170231draftimg89584
67770Gluconacetobacter liquefaciens NBRC 12388GCA_006539085contigncbi89584
67770Gluconacetobacter liquefaciens LMG 1382GCA_014174285contigncbi89584
67770Gluconacetobacter liquefaciens DSM 5603GCA_003350405scaffoldncbi89584

GC content

  • @ref: 67770
  • GC-content: 62-65
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno92no
motileyes89.847no
flagellatedno71.186no
gram-positiveno97.956no
anaerobicno99.147yes
halophileno92.032no
spore-formingno95.492no
thermophileno93.004no
glucose-utilyes92.616no
aerobicyes89.916yes
glucose-fermentno91.421no

External links

@ref: 2250

culture collection no.: DSM 5603, ATCC 14835, CCUG 18124, IAM 1834, IFO 12388, LMG 1381, LMG 1382, NBRC 12388, NCIMB 9136, JCM 17840, BCRC 12950, CCM 3621, CIP 103109

straininfo link

  • @ref: 69726
  • straininfo: 92755

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23002052Endobacter medicaginis gen. nov., sp. nov., isolated from alfalfa nodules in an acidic soil.Ramirez-Bahena MH, Tejedor C, Martin I, Velazquez E, Peix AInt J Syst Evol Microbiol10.1099/ijs.0.041368-02012Acetobacteraceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal Spacer/genetics, Fatty Acids/analysis, Medicago sativa/*microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, Spain, Ubiquinone/analysisGenetics
Phylogeny23194734Numerical Analysis of Phenotypic Features and Protein Gel Electrophoregrams of a Wide Variety of Acetobacter strains. Proposal for the Improvement of the Taxonomy of the Genus Acetobacter Beijerinck 1898, 215.Gossele F, Swings J, Kersters K, Pauwels P, De Ley JSyst Appl Microbiol10.1016/S0723-2020(83)80020-41983

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2250Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5603)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5603
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
34114Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14871
46759Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 18124)https://www.ccug.se/strain?id=18124
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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
69726Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92755.1StrainInfo: A central database for resolving microbial strain identifiers
120623Curators of the CIPCollection of Institut Pasteur (CIP 103109)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103109