Strain identifier

BacDive ID: 137389

Type strain: Yes

Species: Komagataeibacter nataicola

Strain history: CIP <- 2008, T. Uchimura, Tokyo Univ., Tokyo, Japan: strain NRIC 0616

NCBI tax ID(s): 1307937 (strain), 265960 (species)

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General

@ref: 37663

BacDive-ID: 137389

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

description: Komagataeibacter nataicola CIP 109787 is an obligate aerobe, mesophilic, Gram-negative bacterium of the family Acetobacteraceae.

NCBI tax id

NCBI tax idMatching level
1307937strain
265960species

strain history

@refhistory
376632008, T. Uchimura, Tokyo Univ., Tokyo, Japan: strain NRIC 0616
67770NRIC 0616 <-- LMG 1536 <-- E. Magno (Acetobacter xylinum).
37663CIP <- 2008, T. Uchimura, Tokyo Univ., Tokyo, Japan: strain NRIC 0616

doi: 10.13145/bacdive137389.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Acetobacteraceae
  • genus: Komagataeibacter
  • species: Komagataeibacter nataicola
  • full scientific name: Komagataeibacter nataicola (Lisdiyanti et al. 2006) Yamada et al. 2013

  • synonyms

    @refsynonym
    20215Komagatabacter nataicola
    20215Gluconacetobacter nataicola

@ref: 37663

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodospirillales

family: Acetobacteraceae

genus: Komagataeibacter

species: Komagataeibacter nataicola

type strain: yes

Morphology

cell morphology

  • @ref: 37663
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
37663MEDIUM 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)
37663CIP Medium 1yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=1

culture temp

@refgrowthtypetemperaturerange
37663positivegrowth30mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 37663
  • oxygen tolerance: obligate aerobe

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3766317632nitrate-reduction
3766316301nitrite-reduction

metabolite production

  • @ref: 37663
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
37663oxidase-
37663catalase+1.11.1.6
37663urease-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
37663--+--+-----+--------

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsample type
37663PhilippinesPHLAsia
67770Nata de coco in the Philippines
37663PhilippinesPHLAsiaCoconut Nata

taxonmaps

  • @ref: 69479
  • File name: preview.99_79.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_64;97_67;98_72;99_79&stattab=map
  • Last taxonomy: Komagataeibacter
  • 16S sequence: AB166743
  • Sequence Identity:
  • Total samples: 4067
  • soil counts: 662
  • aquatic counts: 523
  • animal counts: 2327
  • plant counts: 555

Safety information

risk assessment

  • @ref: 37663
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
67770Gluconacetobacter nataicola gene for 16S rRNA, partial sequence, strain: LMG 1536AB1667431452ena265960
67770Gluconacetobacter nataicola gene for 16S rRNA, partial sequence, strain: JCM 25120AB6457311413ena265960

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Komagataeibacter nataicola strain LMG 1536265960.20wgspatric265960
66792Komagataeibacter nataicola LMG 15362846465737draftimg265960
67770Komagataeibacter nataicola LMG 1536GCA_003207795contigncbi265960

GC content

  • @ref: 67770
  • GC-content: 62
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno83.093no
gram-positiveno96.454no
anaerobicno97.919no
aerobicyes78.689no
halophileno92.555no
spore-formingno95.521no
glucose-utilyes90.629no
flagellatedno97.145no
thermophileno95.41yes
glucose-fermentno86.57no

External links

@ref: 37663

culture collection no.: CIP 109787, LMG 1536, JCM 25120, BCC 36443, NRIC 0616

straininfo link

  • @ref: 94298
  • straininfo: 14558

literature

  • topic: Phylogeny
  • Pubmed-ID: 16957106
  • title: Reclassification of Gluconacetobacter hansenii strains and proposals of Gluconacetobacter saccharivorans sp. nov. and Gluconacetobacter nataicola sp. nov.
  • authors: Lisdiyanti P, Navarro RR, Uchimura T, Komagata K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63252-0
  • year: 2006
  • mesh: Bacterial Typing Techniques, Base Sequence, DNA, Bacterial/analysis, Gluconacetobacter/*classification/genetics, Molecular Sequence Data, Polymerase Chain Reaction, RNA, Ribosomal, 16S/*analysis/genetics, *Terminology as Topic
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
37663Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109787Collection of Institut Pasteur (CIP 109787)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
94298Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID14558.1