Strain identifier
BacDive ID: 93
Type strain:
Species: Komagataeibacter swingsii
Strain history: CIP <- 2007, F. Dellaglio, Verona Univ., Verona, Italy, strain: DST GL01
NCBI tax ID(s): 1307943 (strain), 215220 (species)
General
@ref: 6410
BacDive-ID: 93
DSM-Number: 16373
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative
description: Komagataeibacter swingsii DSM 16373 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from organic apple juice.
NCBI tax id
NCBI tax id | Matching level |
---|---|
215220 | species |
1307943 | strain |
strain history
@ref | history |
---|---|
6410 | <- F. Dellaglio; DST GL01 |
39825 | 2007, F. Dellaglio, Verona Univ., Verona, Italy, strain: DST GL01 |
67770 | DSM 16373 <-- F. Dellaglio DST GL01. |
123397 | CIP <- 2007, F. Dellaglio, Verona Univ., Verona, Italy, strain: DST GL01 |
doi: 10.13145/bacdive93.20230509.8.1
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 swingsii
- full scientific name: Komagataeibacter swingsii (Dellaglio et al. 2005) Yamada et al. 2013
synonyms
@ref synonym 20215 Komagatabacter swingsii 20215 Gluconacetobacter swingsii
@ref: 6410
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Acetobacteraceae
genus: Komagataeibacter
species: Komagataeibacter swingsii
full scientific name: Komagataeibacter swingsii (Dellaglio et al. 2005) Yamada et al. 2013
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | negative | 99.991 | ||
123397 | negative | rod-shaped | no |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6410 | GLUCONACETOBACTER RHAETICUS MEDIUM (DSMZ Medium 1044) | yes | https://mediadive.dsmz.de/medium/1044 | Name: GLUCONACETOBACTER RHAETICUS MEDIUM (DSMZ Medium 1044) Composition: Glucose 50.0 g/l Agar 15.0 g/l Yeast extract 5.0 g/l Distilled water |
39825 | MEDIUM 1 - for Acetobacter, Azotobacter, Gluconobacter, Gluconacetobacter, Mesorhizodium ciceri and Pseudomonas doudoroffii | yes | Distilled water make up to (1000.000 ml);Agar (15.000 g);Yeast extract (5.000 g);Peptone (3.000 g);Mannitol (25.000 g) | |
123397 | CIP Medium 1 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=1 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6410 | positive | growth | 28 | mesophilic |
39825 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 123397
- oxygen tolerance: facultative anaerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.994 |
observation
- @ref: 67770
- observation: quinones: Q-10
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
123397 | 17632 | nitrate | + | reduction |
123397 | 16301 | nitrite | - | reduction |
metabolite production
- @ref: 123397
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | + | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
123397 | oxidase | - | |
123397 | catalase | + | 1.11.1.6 |
123397 | urease | - | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123397 | - | + | + | + | - | + | - | - | + | - | + | + | - | - | - | - | + | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
6410 | organic apple juice | South Tyrol Region, Val Venosta | Italy | ITA | Europe | |
67770 | Apple juice in South Tyrol region | Italy | ITA | Europe | ||
123397 | Food, Organic apple juice | Val Venosta, south Tyrol | Italy | ITA | Europe | 2003 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | #Beverage |
#Host Body Product | #Plant | #Juice (natural) |
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: JF794011
- Sequence Identity:
- Total samples: 4067
- soil counts: 662
- aquatic counts: 523
- animal counts: 2327
- plant counts: 555
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6410 | 1 | Risk group (German classification) |
123397 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Gluconacetobacter swingsii gene for 16S rRNA, partial sequence, strain: JCM 17123 | AB645736 | 1411 | ena | 215220 |
20218 | Gluconacetobacter swingsii strain DSM 16373 16S ribosomal RNA gene, partial sequence | JF794011 | 1353 | ena | 215220 |
6410 | Gluconacetobacter swingsii strain DST GL01 16S ribosomal RNA gene, partial sequence | AY180960 | 1446 | ena | 215220 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Komagataeibacter swingsii strain LMG 22125 | 215220.5 | wgs | patric | 215220 |
66792 | Komagataeibacter swingsii LMG 22125 | 2846440919 | draft | img | 215220 |
67770 | Komagataeibacter swingsii LMG 22125 | GCA_003207895 | contig | ncbi | 215220 |
GC content
@ref | GC-content | method |
---|---|---|
6410 | 61.7 | |
67770 | 61.7 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 82.541 | no |
gram-positive | no | 96.315 | no |
anaerobic | no | 97.901 | no |
aerobic | yes | 78.976 | no |
halophile | no | 92.83 | no |
spore-forming | no | 96.068 | no |
glucose-util | yes | 91.245 | no |
flagellated | no | 97.35 | no |
thermophile | no | 96.79 | no |
glucose-ferment | no | 84.148 | no |
External links
@ref: 6410
culture collection no.: DSM 16373, BCC 36451, JCM 17123, LMG 22125, DST GL01, CIP 109760
straininfo link
- @ref: 69776
- straininfo: 128066
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 16280498 | Description of Gluconacetobacter swingsii sp. nov. and Gluconacetobacter rhaeticus sp. nov., isolated from Italian apple fruit. | Dellaglio F, Cleenwerck I, Felis GE, Engelbeen K, Janssens D, Marzotto M | Int J Syst Evol Microbiol | 10.1099/ijs.0.63301-0 | 2005 | Fatty Acids/analysis/*chemistry, Gluconacetobacter/*classification/genetics/metabolism, Italy, Malus/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, RNA, Ribosomal, 16S/analysis/genetics, Sequence Analysis, DNA | Genetics |
Phylogeny | 21841006 | Gluconacetobacter kakiaceti sp. nov., an acetic acid bacterium isolated from a traditional Japanese fruit vinegar. | Iino T, Suzuki R, Tanaka N, Kosako Y, Ohkuma M, Komagata K, Uchimura T | Int J Syst Evol Microbiol | 10.1099/ijs.0.031773-0 | 2011 | Acetic Acid/*metabolism, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Food Microbiology, Fruit, Gluconacetobacter/*classification/genetics/*isolation & purification, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Biotechnology |
Biotechnology | 31551945 | Set-Up of Bacterial Cellulose Production From the Genus Komagataeibacter and Its Use in a Gluten-Free Bakery Product as a Case Study. | Vigentini I, Fabrizio V, Dellaca F, Rossi S, Azario I, Mondin C, Benaglia M, Foschino R | Front Microbiol | 10.3389/fmicb.2019.01953 | 2019 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
6410 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16373) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16373 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
39825 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/7539 | ||||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68382 | Automatically annotated from API zym | |||||
69479 | João 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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
69776 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID128066.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123397 | Curators of the CIP | Collection of Institut Pasteur (CIP 109760) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109760 |