Strain identifier
BacDive ID: 158398
Type strain:
Species: Corynebacterium gottingense
Strain Designation: NBT06-6, NBT06-06
Strain history: CIP <- 2018, Y. Wei, Shanghai Ocean Univ., Shanghai, China: strain NBT06-06
NCBI tax ID(s): 2026255 (species)
General
@ref: 65074
BacDive-ID: 158398
DSM-Number: 105365
keywords: 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, rod-shaped
description: Corynebacterium gottingense NBT06-6 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from deep sea water.
NCBI tax id
- NCBI tax id: 2026255
- Matching level: species
strain history
@ref | history |
---|---|
65074 | <- Y. Wei, Shanghai Ocean University., College of Marine Sciences, Shanghai, P.R. China; NBT06-6 |
119717 | CIP <- 2018, Y. Wei, Shanghai Ocean Univ., Shanghai, China: strain NBT06-06 |
doi: 10.13145/bacdive158398.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Mycobacteriales
- family: Corynebacteriaceae
- genus: Corynebacterium
- species: Corynebacterium gottingense
- full scientific name: Corynebacterium gottingense Atasayar et al. 2017
synonyms
@ref synonym 20215 Corynebacterium godavarianum 20215 Corynebacterium hadale
@ref: 65074
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Burkholderiales
family: Corynebacteriaceae
genus: Corynebacterium
species: Corynebacterium gottingense
full scientific name: Corynebacterium gottingense Atasayar et al. 2017
strain designation: NBT06-6, NBT06-06
type strain: no
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility |
---|---|---|---|---|---|
65550 | positive | 1.3 µm | 0.57 µm | rod-shaped | no |
119717 | positive | flask-shaped | no |
colony morphology
- @ref: 65550
- colony size: 1-2 mm
- colony color: ivory-white
- medium used: MA
multimedia
- @ref: 65074
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_105365.jpg
- caption: Medium 514 35°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
65074 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
65074 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water |
65550 | Marine agar (MA) | yes | ||
119717 | CIP Medium 6 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
65074 | positive | growth | 37 | mesophilic |
65074 | positive | growth | 35 | mesophilic |
65550 | positive | growth | 22-41 | |
65550 | positive | optimum | 35 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 65550
- oxygen tolerance: facultative anaerobe
spore formation
- @ref: 65550
- spore formation: no
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
65550 | NaCl | positive | growth | 0-10 %(w/v) |
65550 | NaCl | positive | optimum | 4 %(w/v) |
observation
- @ref: 65550
- observation: optimal growth at 10 MPa
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
65550 | 16808 | 2-dehydro-D-gluconate | - | builds acid from |
65550 | 58143 | 5-dehydro-D-gluconate | + | builds acid from |
65550 | 27613 | amygdalin | - | builds acid from |
65550 | 18305 | arbutin | - | builds acid from |
65550 | 71422 | beta-gentiobiose | - | builds acid from |
65550 | 17057 | cellobiose | - | builds acid from |
65550 | 15963 | ribitol | +/- | builds acid from |
65550 | 17108 | D-arabinose | - | builds acid from |
65550 | 18333 | D-arabitol | + | builds acid from |
65550 | 15824 | D-fructose | + | builds acid from |
65550 | 28847 | D-fucose | - | builds acid from |
65550 | 12936 | D-galactose | - | builds acid from |
65550 | 17634 | D-glucose | + | builds acid from |
65550 | 62318 | D-lyxose | - | builds acid from |
65550 | 16899 | D-mannitol | +/- | builds acid from |
65550 | 16024 | D-mannose | + | builds acid from |
65550 | 16988 | D-ribose | + | builds acid from |
65550 | 17924 | D-sorbitol | - | builds acid from |
65550 | 16443 | D-tagatose | - | builds acid from |
65550 | 65327 | D-xylose | - | builds acid from |
65550 | 16813 | galactitol | - | builds acid from |
65550 | 17113 | erythritol | - | builds acid from |
65550 | 4853 | esculin | - | hydrolysis |
65550 | 24265 | gluconate | - | builds acid from |
65550 | 17754 | glycerol | - | builds acid from |
65550 | 28087 | glycogen | - | builds acid from |
65550 | 17268 | myo-inositol | - | builds acid from |
65550 | 15443 | inulin | - | builds acid from |
65550 | 30849 | L-arabinose | - | builds acid from |
65550 | 18403 | L-arabitol | - | builds acid from |
65550 | 18287 | L-fucose | - | builds acid from |
65550 | 62345 | L-rhamnose | - | builds acid from |
65550 | 17266 | L-sorbose | - | builds acid from |
65550 | 65328 | L-xylose | - | builds acid from |
65550 | 17716 | lactose | - | builds acid from |
65550 | 17306 | maltose | + | builds acid from |
65550 | 6731 | melezitose | - | builds acid from |
65550 | 28053 | melibiose | - | builds acid from |
65550 | 320061 | methyl alpha-D-glucopyranoside | - | builds acid from |
65550 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
65550 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
65550 | 506227 | N-acetylglucosamine | - | builds acid from |
65550 | 17632 | nitrate | - | reduction |
65550 | 16634 | raffinose | - | builds acid from |
65550 | 17814 | salicin | - | builds acid from |
65550 | 28017 | starch | - | hydrolysis |
65550 | 17992 | sucrose | - | builds acid from |
65550 | 27082 | trehalose | + | builds acid from |
65550 | 32528 | turanose | - | builds acid from |
65550 | 16199 | urea | - | hydrolysis |
65550 | 17151 | xylitol | - | builds acid from |
enzymes
@ref | value | activity | ec |
---|---|---|---|
65550 | catalase | + | 1.11.1.6 |
65550 | cytochrome oxidase | - | 1.9.3.1 |
65550 | pyrazinamidase | + | 3.5.1.B15 |
65550 | alkaline phosphatase | + | 3.1.3.1 |
65550 | esterase (C 4) | + | |
65550 | esterase Lipase (C 8) | + | |
65550 | leucine arylamidase | + | 3.4.11.1 |
65550 | acid phosphatase | + | 3.1.3.2 |
65550 | phosphoamidase | + | 3.9.1.1 |
65550 | lipase (C 14) | - | |
65550 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
65550 | valine aminopeptidase | - | |
65550 | trypsin | - | 3.4.21.4 |
65550 | alpha-galactosidase | - | 3.2.1.22 |
65550 | beta-galactosidase | - | 3.2.1.23 |
65550 | beta-glucuronidase | - | 3.2.1.31 |
65550 | alpha-glucosidase | - | 3.2.1.20 |
65550 | beta-glucosidase | - | 3.2.1.21 |
65550 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
65550 | alpha-mannosidase | - | 3.2.1.24 |
65550 | alpha-fucosidase | - | 3.2.1.51 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude | sampling date | enrichment culture | enrichment culture duration | isolation date |
---|---|---|---|---|---|---|---|---|---|---|---|
65074 | deep sea water | New Britain Trench, Papua New Guinean Exclusive Economic Zone (6° 21' 43.9'' S, 153° 49' 51.8'' E) | Papua New Guinea | PNG | Australia and Oceania | -6.3622 | 153.831 | ||||
65550 | deep-sea water | New Britain Trench | -3.36 | 153.83 | 2017-01-31 | MA | 3 days | ||||
119717 | Environment, Deep seawater sample collected at a depth of 8900 m | New Britain Trench | Papua New Guinea | PNG | Australia and Oceania | 2017-01-31 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
65074 | 1 | Risk group (German classification) |
119717 | 2 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
65074 | Corynebacterium sp. NBT06-6 16S ribosomal RNA gene, partial sequence | MF576260 | 1395 | ena | 2026255 |
65074 | Corynebacterium hadale strain NBT06-6, whole genome shotgun sequencing project | NQMQ00000000 | 76 | ena | 2026255 |
GC content
- @ref: 65550
- GC-content: 65.1
- method: genome sequence analysis
External links
@ref: 65074
culture collection no.: DSM 105365, MCCC 1K03347, CIP 111638
straininfo link
- @ref: 111202
- straininfo: 405766
literature
- topic: Phylogeny
- Pubmed-ID: 29557772
- title: Corynebacterium hadale sp. nov. isolated from hadopelagic water of the New Britain Trench.
- authors: Wei Y, Fang J, Xu Y, Zhao W, Cao J
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.002695
- year: 2018
- mesh: Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Nucleic Acid Hybridization, Pacific Ocean, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
Reference
@id | authors | title | doi/url | catalogue | journal | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |||
65074 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-105365 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105365) | |||
65550 | Yuli Wei, Jiasong Fang, Yunping Xu, Weiqiang Zhao and Junwei Cao | Corynebacterium hadale sp. nov. isolated from hadopelagic water of the New Britain Trench | 10.1099/ijsem.0.002695 | IJSEM 68: 1474-1478 2018 | 29557772 | |
111202 | Reimer, 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 identifiers | 10.60712/SI-ID405766.1 | |||
119717 | Curators of the CIP | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20111638 | Collection of Institut Pasteur (CIP 111638) |