Strain identifier
BacDive ID: 159356
Type strain: 
Species: Janthinobacterium sp.
Strain Designation: ROICE36
Strain history: <- C. Coman, Institute of Biological Research, Cluj-Napoca, Romania; ROICE36
NCBI tax ID(s): 1871054 (species)
version 9.3 (current version)
General
@ref: 66179
BacDive-ID: 159356
DSM-Number: 106030
keywords: genome sequence, Bacteria, mesophilic, Gram-negative
description: Janthinobacterium sp. ROICE36 is a mesophilic, Gram-negative bacterium that was isolated from snow.
NCBI tax id
- NCBI tax id: 1871054
- Matching level: species
strain history
- @ref: 66179
- history: <- C. Coman, Institute of Biological Research, Cluj-Napoca, Romania; ROICE36
doi: 10.13145/bacdive159356.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Oxalobacteraceae
- genus: Janthinobacterium
- species: Janthinobacterium sp.
- full scientific name: Janthinobacterium De Ley et al. 1978 (Approved Lists 1980)
@ref: 66179
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Oxalobacteraceae
genus: Janthinobacterium
species: Janthinobacterium sp.
full scientific name: Janthinobacterium sp.
strain designation: ROICE36
type strain: no
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125438 | negative | 97 |
| 125439 | negative | 99.4 |
multimedia
- @ref: 66179
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_106030.jpg
- caption: DSM 106030 on medium 535 at 28 °C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 66179
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://mediadive.dsmz.de/medium/535
- composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
culture temp
- @ref: 66179
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: obligate aerobe
- confidence: 93.8
spore formation
- @ref: 125439
- spore formation: no
- confidence: 98.8
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 68369 | 17306 | maltose | + | assimilation |
| 68369 | 25115 | malate | + | assimilation |
| 68369 | 17128 | adipate | - | assimilation |
| 68369 | 27689 | decanoate | - | assimilation |
| 68369 | 24265 | gluconate | - | assimilation |
| 68369 | 59640 | N-acetylglucosamine | - | assimilation |
| 68369 | 16899 | D-mannitol | + | assimilation |
| 68369 | 16024 | D-mannose | + | assimilation |
| 68369 | 30849 | L-arabinose | + | assimilation |
| 68369 | 17634 | D-glucose | + | assimilation |
| 68369 | 5291 | gelatin | - | hydrolysis |
| 68369 | 4853 | esculin | + | hydrolysis |
| 68369 | 16199 | urea | - | hydrolysis |
| 68369 | 29016 | arginine | - | hydrolysis |
| 68369 | 17634 | D-glucose | - | fermentation |
| 68369 | 27897 | tryptophan | - | energy source |
| 68369 | 17632 | nitrate | + | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68369 | cytochrome oxidase | + | 1.9.3.1 |
| 68369 | gelatinase | - | |
| 68369 | beta-glucosidase | + | 3.2.1.21 |
| 68369 | urease | - | 3.5.1.5 |
| 68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
| @ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 66179 | + | - | - | - | - | + | - | + | + | + | + | + | - | + | - | - | - | + | + | + | + |
Isolation, sampling and environmental information
isolation
- @ref: 66179
- sample type: snow
- geographic location: King George Island (62° 07' 48.0'' S, 58° 28' 12.0'' W)
- country: Antarctica
- origin.country: ATA
- continent: Australia and Oceania
- latitude: -62.13
- longitude: -58.47
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Ice
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Janthinobacterium sp. ROICE36 | GCA_002869965 | scaffold | ncbi | 2048670 |
| 66792 | Janthinobacterium sp. ROICE36 | 2048670.3 | patric | 2048670 | |
| 66792 | Janthinobacterium sp. ROICE36 | 2854738778 | draft | img | 2048670 |
GC content
- @ref: 66179
- GC-content: 62
- method: sequence analysis
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 97 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 96.225 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 87.145 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 83.075 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 99.5 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 83.53 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 98.8 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 85.1 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 99.4 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 93.8 |
External links
@ref: 66179
culture collection no.: DSM 106030
straininfo link
- @ref: 111853
- straininfo: 400523
literature
- topic: Genetics
- Pubmed-ID: 29650588
- title: Draft Genome Sequence of Janthinobacterium sp. Strain ROICE36, a Putative Secondary Metabolite-Synthesizing Bacterium Isolated from Antarctic Snow.
- authors: Chiriac C, Baricz A, Coman C
- journal: Genome Announc
- DOI: 10.1128/genomeA.01553-17
- year: 2018
- topic2: Phylogeny
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 66179 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-106030 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 106030) | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 68369 | Automatically annotated from API 20NE | |||
| 111853 | 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-ID400523.1 | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |