Strain identifier
BacDive ID: 131302
Type strain: 
Species: Sulfitobacter noctilucae
Strain Designation: NB-68
Strain history: J. F. Kim NB-68.
NCBI tax ID(s): 1342302 (species)
version 9.3 (current version)
General
@ref: 22529
BacDive-ID: 131302
DSM-Number: 100978
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Sulfitobacter noctilucae NB-68 is a mesophilic bacterium that was isolated from coastel water of sea sparkle bloom.
NCBI tax id
- NCBI tax id: 1342302
- Matching level: species
strain history
| @ref | history |
|---|---|
| 22529 | <- KCTC <- J.F. Kim, Yonsei University; NB-68 |
| 67770 | J. F. Kim NB-68. |
doi: 10.13145/bacdive131302.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Roseobacteraceae
- genus: Sulfitobacter
- species: Sulfitobacter noctilucae
- full scientific name: Sulfitobacter noctilucae Kwak et al. 2014
@ref: 22529
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Sulfitobacter
species: Sulfitobacter noctilucae
full scientific name: Sulfitobacter noctilucae Kwak et al. 2014
strain designation: NB-68
type strain: yes
Morphology
cell morphology
- @ref: 125439
- gram stain: negative
- confidence: 96.3
colony morphology
- @ref: 22529
- incubation period: 1-2 days
Culture and growth conditions
culture medium
- @ref: 22529
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: 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
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 22529 | positive | growth | 25 |
| 67770 | positive | growth | 30 |
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: obligate aerobe
- confidence: 96.4
spore formation
- @ref: 125439
- spore formation: no
- confidence: 96.5
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 22529 | catalase | + | 1.11.1.6 |
| 22529 | cytochrome-c oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 22529 | coastel water of sea sparkle bloom | Geoje Island | Republic of Korea | KOR | Asia | 34.875 | 128.625 |
| 67770 | Seawater of a region of sea sparkle bloom in Geoje island | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Host | #Microbial | #Zooplankton |
taxonmaps
- @ref: 69479
- File name: preview.99_6171.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_252;97_2935;98_3669;99_6171&stattab=map
- Last taxonomy: Sulfitobacter noctilucae
- 16S sequence: KC428716
- Sequence Identity:
- Total samples: 46
- soil counts: 6
- aquatic counts: 40
Safety information
risk assessment
- @ref: 22529
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22529
- description: Sulfitobacter noctilucae strain NB-68 16S ribosomal RNA gene, partial sequence
- accession: KC428716
- length: 1409
- database: nuccore
- NCBI tax ID: 1342302
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sulfitobacter noctilucae NB-68 | 2579778790 | draft | img | 1342302 |
| 67770 | Sulfitobacter noctilucae NB-68 | GCA_000622365 | contig | ncbi | 1342302 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 22529 | 58.33 | |
| 67770 | 58.33 | genome sequence analysis |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence |
|---|---|---|---|---|---|
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 96.5 |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 62.9 |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 96.3 |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 96.4 |
External links
@ref: 22529
culture collection no.: DSM 100978, JCM 18833, KCTC 32122
straininfo link
- @ref: 89744
- straininfo: 403750
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25122614 | Sulfitobacter geojensis sp. nov., Sulfitobacter noctilucae sp. nov., and Sulfitobacter noctilucicola sp. nov., isolated from coastal seawater. | Kwak MJ, Lee JS, Lee KC, Kim KK, Eom MK, Kim BK, Kim JF | Int J Syst Evol Microbiol | 10.1099/ijs.0.065961-0 | 2014 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Oleic Acids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 25708049 | Sulfitobacter pacificus sp. nov., isolated from the red alga Pyropia yezoensis. | Fukui Y, Abe M, Kobayashi M, Satomi M | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0407-5 | 2015 | Alphaproteobacteria/*classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodophyta/*microbiology | Metabolism |
| Phylogeny | 33895907 | Sulfitobacter alexandrii sp. nov., a new microalgae growth-promoting bacterium with exopolysaccharides bioflocculanting potential isolated from marine phycosphere. | Yang Q, Ge YM, Iqbal NM, Yang X, Zhang XL | Antonie Van Leeuwenhoek | 10.1007/s10482-021-01580-0 | 2021 | Bacterial Typing Techniques, DNA, Bacterial, Fatty Acids/analysis, *Microalgae, *Microbiota, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhodobacteraceae/genetics, Sequence Analysis, DNA | Transcriptome |
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 | |
| 22529 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100978 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100978) | |
| 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 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
| 89744 | 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-ID403750.1 | |
| 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 |