Strain identifier
BacDive ID: 132058
Type strain: 
Species: Roseivirga ehrenbergii
Strain history: <- SB Kim <- OI Nedashkovskaya, KMM, Russia
NCBI tax ID(s): 279360 (species)
version 8.1 (current version)
General
@ref: 23849
BacDive-ID: 132058
DSM-Number: 102268
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, rod-shaped
description: Roseivirga ehrenbergii DSM 102268 is an aerobe, mesophilic, rod-shaped bacterium that was isolated from green alga Ulva fenestrata.
NCBI tax id
- NCBI tax id: 279360
- Matching level: species
strain history
| @ref | history |
|---|---|
| 67770 | KMM 6017 <-- O. I. Nedashkovskaya. |
| 67771 | <- SB Kim <- OI Nedashkovskaya, KMM, Russia |
doi: 10.13145/bacdive132058.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Cytophagia
- order: Cytophagales
- family: Roseivirgaceae
- genus: Roseivirga
- species: Roseivirga ehrenbergii
- full scientific name: Roseivirga ehrenbergii Nedashkovskaya et al. 2005
synonyms
@ref synonym 20215 Roseivirga seohaensis 20215 Marinicola seohaensis
@ref: 23849
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Roseivirgaceae
genus: Roseivirga
species: Roseivirga ehrenbergii
full scientific name: Roseivirga ehrenbergii Nedashkovskaya et al. 2005 emend. Nedashkovskaya et al. 2008 emend. Hahnke et al. 2016
type strain: yes
Morphology
cell morphology
| @ref | cell shape | motility | gram stain |
|---|---|---|---|
| 67771 | rod-shaped | no | |
| 67771 | negative |
Culture and growth conditions
culture medium
- @ref: 23849
- 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 | range |
|---|---|---|---|---|
| 23849 | positive | growth | 25 | mesophilic |
| 67770 | positive | growth | 25 | mesophilic |
| 67771 | positive | growth | 25 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
observation
| @ref | observation |
|---|---|
| 67770 | quinones: MK-7 |
| 67771 | quinones: MK-7 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | host species |
|---|---|---|---|---|---|---|
| 23849 | green alga Ulva fenestrata | Sea of Japan, Gulf of Peter the Great, Pallada Bay | Russia | RUS | Europe | |
| 67770 | Green alga Ulva fenestrata collected in Pallada Bay | Gulf of Peter the Great | Ulva fenestrata | |||
| 67771 | From green alga `Ulva fenestrata` | International waters |
isolation source categories
- Cat1: #Host
- Cat2: #Algae
- Cat3: #Green algae
taxonmaps
- @ref: 69479
- File name: preview.99_4834.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_492;96_2388;97_2904;98_3620;99_4834&stattab=map
- Last taxonomy: Roseivirga
- 16S sequence: AY608410
- Sequence Identity:
- Total samples: 1110
- soil counts: 42
- aquatic counts: 992
- animal counts: 68
- plant counts: 8
Safety information
risk assessment
- @ref: 23849
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 23849
- description: Roseivirga ehrenbergii strain KMM 6017 16S ribosomal RNA gene, partial sequence
- accession: AY608410
- length: 1420
- database: ena
- NCBI tax ID: 279360
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Roseivirga ehrenbergii strain DSM 102268 | 279360.18 | wgs | patric | 279360 |
| 66792 | Roseivirga ehrenbergii strain KMM 6017 | 279360.5 | wgs | patric | 279360 |
| 66792 | Roseivirga ehrenbergii DSM 102268 | 2799112213 | draft | img | 279360 |
| 66792 | Roseivirga ehrenbergii KMM 6017 | 2811995049 | complete | img | 279360 |
| 67770 | Roseivirga ehrenbergii KMM 6017 | GCA_001593005 | contig | ncbi | 279360 |
| 67770 | Roseivirga ehrenbergii DSM 102268 | GCA_004340805 | scaffold | ncbi | 279360 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 23849 | 40.2 | thermal denaturation, midpoint method (Tm) |
| 23849 | 39.3 | sequence analysis |
| 67770 | 41.3 | thermal denaturation, midpoint method (Tm) |
| 67771 | 40.2 |
External links
@ref: 23849
culture collection no.: DSM 102268, KCTC 12282, KMM 6017, LMG 22567, JCM 13514, NCIMB 14502
straininfo link
- @ref: 90416
- straininfo: 131849
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 15653879 | Roseivirga ehrenbergii gen. nov., sp. nov., a novel marine bacterium of the phylum 'Bacteroidetes', isolated from the green alga Ulva fenestrata. | Nedashkovskaya OI, Kim SB, Lee DH, Lysenko AM, Shevchenko LS, Frolova GM, Mikhailov VV, Lee KH, Bae KS | Int J Syst Evol Microbiol | 10.1099/ijs.0.63341-0 | 2005 | Chlorophyta/*microbiology, Cytophagaceae/chemistry/*classification/genetics/isolation & purification, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genotype, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA | Genetics |
| Phylogeny | 18450712 | Reclassification of Roseivirga seohaensis (Yoon et al. 2005) Lau et al. 2006 as a later synonym of Roseivirga ehrenbergii Nedashkovskaya et al. 2005 and emendation of the species description. | Nedashkovskaya OI, Kim SB, Lysenko AM, Kalinovskaya NI, Mikhailov VV | Int J Syst Evol Microbiol | 10.1099/ijs.0.65686-0 | 2008 | Bacterial Typing Techniques, Base Composition, Cytophagaceae/*classification/genetics/physiology, DNA, Bacterial/analysis/genetics/isolation & purification, Genes, rRNA, Genomics, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity | Genetics |
| Phylogeny | 28077207 | Proposal to reclassify Roseivirga ehrenbergii (Nedashkovskaya et al., 2008) as Roseivirga seohaensis comb. nov., description of Roseivirga seohaensis subsp. aquiponti subsp. nov. and emendation of the genus Roseivirga. | Selvaratnam C, Thevarajoo S, Goh KM, Chan KG, Chong CS | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001553 | 2016 | Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Malaysia, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 34214025 | Mangrovivirga cuniculi gen. nov., sp. nov., a moderately halophilic bacterium isolated from bioturbated Red Sea mangrove sediment, and proposal of the novel family Mangrovivirgaceae fam. nov. | Sefrji FO, Michoud G, Marasco R, Merlino G, Daffonchio D | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004866 | 2021 | Bacterial Typing Techniques, Bacteroidetes/*classification/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Indian Ocean, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizophoraceae, Saudi Arabia, Seawater/microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | 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 | |||
| 23849 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102268 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102268) | |||
| 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 | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
| 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/ | |||
| 90416 | 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-ID131849.1 |