Strain identifier
BacDive ID: 131265
Type strain:
Species: Croceibacterium atlanticum
Strain Designation: 26DY36
Strain history: Y.-H. Wu 26DY36.
NCBI tax ID(s): 1267766 (species)
General
@ref: 22492
BacDive-ID: 131265
DSM-Number: 100738
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Croceibacterium atlanticum 26DY36 is a mesophilic, Gram-negative bacterium that was isolated from North Atlantic Rise.
NCBI tax id
- NCBI tax id: 1267766
- Matching level: species
strain history
@ref | history |
---|---|
22492 | <- Y.-H. Wu, Second Inst. Oceanography, State Oceanic Admin., Hangzhou, China; CGMCC 1.12411 |
67770 | Y.-H. Wu 26DY36. |
doi: 10.13145/bacdive131265.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Sphingomonadales
- family: Erythrobacteraceae
- genus: Croceibacterium
- species: Croceibacterium atlanticum
- full scientific name: Croceibacterium atlanticum (Wu et al. 2014) Xu et al. 2020
synonyms
- @ref: 20215
- synonym: Altererythrobacter atlanticus
@ref: 22492
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Sphingomonadales
family: Erythrobacteraceae
genus: Altererythrobacter
species: Altererythrobacter atlanticus
full scientific name: Altererythrobacter atlanticus Wu et al. 2014
strain designation: 26DY36
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.854
Culture and growth conditions
culture medium
- @ref: 22492
- 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 |
---|---|---|---|---|
22492 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.984 |
observation
- @ref: 67770
- observation: quinones: Q-10
Isolation, sampling and environmental information
isolation
@ref | sample type | country |
---|---|---|
22492 | North Atlantic Rise | Atlantic Ocean |
67770 | Deep-sea sediment sample collected from the North Atlantic Rise |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_3915.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_543;97_2405;98_2973;99_3915&stattab=map
- Last taxonomy: Altererythrobacter atlanticus subclade
- 16S sequence: KC018454
- Sequence Identity:
- Total samples: 996
- soil counts: 342
- aquatic counts: 364
- animal counts: 264
- plant counts: 26
Safety information
risk assessment
- @ref: 22492
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22492
- description: Altererythrobacter atlanticus strain 26DY36 16S ribosomal RNA gene, partial sequence
- accession: KC018454
- length: 1444
- database: ena
- NCBI tax ID: 1267766
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Croceibacterium atlanticum 26DY36 | GCA_001008165 | complete | ncbi | 1267766 |
66792 | Croceibacterium atlanticum DSM 100738 | GCA_014199315 | scaffold | ncbi | 1267766 |
66792 | Altererythrobacter atlanticus strain 26DY36 | 1267766.8 | plasmid | patric | 1267766 |
66792 | Altererythrobacter atlanticus strain 26DY36 | 1267766.3 | complete | patric | 1267766 |
66792 | Altererythrobacter atlanticus strain DSM 100738 | 1267766.10 | wgs | patric | 1267766 |
66792 | Altererythrobacter atlanticus DSM 100738 | 2828423711 | draft | img | 1267766 |
GC content
@ref | GC-content | method |
---|---|---|
67770 | 61.9 | genome sequence analysis |
67770 | 59.4 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 65.722 | no |
motile | yes | 65.722 | no |
flagellated | no | 88.377 | no |
flagellated | no | 88.377 | no |
gram-positive | no | 97.242 | no |
gram-positive | no | 97.242 | no |
anaerobic | no | 97.888 | no |
anaerobic | no | 97.888 | no |
aerobic | yes | 87.769 | no |
aerobic | yes | 87.769 | no |
halophile | no | 78.947 | no |
halophile | no | 78.947 | no |
spore-forming | no | 95.129 | no |
spore-forming | no | 95.129 | no |
thermophile | no | 97.09 | no |
thermophile | no | 97.09 | no |
glucose-util | yes | 78.97 | no |
glucose-util | yes | 78.97 | no |
glucose-ferment | no | 93.056 | no |
glucose-ferment | no | 93.056 | no |
External links
@ref: 22492
culture collection no.: DSM 100738, CGMCC 1.12411, JCM 18865
straininfo link
- @ref: 89709
- straininfo: 407893
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 | |||
22492 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100738 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100738) | |||
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/ | ||||
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/ | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
89709 | 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-ID407893.1 |