Strain identifier
BacDive ID: 158484
Type strain: 
Species: Profundibacter amoris
Strain Designation: BAR1, strain M
Strain history: H. Dahle; Center for Geobiol., Univ. of Bergen, Norway; BAR1.
NCBI tax ID(s): 2171755 (species)
version 8.1 (current version)
General
@ref: 65160
BacDive-ID: 158484
DSM-Number: 104147
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Profundibacter amoris BAR1 is a mesophilic, Gram-negative bacterium that was isolated from Microbial mat.
NCBI tax id
- NCBI tax id: 2171755
- Matching level: species
strain history
| @ref | history |
|---|---|
| 65160 | <- S. Le Moine Bauer, Univ. Bergen, Norway; BAR1 <- S. Le Moine Bauer, Univ. Bergen, Norway; BAR1 |
| 67770 | H. Dahle; Center for Geobiol., Univ. of Bergen, Norway; BAR1. |
doi: 10.13145/bacdive158484.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Roseobacteraceae
- genus: Profundibacter
- species: Profundibacter amoris
- full scientific name: Profundibacter amoris Le Moine Bauer et al. 2019
@ref: 65160
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Profundibacter
species: Profundibacter amoris
full scientific name: Profundibacter amoris Le Moine Bauer et al. 2019
strain designation: BAR1, strain M
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 65160
- 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 |
|---|---|---|---|---|
| 65160 | positive | growth | 25 | mesophilic |
| 67770 | positive | growth | 25 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 99.997 |
| 69481 | no | 100 |
observation
- @ref: 67770
- observation: quinones: Q-10
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | latitude | longitude |
|---|---|---|---|---|---|
| 65160 | Microbial mat | Northern Atlantic, Loki's castle vent field (73° 33' N, 08° 09' E) | International waters | 73.55 | 8.15 |
| 67770 | Microbial mat growing on the surface of a barite chimney at the Loki's Castle Vent Field (73° 33' N 08° 09' E) | 73.55 | 8.15 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Microbial community
- Cat3: #Microbial mat
Sequence information
16S sequences
- @ref: 65160
- description: Rhodobacteraceae bacterium BAR1 16S ribosomal RNA gene, partial sequence
- accession: MH883801
- length: 1470
- database: ena
- NCBI tax ID: 2171755
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Profundibacter amoris BAR1 | GCA_003544895 | complete | ncbi | 2171755 |
| 66792 | Rhodobacteraceae bacterium BAR1 | 2171755.3 | complete | patric | 2171755 |
| 66792 | Profundibacter amoris BAR1 | 2898017394 | complete | img | 2171755 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 65160 | 57.38 | sequence analysis |
| 67770 | 57.38 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 50 | no |
| flagellated | no | 89.753 | no |
| gram-positive | no | 98.107 | no |
| anaerobic | no | 96.959 | no |
| aerobic | yes | 72.959 | no |
| halophile | yes | 64.644 | no |
| spore-forming | no | 95.661 | no |
| glucose-util | no | 61.755 | no |
| thermophile | no | 95.094 | yes |
| glucose-ferment | no | 90.051 | no |
External links
@ref: 65160
culture collection no.: DSM 104147, JCM 31874
straininfo link
- @ref: 111279
- straininfo: 402421
literature
- topic: Phylogeny
- Pubmed-ID: 30758283
- title: Profundibacter amoris gen. nov., sp. nov., a new member of the Roseobacter clade isolated from Loki's Castle Vent Field on the Arctic Mid-Ocean Ridge.
- authors: Le Moine Bauer S, Sjoberg AG, L'Haridon S, Stokke R, Roalkvam I, Steen IH, Dahle H
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.003234
- year: 2019
- mesh: Arctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hydrothermal Vents/*microbiology, Oceans and Seas, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Roseobacter/*classification/isolation & purification, Seawater, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistry
- topic2: 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 | |
| 65160 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-104147 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 104147) | |
| 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/ | ||
| 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 | |
| 111279 | 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-ID402421.1 |