Strain identifier
BacDive ID: 13884
Type strain: 
Species: Parazoarcus communis
Strain Designation: SWub 3
Strain history: <- LMG: two colony types <- B. Reinhold-Hurek, Univ. Bremen, Germany <- SWub 3
NCBI tax ID(s): 1121029 (strain), 41977 (species)
version 8.1 (current version)
General
@ref: 4606
BacDive-ID: 13884
DSM-Number: 12120
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Parazoarcus communis SWub 3 is a mesophilic bacterium that was isolated from roots of Leptochloa fusca Kunth grown on saline-sodic soils.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 41977 | species |
| 1121029 | strain |
strain history
- @ref: 4606
- history: <- LMG: two colony types <- B. Reinhold-Hurek, Univ. Bremen, Germany <- SWub 3
doi: 10.13145/bacdive13884.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Rhodocyclales
- family: Zoogloeaceae
- genus: Parazoarcus
- species: Parazoarcus communis
- full scientific name: Parazoarcus communis (Reinhold-Hurek et al. 1993) Huang et al. 2022
synonyms
- @ref: 20215
- synonym: Azoarcus communis
@ref: 4606
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Rhizobiales
family: Zoogloeaceae
genus: Azoarcus
species: Azoarcus communis
full scientific name: Azoarcus communis Reinhold-Hurek et al. 1993
strain designation: SWub 3
type strain: yes
Culture and growth conditions
culture medium
- @ref: 4606
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 4606
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 4606
- sample type: roots of Leptochloa fusca (L.) Kunth grown on saline-sodic soils
- host species: Leptochloa fusca
- geographic location: Punjab
- country: Pakistan
- origin.country: PAK
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Root (Rhizome) |
| #Condition | #Alkaline | |
| #Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_58102.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_129;96_15486;97_28170;98_35895;99_58102&stattab=map
- Last taxonomy: Azoarcus communis subclade
- 16S sequence: AF011343
- Sequence Identity:
- Total samples: 267
- soil counts: 24
- aquatic counts: 142
- animal counts: 19
- plant counts: 82
Safety information
risk assessment
- @ref: 4606
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4606
- description: Azoarcus communis 16S ribosomal RNA gene, partial sequence
- accession: AF011343
- length: 1350
- database: ena
- NCBI tax ID: 1121029
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Parazoarcus communis SWub3 = DSM 12120 | GCA_003226565 | contig | ncbi | 1121029 |
| 66792 | Parazoarcus communis SWub3 = DSM 12120 | GCA_012910815 | contig | ncbi | 1121029 |
| 66792 | Azoarcus communis SWub3 = DSM 12120 | 1121029.3 | wgs | patric | 1121029 |
| 66792 | Azoarcus communis DSM 12120 | 2574179768 | draft | img | 1121029 |
GC content
- @ref: 4606
- GC-content: 62.4
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 94.193 | no |
| flagellated | yes | 90.692 | no |
| gram-positive | no | 99.111 | no |
| anaerobic | no | 90.538 | no |
| aerobic | yes | 60.097 | no |
| halophile | no | 90.622 | no |
| spore-forming | no | 95.678 | no |
| thermophile | no | 97.726 | yes |
| glucose-util | no | 73.818 | no |
| glucose-ferment | no | 84.886 | no |
External links
@ref: 4606
culture collection no.: DSM 12120, ATCC 51397, LMG 9505, NCIMB 13565
straininfo link
- @ref: 83059
- straininfo: 9846
literature
- topic: Phylogeny
- Pubmed-ID: 30762514
- title: Aromatoleum gen. nov., a novel genus accommodating the phylogenetic lineage including Azoarcus evansii and related species, and proposal of Aromatoleum aromaticum sp. nov., Aromatoleum petrolei sp. nov., Aromatoleum bremense sp. nov., Aromatoleum toluolicum sp. nov. and Aromatoleum diolicum sp. nov.
- authors: Rabus R, Wohlbrand L, Thies D, Meyer M, Reinhold-Hurek B, Kampfer P
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.003244
- year: 2019
- mesh: Azoarcus, Bacterial Typing Techniques, DNA, Bacterial/genetics, Nucleic Acid Hybridization, *Phylogeny, Proteomics, RNA, Ribosomal, 16S/genetics, Rhodocyclaceae/*classification, Sequence Analysis, DNA
- topic2: Transcriptome
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4606 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12120) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12120 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 83059 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID9846.1 | StrainInfo: A central database for resolving microbial strain identifiers |