Strain identifier
BacDive ID: 12028
Type strain: 
Species: Polyangium fumosum
Strain Designation: Pl fu5
Strain history: DSM 14668 <-- H. Reichenbach Pl fu5.
NCBI tax ID(s): 889272 (species)
version 8.1 (current version)
General
@ref: 5472
BacDive-ID: 12028
DSM-Number: 14668
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Polyangium fumosum Pl fu5 is a mesophilic, Gram-negative bacterium that was isolated from soil with decaying plant material.
NCBI tax id
- NCBI tax id: 889272
- Matching level: species
strain history
| @ref | history |
|---|---|
| 5472 | <- H. Reichenbach; Pl fu5 |
| 67770 | DSM 14668 <-- H. Reichenbach Pl fu5. |
doi: 10.13145/bacdive12028.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Myxococcales
- family: Polyangiaceae
- genus: Polyangium
- species: Polyangium fumosum
- full scientific name: Polyangium fumosum Krzemieniewska and Krzemieniewski 1930 (Approved Lists 1980)
@ref: 5472
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Myxococcales
family: Polyangiaceae
genus: Polyangium
species: Polyangium fumosum
full scientific name: Polyangium fumosum Krzemieniewska and Krzemieniewski 1930
strain designation: Pl fu5
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.807
colony morphology
- @ref: 5472
- incubation period: >14 days
multimedia
- @ref: 5472
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_14668.jpg
- caption: fruiting bodies on agar medium 9. The small entities are sporangioles measuring about 20-40 µm
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 5472
- name: VY/2 AGAR (DSMZ Medium 9)
- growth: yes
- link: https://mediadive.dsmz.de/medium/9
- composition: Name: VY/2 AGAR (DSMZ Medium 9) Composition: Agar 15.0 g/l Baker's yeast 5.0 g/l CaCl2 x 2 H2O 1.36 g/l Vitamin B12 0.0005 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 5472 | positive | growth | 30 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.576
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 5472 | soil with decaying plant material | California, Rohnert Park | USA | USA | North America |
| 67770 | Soil with plant residues | CA | USA | USA | North America |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Decomposing plant |
taxonmaps
- @ref: 69479
- File name: preview.99_138875.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_400;96_21827;97_27248;98_34709;99_138875&stattab=map
- Last taxonomy: Polyangium fumosum
- 16S sequence: GU207879
- Sequence Identity:
- Total samples: 264
- soil counts: 217
- aquatic counts: 18
- animal counts: 17
- plant counts: 12
Safety information
risk assessment
- @ref: 5472
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5472
- description: Polyangium fumosum strain Pl fu5 16S ribosomal RNA gene, complete sequence
- accession: GU207879
- length: 1550
- database: ena
- NCBI tax ID: 889272
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Polyangium fumosum strain DSM 14668 | 889272.3 | wgs | patric | 889272 |
| 67770 | Polyangium fumosum DSM 14668 | GCA_005144585 | contig | ncbi | 889272 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 72 | no |
| motile | no | 86.491 | no |
| flagellated | no | 94.149 | no |
| gram-positive | no | 95.177 | no |
| anaerobic | no | 96.73 | no |
| halophile | no | 89.3 | no |
| spore-forming | no | 76.13 | no |
| thermophile | no | 97.687 | yes |
| glucose-util | yes | 76.367 | no |
| aerobic | yes | 76.246 | no |
| glucose-ferment | no | 90.427 | no |
External links
@ref: 5472
culture collection no.: DSM 14668, JCM 12636
straininfo link
- @ref: 81247
- straininfo: 297609
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24187023 | Designation of type strains for seven species of the order Myxococcales and proposal for neotype strains of Cystobacter ferrugineus, Cystobacter minus and Polyangium fumosum. | Lang E, Reichenbach H | Int J Syst Evol Microbiol | 10.1099/ijs.0.056440-0 | 2013 | Bacterial Typing Techniques, DNA, Bacterial/genetics, Myxococcales/*classification/cytology/genetics, *Phylogeny, Sequence Analysis, DNA | Transcriptome |
| Phylogeny | 27046779 | Racemicystis crocea gen. nov., sp. nov., a soil myxobacterium in the family Polyangiaceae. | Awal RP, Garcia R, Muller R | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001045 | 2016 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Myxococcales/*classification/genetics/isolation & purification, Philippines, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 5472 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14668) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14668 | |||
| 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 | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 81247 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID297609.1 | StrainInfo: A central database for resolving microbial strain identifiers |