Strain identifier
BacDive ID: 157974
Type strain: 
Species: Prosthecomicrobium hirschii
Strain Designation: 16
Strain history: <- J. T. Staley, Univ. of Washington, Seattle, USA; 16
NCBI tax ID(s): 665126 (species)
version 8.1 (current version)
General
@ref: 64547
BacDive-ID: 157974
DSM-Number: 16181
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Prosthecomicrobium hirschii 16 is a mesophilic, motile bacterium that was isolated from Muskrat Pond,.
NCBI tax id
- NCBI tax id: 665126
- Matching level: species
strain history
- @ref: 64547
- history: <- J. T. Staley, Univ. of Washington, Seattle, USA; 16
doi: 10.13145/bacdive157974.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Hyphomicrobiaceae
- genus: Prosthecomicrobium
- species: Prosthecomicrobium hirschii
- full scientific name: Prosthecomicrobium hirschii Staley 1984
synonyms
- @ref: 20215
- synonym: Prosthecodimorpha hirschii
@ref: 64547
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Hyphomicrobiaceae
genus: Prosthecomicrobium
species: Prosthecomicrobium hirschii
full scientific name: Prosthecomicrobium hirschii Staley 1984
strain designation: 16
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 95.774 | |
| 69480 | 99.997 | negative |
Culture and growth conditions
culture medium
- @ref: 64547
- name: MMB MEDIUM (DSMZ Medium 1417)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1417
- composition: Name: MMB MEDIUM (DSMZ Medium 1417) Composition: Agar 15.0 g/l Glucose 1.0 g/l MgSO4 x 7 H2O 0.565714 g/l Ammonium Sulfate 0.25 g/l Nitrilotriacetic acid 0.190476 g/l Peptone 0.15 g/l Yeast extract 0.15 g/l CaCl2 x 2 H2O 0.063619 g/l ZnSO4 x 7 H2O 0.00104762 g/l FeSO4 x 7 H2O 0.00047619 g/l EDTA 0.000238095 g/l Ammonium Molybdate 0.00017619 g/l MnSO4 x 7 H2O 0.000146667 g/l Thiamine HCl 5e-05 g/l Riboflavin 5e-05 g/l D-Calcium pantothenate 5e-05 g/l CuSO4 x 5 H2O 3.80952e-05 g/l Co(NO3)2 x 6 H2O 2.38095e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Na2B4O7 x 10 H2O 1.71429e-05 g/l Vitamin B12 1e-06 g/l Distilled water
culture temp
- @ref: 64547
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 99.979 |
| 69481 | no | 94 |
Isolation, sampling and environmental information
isolation
- @ref: 64547
- sample type: Muskrat (Botany) Pond,
- geographic location: Chapel Hill, North Carolina
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Pond (small) |
| #Host | #Mammals | #Rodentia (Other) |
taxonmaps
- @ref: 69479
- File name: preview.99_9635.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_4675;97_5666;98_7120;99_9635&stattab=map
- Last taxonomy: Prosthecomicrobium hirschii subclade
- 16S sequence: HM037994
- Sequence Identity:
- Total samples: 4904
- soil counts: 439
- aquatic counts: 4069
- animal counts: 192
- plant counts: 204
Safety information
risk assessment
- @ref: 64547
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 64547
- description: Prosthecomicrobium hirschii ATCC:27832 16S ribosomal RNA gene, partial sequence
- accession: HM037994
- length: 1463
- database: ena
- NCBI tax ID: 665126
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Prosthecomicrobium hirschii 16 | GCA_001305515 | scaffold | ncbi | 665126 |
| 66792 | Prosthecomicrobium hirschii strain 16 | 665126.4 | wgs | patric | 665126 |
| 66792 | Prosthecomicrobium hirschii ATCC 27832 | 2502376840 | draft | img | 665126 |
| 66792 | Prosthecomicrobium hirschii 16 | 2648501921 | draft | img | 665126 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 94 | no |
| motile | yes | 84.584 | no |
| flagellated | no | 70.53 | no |
| gram-positive | no | 98.428 | no |
| anaerobic | no | 95.175 | no |
| aerobic | yes | 83.079 | no |
| halophile | no | 94.449 | no |
| spore-forming | no | 94.582 | no |
| glucose-util | yes | 90.945 | no |
| thermophile | no | 95.303 | yes |
| glucose-ferment | no | 90.122 | no |
External links
@ref: 64547
culture collection no.: DSM 16181, ATCC 27832
straininfo link
- @ref: 110823
- straininfo: 39204
literature
- topic: Genetics
- Pubmed-ID: 26586892
- title: Draft Genome Sequence of Prosthecomicrobium hirschii ATCC 27832T.
- authors: Daniel JJ, Givan SA, Brun YV, Brown PJ
- journal: Genome Announc
- DOI: 10.1128/genomeA.01355-15
- year: 2015
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 | |||
| 64547 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16181 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16181) | |||
| 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 | |
| 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 | |||
| 110823 | 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-ID39204.1 |