Strain identifier
BacDive ID: 18085
Type strain: 
Species: Syntrophaceticus schinkii
Strain Designation: Sp3
Strain history: A. Schnürer Sp3.
NCBI tax ID(s): 499207 (species)
version 8.1 (current version)
General
@ref: 15997
BacDive-ID: 18085
DSM-Number: 21860
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Syntrophaceticus schinkii Sp3 is an anaerobe, mesophilic bacterium that was isolated from upflow anaerobic filter treating waste water from a fish meal factory.
NCBI tax id
- NCBI tax id: 499207
- Matching level: species
strain history
| @ref | history |
|---|---|
| 15997 | <- A. Schnürer, Swedish Univ. Agric. Sci., Uppsala, Sweden; Sp3 <- A. Schnürer {2002} |
| 67770 | A. Schnürer Sp3. |
doi: 10.13145/bacdive18085.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Thermoanaerobacterales
- family: Thermoanaerobacteraceae
- genus: Syntrophaceticus
- species: Syntrophaceticus schinkii
- full scientific name: Syntrophaceticus schinkii Westerholm et al. 2011
@ref: 15997
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Thermoanaerobacterales
family: Clostridia, not assigned to family
genus: Syntrophaceticus
species: Syntrophaceticus schinkii
full scientific name: Syntrophaceticus schinkii Westerholm et al. 2011
strain designation: Sp3
type strain: yes
Morphology
colony morphology
- @ref: 15997
- incubation period: >14 days
Culture and growth conditions
culture medium
- @ref: 15997
- name: TEPIDANAEROBACTER MEDIUM (DSMZ Medium 1051)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1051
- composition: Name: TEPIDANAEROBACTER MEDIUM (DSMZ Medium 1051; with strain-specific modifications) Composition: Ammonium chloride 2.5 g/l Yeast extract 2.3 g/l Na2CO3 1.5 g/l Betaine 1.1 g/l NH4Cl 0.54 g/l Na2S x 9 H2O 0.3 g/l L-Cysteine HCl x H2O 0.3 g/l MgCl2 x 6 H2O 0.2 g/l KH2PO4 0.14 g/l Nitrilotriacetic acid 0.0128 g/l NaCl 0.001 g/l NaOH 0.0005 g/l Sodium resazurin 0.0005 g/l FeCl2 x 4 H2O 0.0002 g/l CoCl2 x 6 H2O 0.00017 g/l CaCl2 x 2 H2O 0.0001 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 0.0001 g/l NiCl2 x 6 H2O 3e-05 g/l CuCl2 2e-05 g/l Pyridoxine hydrochloride 2e-05 g/l p-Aminobenzoic acid 1e-05 g/l Calcium D-(+)-pantothenate 1e-05 g/l Nicotinic acid 1e-05 g/l Riboflavin 1e-05 g/l Thiamine HCl 1e-05 g/l Na2MoO4 x 2 H2O 1e-05 g/l H3BO3 1e-05 g/l (DL)-alpha-Lipoic acid 1e-05 g/l Na2WO4 x 2 H2O 4e-06 g/l Biotin 4e-06 g/l Folic acid 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Vitamin B12 2e-07 g/l Selenite-tungstate solution Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 15997 | positive | growth | 37 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 15997
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 15997 | upflow anaerobic filter treating waste water from a fish meal factory | Santiago de Compostella | Spain | ESP | Europe |
| 67770 | Sludge from an upflow anaerobic filtering wastewater from a fishmeal factory |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | #Engineered product |
| #Engineered | #Industrial | #Plant (Factory) |
| #Engineered | #Waste | #Wastewater |
| #Condition | #Anoxic (anaerobic) |
taxonmaps
- @ref: 69479
- File name: preview.99_6441.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_176;96_3048;97_3745;98_4753;99_6441&stattab=map
- Last taxonomy: Syntrophaceticus schinkii subclade
- 16S sequence: EU386162
- Sequence Identity:
- Total samples: 3759
- soil counts: 370
- aquatic counts: 830
- animal counts: 2431
- plant counts: 128
Safety information
risk assessment
- @ref: 15997
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15997
- description: Syntrophaceticus schinkii strain Sp3 16S ribosomal RNA gene, partial sequence
- accession: EU386162
- length: 1416
- database: ena
- NCBI tax ID: 499207
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Syntrophaceticus schinkii Sp3 | 2622736413 | draft | img | 499207 |
| 67770 | Syntrophaceticus schinkii Sp3 | GCA_000946815 | contig | ncbi | 499207 |
GC content
- @ref: 15997
- GC-content: 45.6
External links
@ref: 15997
culture collection no.: DSM 21860, JCM 16669
straininfo link
- @ref: 87073
- straininfo: 402782
literature
- topic: Phylogeny
- Pubmed-ID: 20546311
- title: Syntrophaceticus schinkii gen. nov., sp. nov., an anaerobic, syntrophic acetate-oxidizing bacterium isolated from a mesophilic anaerobic filter.
- authors: Westerholm M, Roos S, Schnurer A
- journal: FEMS Microbiol Lett
- DOI: 10.1111/j.1574-6968.2010.02023.x
- year: 2010
- mesh: Acetates/*metabolism, Anaerobiosis, Bioreactors/microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Gram-Positive Bacteria/classification/genetics/*isolation & purification/*metabolism, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Sewage/microbiology
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 15997 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21860) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21860 | |||
| 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 | |||
| 87073 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402782.1 | StrainInfo: A central database for resolving microbial strain identifiers |