Strain identifier
BacDive ID: 2864
Type strain: 
Species: Alkaliphilus peptidifermentans
Strain Designation: Z-7036
Strain history: <- T. N. Zhilina, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; Z-7036 <- T. N. Zhilina {2002}
NCBI tax ID(s): 1120976 (strain), 426129 (species)
version 8.1 (current version)
General
@ref: 7810
BacDive-ID: 2864
DSM-Number: 18978
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, motile
description: Alkaliphilus peptidifermentans Z-7036 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from bottom sediments of low-mineralization soda lake.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 426129 | species |
| 1120976 | strain |
strain history
- @ref: 7810
- history: <- T. N. Zhilina, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; Z-7036 <- T. N. Zhilina {2002}
doi: 10.13145/bacdive2864.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Clostridiaceae
- genus: Alkaliphilus
- species: Alkaliphilus peptidifermentans
- full scientific name: Alkaliphilus peptidifermentans corrig. Zhilina et al. 2009
synonyms
- @ref: 20215
- synonym: Alkaliphilus peptidofermentans
@ref: 7810
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Alkaliphilus
species: Alkaliphilus peptidifermentans
full scientific name: Alkaliphilus peptidifermentans Zhilina et al. 2009
strain designation: Z-7036
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 94.174 | |
| 69480 | 100 | positive |
Culture and growth conditions
culture medium
- @ref: 7810
- name: ANOXYBACILLUS MEDIUM (DSMZ Medium 898)
- growth: yes
- link: https://mediadive.dsmz.de/medium/898
- composition: Name: ANOXYBACILLUS MEDIUM (DSMZ Medium 898) Composition: NaHCO3 9.98004 g/l D-Glucose 4.99002 g/l NaCl 4.99002 g/l Na2CO3 2.75449 g/l NH4Cl 0.998004 g/l Yeast extract 0.499002 g/l Na2S x 9 H2O 0.499002 g/l KCl 0.199601 g/l KH2PO4 0.199601 g/l MgCl2 x 6 H2O 0.0998004 g/l HCl 0.00249501 g/l FeCl2 x 4 H2O 0.00149701 g/l Sodium resazurin 0.000499002 g/l CoCl2 x 6 H2O 0.000189621 g/l Pyridoxine hydrochloride 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l ZnCl2 6.98603e-05 g/l Thiamine HCl 4.99002e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l Na2MoO4 x 2 H2O 3.59281e-05 g/l NiCl2 x 6 H2O 2.39521e-05 g/l Folic acid 1.99601e-05 g/l Biotin 1.99601e-05 g/l H3BO3 5.98802e-06 g/l CuCl2 x 2 H2O 1.99601e-06 g/l Vitamin B12 9.98004e-07 g/l Distilled water
culture temp
- @ref: 7810
- growth: positive
- type: growth
- temperature: 35
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 7810 | anaerobe | |
| 69480 | anaerobe | 99.26 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 7810
- sample type: bottom sediments of low-mineralization soda lake
- geographic location: Buryatia, lake Verkhnee Beloe
- country: Russia
- origin.country: RUS
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Terrestrial | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_140144.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_191;96_12603;97_15293;98_93172;99_140144&stattab=map
- Last taxonomy: Alkaliphilus
- 16S sequence: EF382660
- Sequence Identity:
- Total samples: 19
- soil counts: 3
- aquatic counts: 16
Safety information
risk assessment
- @ref: 7810
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7810
- description: Alkaliphilus peptidofermentans strain Z-7036 16S ribosomal RNA gene, partial sequence
- accession: EF382660
- length: 1523
- database: ena
- NCBI tax ID: 426129
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Alkaliphilus peptidifermentans DSM 18978 | GCA_900101495 | scaffold | ncbi | 1120976 |
| 66792 | Alkaliphilus peptidifermentans DSM 18978 | 1120976.3 | wgs | patric | 1120976 |
| 66792 | Alkaliphilus peptidifermentans DSM 18978 | 2599185223 | draft | img | 1120976 |
GC content
- @ref: 7810
- GC-content: 33.8
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | yes | 88.389 | no |
| flagellated | no | 52.936 | no |
| gram-positive | no | 51.046 | no |
| anaerobic | yes | 96.076 | no |
| aerobic | no | 95.667 | no |
| halophile | no | 86.465 | no |
| spore-forming | yes | 94.199 | no |
| glucose-ferment | no | 63.686 | no |
| thermophile | no | 97.792 | yes |
| glucose-util | yes | 90.593 | no |
External links
@ref: 7810
culture collection no.: DSM 18978, VKM B-2502
straininfo link
- @ref: 72388
- straininfo: 402705
literature
- topic: Phylogeny
- Pubmed-ID: 28632119
- title: Alkaliphilus namsaraevii sp. nov., an alkaliphilic iron- and sulfur-reducing bacterium isolated from a steppe soda lake.
- authors: Zakharyuk A, Kozyreva L, Ariskina E, Troshina O, Kopitsyn D, Shcherbakova V
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.001904
- year: 2017
- mesh: Alkalies, Bacterial Typing Techniques, Base Composition, Clostridiales/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ferric Compounds/metabolism, Lakes/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Russia, Sequence Analysis, DNA, Sulfur, Sulfur-Reducing Bacteria/*classification/genetics/isolation & purification
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 7810 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18978) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18978 | |||
| 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 | |||
| 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) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 72388 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402705.1 | StrainInfo: A central database for resolving microbial strain identifiers |