Strain identifier
BacDive ID: 130325
Type strain: 
Species: Aminicella lysinilytica
Strain Designation: WN037
Strain history: A. Ueki; Fac. of Agric., Yamagata Univ., Japan; WN037.
NCBI tax ID(s): 433323 (species)
version 8.1 (current version)
General
@ref: 22144
BacDive-ID: 130325
DSM-Number: 28287
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive
description: Aminicella lysinilytica WN037 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from methanogenic reactor treating cattle waste.
NCBI tax id
- NCBI tax id: 433323
- Matching level: species
strain history
| @ref | history |
|---|---|
| 22144 | <- A. Ueki, Yamagata Univ., Tsuruoka, Japan; WN037 |
| 67770 | A. Ueki; Fac. of Agric., Yamagata Univ., Japan; WN037. |
doi: 10.13145/bacdive130325.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Eubacteriaceae
- genus: Aminicella
- species: Aminicella lysinilytica
- full scientific name: Aminicella lysinilytica corrig. Ueki et al. 2015
synonyms
- @ref: 20215
- synonym: Aminocella lysinolytica
@ref: 22144
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Eubacteriaceae
genus: Aminicella
species: Aminicella lysinilytica
full scientific name: Aminicella lysinilytica Ueki et al. 2015
strain designation: WN037
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 22144
- name: PY + X MEDIUM (DSMZ Medium 104b)
- growth: yes
- link: https://mediadive.dsmz.de/medium/104b
- composition: Name: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 22144 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 22144 | anaerobe | |
| 69480 | anaerobe | 99.999 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.947 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 22144 | methanogenic reactor treating cattle waste | Hokkaido; Betsukai-machi | Japan | JPN | Asia |
| 67770 | Methanogenic reactor |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Bioreactor | |
| #Host | #Mammals | #Bovinae (Cow, Cattle) |
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
| #Condition | #Anoxic (anaerobic) |
taxonmaps
- @ref: 69479
- File name: preview.99_150224.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15810;96_20305;97_73793;98_99290;99_150224&stattab=map
- Last taxonomy: Aminicella lysinilytica subclade
- 16S sequence: AB298740
- Sequence Identity:
- Total samples: 3255
- soil counts: 346
- aquatic counts: 2399
- animal counts: 387
- plant counts: 123
Safety information
risk assessment
- @ref: 22144
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22144
- description: Aminicella lysinilytica gene for 16S rRNA, partial sequence
- accession: AB298740
- length: 1465
- database: ena
- NCBI tax ID: 433323
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Aminicella lysinilytica strain DSM 28287 | 433323.3 | wgs | patric | 433323 |
| 66792 | Aminicella lysinolytica DSM 28287 | 2795385453 | draft | img | 433323 |
| 67770 | Aminicella lysinilytica DSM 28287 | GCA_004362975 | scaffold | ncbi | 433323 |
GC content
- @ref: 22144
- GC-content: 44.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | yes | 70.73 | no |
| anaerobic | yes | 99.632 | yes |
| halophile | no | 84.22 | no |
| spore-forming | no | 61.451 | no |
| glucose-util | yes | 74.576 | no |
| aerobic | no | 98.794 | yes |
| flagellated | no | 97.865 | no |
| thermophile | no | 94.7 | yes |
| motile | no | 89.053 | no |
| glucose-ferment | yes | 62.941 | no |
External links
@ref: 22144
culture collection no.: DSM 28287, JCM 19863
straininfo link
- @ref: 88858
- straininfo: 400284
literature
- topic: Phylogeny
- Pubmed-ID: 25449329
- title: Aminocella lysinolytica gen. nov., sp. nov., a L-lysine-degrading, strictly anaerobic bacterium in the class Clostridia isolated from a methanogenic reactor of cattle farms.
- authors: Ueki A, Shibuya T, Kaku N, Ueki K
- journal: Arch Microbiol
- DOI: 10.1007/s00203-014-1066-z
- year: 2014
- mesh: Amino Acids/metabolism, Animals, Bacteria, Anaerobic/*classification/cytology/*isolation & purification/physiology, Base Composition, *Bioreactors, Cattle, Culture Media, DNA, Bacterial/genetics, Fatty Acids/analysis, Fermentation, Genes, rRNA, Gram-Positive Bacteria/*classification/cytology/*isolation & purification/physiology, Lysine/*metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Metabolism
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 | |||
| 22144 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28287 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28287) | |||
| 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 | |
| 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. | 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 | |||
| 88858 | 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-ID400284.1 |