Strain identifier
BacDive ID: 2870
Type strain: 
Species: Lutispora thermophila
Strain history: <- K. Ueda; EBR46
NCBI tax ID(s): 1122184 (strain), 288966 (species)
version 8.1 (current version)
General
@ref: 7834
BacDive-ID: 2870
DSM-Number: 19022
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, Gram-positive, motile, rod-shaped
description: Lutispora thermophila DSM 19022 is an anaerobe, spore-forming, thermophilic bacterium that was isolated from methanogenic fermentor.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 288966 | species |
| 1122184 | strain |
strain history
- @ref: 7834
- history: <- K. Ueda; EBR46
doi: 10.13145/bacdive2870.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Clostridiaceae
- genus: Lutispora
- species: Lutispora thermophila
- full scientific name: Lutispora thermophila Shiratori et al. 2008
@ref: 7834
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Lutispora
species: Lutispora thermophila
full scientific name: Lutispora thermophila Shiratori et al. 2008
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 32434 | positive | 6.75 µm | 0.7 µm | rod-shaped | yes | |
| 69480 | yes | 92.815 | ||||
| 69480 | positive | 100 |
pigmentation
- @ref: 32434
- production: yes
Culture and growth conditions
culture medium
- @ref: 7834
- name: PY + X MEDIUM (DSMZ Medium 104b)
- growth: yes
- link: https://mediadive.dsmz.de/medium/104b
- composition: Name: PY + X MEDIUM (DSMZ Medium 104b; with strain-specific modifications) Composition: Yeast extract 10.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l Na-pyruvate 2.0 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 |
|---|---|---|---|---|
| 7834 | positive | growth | 55 | thermophilic |
| 32434 | positive | growth | 40-60 | thermophilic |
| 32434 | positive | optimum | 56.5 | thermophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 32434 | positive | growth | 06-09 | alkaliphile |
| 32434 | positive | optimum | 7.75 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 7834 | anaerobe | |
| 32434 | anaerobe | |
| 69480 | anaerobe | 100 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 32434 | yes | |
| 69481 | yes | 100 |
| 69480 | yes | 95.388 |
halophily
- @ref: 32434
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-2 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 32434 | 15361 | pyruvate | + | carbon source |
| 32434 | 17822 | serine | + | carbon source |
| 32434 | 26986 | threonine | + | carbon source |
| 32434 | 4853 | esculin | + | hydrolysis |
metabolite production
| @ref | Chebi-ID | metabolite | production |
|---|---|---|---|
| 32434 | 16136 | hydrogen sulfide | yes |
| 32434 | 35581 | indole | yes |
metabolite tests
- @ref: 32434
- Chebi-ID: 35581
- metabolite: indole
- indole test: +
enzymes
- @ref: 32434
- value: gelatinase
- activity: +
Isolation, sampling and environmental information
isolation
- @ref: 7834
- sample type: methanogenic fermentor
- country: Japan
- origin.country: JPN
- continent: Asia
isolation source categories
| Cat1 | Cat2 |
|---|---|
| #Engineered | #Biodegradation |
| #Condition | #Anoxic (anaerobic) |
taxonmaps
- @ref: 69479
- File name: preview.99_66232.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1043;96_25689;97_36142;98_46736;99_66232&stattab=map
- Last taxonomy: Lutispora thermophila subclade
- 16S sequence: AB186360
- Sequence Identity:
- Total samples: 2027
- soil counts: 202
- aquatic counts: 364
- animal counts: 1337
- plant counts: 124
Safety information
risk assessment
- @ref: 7834
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7834
- description: Lutispora thermophila gene for 16S rRNA
- accession: AB186360
- length: 1438
- database: ena
- NCBI tax ID: 1122184
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Lutispora thermophila DSM 19022 | GCA_900142105 | scaffold | ncbi | 1122184 |
| 66792 | Lutispora thermophila DSM 19022 | 1122184.3 | wgs | patric | 1122184 |
| 66792 | Lutispora thermophila DSM 19022 | 2585428153 | draft | img | 1122184 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 7834 | 36.2 | high performance liquid chromatography (HPLC) |
| 32434 | 36.2 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | yes | 86.29 | yes |
| flagellated | no | 73.998 | no |
| gram-positive | yes | 73.834 | yes |
| anaerobic | yes | 98.797 | yes |
| aerobic | no | 96.26 | yes |
| halophile | no | 90.54 | no |
| spore-forming | yes | 93.921 | yes |
| thermophile | yes | 63.674 | yes |
| glucose-util | yes | 79.384 | no |
| glucose-ferment | no | 63.43 | no |
External links
@ref: 7834
culture collection no.: DSM 19022, NBRC 102133, EBR 46
straininfo link
- @ref: 72394
- straininfo: 407745
literature
- topic: Phylogeny
- Pubmed-ID: 18398203
- title: Lutispora thermophila gen. nov., sp. nov., a thermophilic, spore-forming bacterium isolated from a thermophilic methanogenic bioreactor digesting municipal solid wastes.
- authors: Shiratori H, Ohiwa H, Ikeno H, Ayame S, Kataoka N, Miya A, Beppu T, Ueda K
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65490-0
- year: 2008
- mesh: Base Composition, Base Sequence, Bioreactors/microbiology, DNA Primers/genetics, DNA, Bacterial/chemistry/genetics, Fatty Acids/metabolism, Genes, Bacterial, Gram-Positive Endospore-Forming Rods/*classification/genetics/*isolation & purification/metabolism, Hot Temperature, Methane/biosynthesis, Microscopy, Electron, Transmission, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Refuse Disposal, Terminology as Topic
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 7834 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19022) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19022 | ||||
| 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 | ||||
| 32434 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28656 | 28776041 | ||
| 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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 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 | ||||
| 72394 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID407745.1 | StrainInfo: A central database for resolving microbial strain identifiers |