Strain identifier
BacDive ID: 2742
Type strain: 
Species: Lacrimispora aerotolerans
Strain Designation: X8A62
Strain history: DSM 5434 <-- ATCC 43524 <-- N. O. van Glyswyk X8A62.
NCBI tax ID(s): 36832 (species)
version 8.1 (current version)
General
@ref: 2166
BacDive-ID: 2742
DSM-Number: 5434
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive
description: Lacrimispora aerotolerans X8A62 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from sheep rumen.
NCBI tax id
- NCBI tax id: 36832
- Matching level: species
strain history
| @ref | history |
|---|---|
| 2166 | <- ATCC; ATCC 43524 <- N. O. van Gylswyk, Anaerobic Microbiology Division, Laboratory for Molecular and Cell Biology, Onderstepoort, South Africa; X8A62 |
| 67770 | DSM 5434 <-- ATCC 43524 <-- N. O. van Glyswyk X8A62. |
doi: 10.13145/bacdive2742.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Lachnospiraceae
- genus: Lacrimispora
- species: Lacrimispora aerotolerans
- full scientific name: Lacrimispora aerotolerans (van Gylswyk and van der Toorn 1987) Haas and Blanchard 2020
synonyms
- @ref: 20215
- synonym: Clostridium aerotolerans
@ref: 2166
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Lachnospiraceae
genus: Lacrimispora
species: Lacrimispora aerotolerans
full scientific name: Lacrimispora aerotolerans (van Gylswyk and van der Toorn 1987) Haas and Blanchard 2020
strain designation: X8A62
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 2166
- name: CLOSTRIDIUM AEROTOLERANS MEDIUM (DSMZ Medium 489)
- growth: yes
- link: https://mediadive.dsmz.de/medium/489
- composition: Name: LACRIMISPORA MEDIUM (DSMZ Medium 489) Composition: Xylan 5.0 g/l Yeast extract 5.0 g/l NaCl 0.45 g/l (NH4)2SO4 0.45 g/l KH2PO4 0.22 g/l K2HPO4 0.22 g/l Na2S x 9 H2O 0.15 g/l L-Cysteine HCl x H2O 0.15 g/l MgSO4 x 7 H2O 0.09 g/l CaCl2 x 2 H2O 0.06 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 2166 | positive | growth | 37 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 2166 | anaerobe | |
| 69480 | anaerobe | 99.396 |
spore formation
- @ref: 69480
- spore formation: yes
- confidence: 92.131
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 2166 | sheep rumen | South Africa | ZAF | Africa |
| 67770 | Rumen of a sheep |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Mammals | #Caprinae (Sheep/Goat) |
| #Host Body-Site | #Organ | #Rumen |
taxonmaps
- @ref: 69479
- File name: preview.99_423.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16;96_286;97_316;98_351;99_423&stattab=map
- Last taxonomy: Lacrimispora
- 16S sequence: AB910753
- Sequence Identity:
- Total samples: 1645
- soil counts: 221
- aquatic counts: 156
- animal counts: 1072
- plant counts: 196
Safety information
risk assessment
- @ref: 2166
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 2166 | Clostridium aerotolerans 16S rRNA gene, strain DSM 5434 | X76163 | 1470 | ena | 36832 |
| 67770 | Clostridium aerotolerans gene for 16S ribosomal RNA, partial sequence | AB910753 | 1129 | ena | 36832 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | [Clostridium] aerotolerans DSM 5434 | 1410651.3 | wgs | patric | 1410651 |
| 66792 | Lachnoclostridium aerotolerans DSM 5434 | 2558860131 | draft | img | 1410651 |
| 67770 | [Clostridium] aerotolerans DSM 5434 | GCA_000687555 | contig | ncbi | 1410651 |
GC content
| @ref | GC-content |
|---|---|
| 2166 | 40.0 |
| 67770 | 40 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 87 | no |
| motile | yes | 83.313 | no |
| gram-positive | yes | 56.712 | no |
| anaerobic | yes | 98.111 | yes |
| halophile | no | 95.7 | no |
| spore-forming | yes | 82.995 | no |
| thermophile | no | 99.289 | no |
| glucose-util | yes | 83.261 | no |
| aerobic | no | 97.156 | yes |
| flagellated | yes | 58.317 | no |
| glucose-ferment | yes | 71.148 | no |
External links
@ref: 2166
culture collection no.: DSM 5434, ATCC 43524, CCUG 55584, JCM 15733
straininfo link
| @ref | straininfo |
|---|---|
| 72271 | 47024 |
| 72272 | 409769 |
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Metabolism | 11760953 | Metabolism of cinnamic acids by some Clostridiales and emendation of the descriptions of Clostridium aerotolerans, Clostridium celerecrescens and Clostridium xylanolyticum. | Chamkha M, Garcia JL, Labat M | Int J Syst Evol Microbiol | 10.1099/00207713-51-6-2105 | 2001 | Bacterial Typing Techniques, Cinnamates/*metabolism, Clostridium/*classification/growth & development/*metabolism, Culture Media, Glucose/metabolism | Cultivation |
| Phylogeny | 26637816 | Sellimonas intestinalis gen. nov., sp. nov., isolated from human faeces. | Seo B, Yoo JE, Lee YM, Ko G | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000817 | 2015 |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 2166 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5434) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-5434 | |
| 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) | |
| 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 | |
| 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) | |
| 72271 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47024.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 72272 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID409769.1 | StrainInfo: A central database for resolving microbial strain identifiers |