Strain identifier
BacDive ID: 2758
Type strain: 
Species: Lacrimispora xylanolytica
Strain history: DSM 6555 <-- G. M. Rogers.
NCBI tax ID(s): 29375 (species)
version 9 (current version)
General
@ref: 2729
BacDive-ID: 2758
DSM-Number: 6555
keywords: 16S sequence, Bacteria, anaerobe
description: Lacrimispora xylanolytica DSM 6555 is an anaerobe bacterium that was isolated from decayed Pinus patula wood chips.
NCBI tax id
- NCBI tax id: 29375
- Matching level: species
strain history
| @ref | history |
|---|---|
| 2729 | <- G. M. Rogers, University of the Witwaterstrand, Department of Microbiology, Johannesburg, South Africa <- G. M. Rogers {1987} |
| 67770 | DSM 6555 <-- G. M. Rogers. |
doi: 10.13145/bacdive2758.20240510.9
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 xylanolytica
- full scientific name: Lacrimispora xylanolytica (Rogers and Baecker 1991) Haas and Blanchard 2020
synonyms
- @ref: 20215
- synonym: Clostridium xylanolyticum
@ref: 2729
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Lachnospiraceae
genus: Lacrimispora
species: Lacrimispora xylanolytica
full scientific name: Lacrimispora xylanolytica (Rogers and Baecker 1991) Haas and Blanchard 2020
type strain: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 2729 | CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) | yes | https://mediadive.dsmz.de/medium/110 | Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water |
| 2729 | PY + X MEDIUM (DSMZ Medium 104b) | yes | https://mediadive.dsmz.de/medium/104b | Name: PY + X MEDIUM (DSMZ Medium 104b; with strain-specific modifications) Composition: Yeast extract 10.0 g/l Xylan 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 |
|---|---|---|---|
| 2729 | positive | growth | 37 |
| 67770 | positive | growth | 37 |
Physiology and metabolism
oxygen tolerance
- @ref: 2729
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
| @ref | sample type | host species | country | origin.country | continent |
|---|---|---|---|---|---|
| 2729 | decayed Pinus patula wood chips | Pinus patula | South Africa | ZAF | Africa |
| 67770 | Decayed Pinus patula wood chips | Pinus patula |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Decomposing plant |
| #Host | #Plants | #Tree |
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: X76739
- Sequence Identity:
- Total samples: 1645
- soil counts: 221
- aquatic counts: 156
- animal counts: 1072
- plant counts: 196
Safety information
risk assessment
- @ref: 2729
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | C.xylanolyticum gene for 16S ribosomal RNA | X71855 | 1501 | nuccore | 29375 |
| 2729 | Clostridium xylanolyticum 16S rRNA gene, type strain DSM 6555T | X76739 | 1448 | nuccore | 29375 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 2729 | 40.0 | |
| 67770 | 40 | thermal denaturation, midpoint method (Tm) |
External links
@ref: 2729
culture collection no.: DSM 6555, ATCC 49623, JCM 15735
straininfo link
- @ref: 72288
- straininfo: 42587
literature
- topic: Metabolism
- Pubmed-ID: 11760953
- title: Metabolism of cinnamic acids by some Clostridiales and emendation of the descriptions of Clostridium aerotolerans, Clostridium celerecrescens and Clostridium xylanolyticum.
- authors: Chamkha M, Garcia JL, Labat M
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/00207713-51-6-2105
- year: 2001
- mesh: Bacterial Typing Techniques, Cinnamates/*metabolism, Clostridium/*classification/growth & development/*metabolism, Culture Media, Glucose/metabolism
- topic2: Cultivation
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 2729 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6555) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6555 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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 | |||
| 72288 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID42587.1 | StrainInfo: A central database for resolving microbial strain identifiers |