Strain identifier
BacDive ID: 159031
Type strain: 
Species: Porcincola intestinalis
Strain Designation: Oil+RF-744-WCA-WT-11, Oil-RF-744-WCA-WT-11
Strain history: B. Abt; DSMZ, Germany; DSM 106895 (=Oil+RF-744-WCA-WT-11) <-- T. Clavel; RWTH Aachen, Germany.
NCBI tax ID(s): 2606632 (species)
version 9.1 (current version)
General
@ref: 65854
BacDive-ID: 159031
DSM-Number: 106895
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, Gram-positive
description: Porcincola intestinalis Oil+RF-744-WCA-WT-11 is an anaerobe, Gram-positive bacterium that builds chains of cells and was isolated from Aachener Minipig, WT, 4 months old, feces.
NCBI tax id
- NCBI tax id: 2606632
- Matching level: species
strain history
| @ref | history |
|---|---|
| 65854 | <- T. Clavel, RWTH Aachen; |
| 67770 | B. Abt; DSMZ, Germany; DSM 106895 (=Oil+RF-744-WCA-WT-11) <-- T. Clavel; RWTH Aachen, Germany. |
doi: 10.13145/bacdive159031.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Lachnospiraceae
- genus: Porcincola
- species: Porcincola intestinalis
- full scientific name: Porcincola intestinalis Wylensek et al. 2021
@ref: 65854
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Eubacteriales
family: Lachnospiraceae
genus: Porcincola
species: Porcincola intestinalis
full scientific name: Porcincola intestinalis
strain designation: Oil+RF-744-WCA-WT-11, Oil-RF-744-WCA-WT-11
type strain: yes
Morphology
cell morphology
- @ref: 69645
- gram stain: positive
- motility: no
multicellular morphology
- @ref: 69645
- forms multicellular complex: yes
- complex name: chains of cells
- complex size: 10 µm
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 65854 | GAM Broth (Gifu Anaerobic Medium Broth) (DSMZ Medium 1713) | yes | https://mediadive.dsmz.de/medium/1713 | Name: GAM Broth (Gifu Anaerobic Medium Broth) (DSMZ Medium 1713) Composition: GAM Broth powder 59.0 g/l Distilled water |
| 69645 | Wilkins-Chalgren Anaerobe broth | yes | supplemented with L-cysteine and DTT (0.05% and 0.02% (w/v), respectively) | |
| 69645 | Gifu Anaerobic Medium, modi?ed | yes | ||
| 69645 | Oil-RF-PBS broth | yes |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 65854 | positive | growth | 37 |
| 67770 | positive | growth | 37 |
| 69645 | positive | growth | 37 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 69480 | anaerobe | 93.279 |
| 69645 | obligate anaerobe |
observation
- @ref: 69645
- observation: Deconjugates primary bile acids
enzymes
- @ref: 69645
- value: lipase
- activity: +
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | enrichment culture | enrichment culture duration | enrichment culture temperature | isolation procedure |
|---|---|---|---|---|---|---|---|---|---|
| 65854 | Aachener Minipig, WT, 4 months old, feces | Aachen | Germany | DEU | Europe | ||||
| 67770 | Feces of an Aachen minipig in Germany | ||||||||
| 69645 | Pig feces | Aachen, NRW | Germany | DEU | Europe | Oil-RF-PBS broth | 7 days | 37 | anaerobic |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
| #Host | #Mammals | #Suidae (Pig,Swine) |
taxonmaps
- @ref: 69479
- File name: preview.99_10314.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1148;96_5105;97_6163;98_7690;99_10314&stattab=map
- Last taxonomy: Lachnospiraceae
- 16S sequence: MN537519
- Sequence Identity:
- Total samples: 5379
- soil counts: 153
- aquatic counts: 89
- animal counts: 5058
- plant counts: 79
Sequence information
16S sequences
- @ref: 65854
- description: Porcincola intestinalis strain Oil+RF-744-WCA-WT-11 16S ribosomal RNA gene, partial sequence
- accession: MN537519
- length: 1475
- database: nuccore
- NCBI tax ID: 2652303
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Porcincola intestinalis Oil+RF-744-WCA-WT-11 | GCA_009696445 | contig | ncbi | 2606632 |
| 66792 | Lachnospiraceae bacterium Oil+RF-744-WCA-WT-11 strain Oil+RF-744-WCA-WT-11 strain Oil+RF-744-WCA-WT-11 strain Oil+RF-744-WCA-WT-11 | 2606632.3 | wgs | patric | 2606632 |
| 69645 | Whole genome shotgun | VULZ00000000 | ncbi | 2606632 |
GC content
- @ref: 69645
- GC-content: 52
- method: genome sequence analysis
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 57 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 72.712 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 93.279 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 65.745 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 95.287 | yes |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 94.496 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 84.802 | no |
External links
@ref: 65854
culture collection no.: DSM 106895, JCM 34417
straininfo link
- @ref: 111545
- straininfo: 408249
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 65854 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-106895 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 106895) | |
| 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 | |
| 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 | |
| 69645 | David Wylensek, Thomas C. A. Hitch, Thomas Riedel, Afrizal Afrizal, Neeraj Kumar, Esther Wortmann, Tianzhe Liu, Saravanan Devendran, Till R. Lesker, Sara B. Hernández, Viktoria Heine, Eva M. Buhl, Paul M. D'Agostino, Fabio Cumbo, Thomas Fischöder, Marzena Wyschkon, Torey Looft, Valeria R. Parreira, Birte Abt, Heidi L. Doden, Lindsey Ly, João M. P. Alves, Markus Reichlin, Krzysztof Flisikowski, Laura Navarro Suarez, Anthony P. Neumann, Garret Suen, Tomas de Wouters, Sascha Rohn, Ilias Lagkouvardos, Emma Allen-Vercoe, Cathrin Spröer, Boyke Bunk, Anja J. Taverne-Thiele, Marcel Giesbers, Jerry M. Wells, Klaus Neuhaus, Angelika Schnieke, Felipe Cava, Nicola Segata, Lothar Elling, Till Strowig, Jason M. Ridlon, Tobias A. M. Gulder, Jörg Overmann, Thomas Clavel | A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity | 10.1038/s41467-020-19929-w | |
| 111545 | 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-ID408249.1 |