Strain identifier
BacDive ID: 2286
Type strain: 
Species: Trichococcus flocculiformis
Strain Designation: ES5
Strain history: <- A.H. van Gelder, Lab. Microbiology, Wageningen Univ., Netherlands; ES5
NCBI tax ID(s): 82803 (species)
version 8.1 (current version)
General
@ref: 17451
BacDive-ID: 2286
DSM-Number: 23957
keywords: genome sequence, 16S sequence, Bacteria, anaerobe
description: Trichococcus flocculiformis ES5 is an anaerobe bacterium that was isolated from UASB reactor treating paper mill waste.
NCBI tax id
- NCBI tax id: 82803
- Matching level: species
strain history
- @ref: 17451
- history: <- A.H. van Gelder, Lab. Microbiology, Wageningen Univ., Netherlands; ES5
doi: 10.13145/bacdive2286.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Carnobacteriaceae
- genus: Trichococcus
- species: Trichococcus flocculiformis
- full scientific name: Trichococcus flocculiformis Scheff et al. 1984
@ref: 17451
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Carnobacteriaceae
genus: Trichococcus
species: Trichococcus flocculiformis
full scientific name: Trichococcus flocculiformis Scheff et al. 1984 emend. Liu et al. 2002
strain designation: ES5
type strain: no
Culture and growth conditions
culture medium
- @ref: 17451
- name: SYNTROPHOBACTER (MPOB) MEDIUM (DSMZ Medium 684)
- growth: yes
- link: https://mediadive.dsmz.de/medium/684
- composition: Name: SYNTROPHOBACTER (MPOB) MEDIUM (DSMZ Medium 684; with strain-specific modifications) Composition: Glycerol 2.3 g/l Na2CO3 1.49551 g/l Na2HPO4 x 2 H2O 0.528415 g/l Na2S x 9 H2O 0.498504 g/l KH2PO4 0.408774 g/l NH4Cl 0.299103 g/l NaCl 0.299103 g/l Yeast extract 0.199402 g/l CaCl2 x 2 H2O 0.109671 g/l MgCl2 x 6 H2O 0.0997009 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water
Physiology and metabolism
oxygen tolerance
- @ref: 17451
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 17451
- sample type: UASB reactor treating paper mill waste
- geographic location: Eerbeek
- country: Netherlands
- origin.country: NLD
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Biodegradation | #Anaerobic digestor |
| #Engineered | #Bioreactor | |
| #Engineered | #Waste | #Industrial wastewater |
taxonmaps
- @ref: 69479
- File name: preview.99_24449.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_13;96_12252;97_14862;98_18388;99_24449&stattab=map
- Last taxonomy: Trichococcus
- 16S sequence: HM773034
- Sequence Identity:
- Total samples: 38677
- soil counts: 4890
- aquatic counts: 19650
- animal counts: 13208
- plant counts: 929
Sequence information
16S sequences
- @ref: 17451
- description: Trichococcus sp. ES5 16S ribosomal RNA gene, partial sequence
- accession: HM773034
- length: 1436
- database: ena
- NCBI tax ID: 872292
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Trichococcus flocculiformis DSM 23957 | GCA_900129415 | scaffold | ncbi | 82803 |
| 66792 | Trichococcus flocculiformis strain DSM 23957 | 82803.10 | wgs | patric | 82803 |
| 66792 | Trichococcus flocculiformis DSM 23957 | 2619618835 | draft | img | 82803 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 91.676 | no |
| flagellated | no | 93.969 | no |
| gram-positive | yes | 93.629 | no |
| anaerobic | no | 71.281 | yes |
| aerobic | no | 94.885 | no |
| halophile | yes | 61.036 | no |
| spore-forming | no | 86.55 | no |
| thermophile | no | 99.459 | no |
| glucose-util | yes | 89.61 | no |
| glucose-ferment | yes | 79.654 | no |
External links
@ref: 17451
culture collection no.: DSM 23957
straininfo link
- @ref: 71844
- straininfo: 406731
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 17451 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23957) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23957 | |
| 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) | |
| 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 | |
| 71844 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID406731.1 | StrainInfo: A central database for resolving microbial strain identifiers |