Strain identifier
BacDive ID: 1579
Type strain:
Species: Acetomicrobium faecale
Strain Designation: St. T
Strain history: M.-L. Fardeau; IRD-MIO, Aix-Marseille Univ., France <-- DSM 20678 <-- J. Winter; Univ. Regensburg, Germany; St. T.
NCBI tax ID(s): 937334 (species)
General
@ref: 9000
BacDive-ID: 1579
DSM-Number: 20678
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, Gram-positive
description: Acetomicrobium faecale St. T is an anaerobe, spore-forming, thermophilic bacterium that was isolated from sewage sludge.
NCBI tax id
- NCBI tax id: 937334
- Matching level: species
strain history
@ref | history |
---|---|
9000 | <- J. Winter, St. T |
67770 | M.-L. Fardeau; IRD-MIO, Aix-Marseille Univ., France <-- DSM 20678 <-- J. Winter; Univ. Regensburg, Germany; St. T. |
doi: 10.13145/bacdive1579.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/synergistota
- domain: Bacteria
- phylum: Synergistota
- class: Synergistia
- order: Synergistales
- family: Synergistaceae
- genus: Acetomicrobium
- species: Acetomicrobium faecale
- full scientific name: Acetomicrobium faecale corrig. Winter et al. 1988
synonyms
@ref synonym 20215 Acetomicrobium faecalis 20215 Caldicoprobacter faecalis
@ref: 9000
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Bacteroidales
family: Caldicoprobacteraceae
genus: Caldicoprobacter
species: Caldicoprobacter faecalis
full scientific name: Caldicoprobacter faecalis (Winter et al. 1988) Bouanane-Darenfed et al. 2015
strain designation: St. T
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 9000
- name: ACETOMICROBIUM FAECALIS MEDIUM (DSMZ Medium 412)
- growth: yes
- link: https://mediadive.dsmz.de/medium/412
- composition: Name: ACETOMICROBIUM FAECALIS MEDIUM (DSMZ Medium 412) Composition: NaHCO3 6.0 g/l Na-acetate 5.0 g/l Glucose 4.0 g/l Yeast extract 2.0 g/l Trypticase peptone 2.0 g/l L-Cysteine HCl x H2O 0.5 g/l KH2PO4 0.255 g/l (NH4)2SO4 0.255 g/l K2HPO4 0.225 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l CoSO4 x 7 H2O 0.0018 g/l ZnSO4 x 7 H2O 0.0018 g/l FeSO4 x 7 H2O 0.001 g/l Resazurin 0.001 g/l CaCl2 x 2 H2O 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l Na2MoO4 x 2 H2O 0.0001 g/l H3BO3 0.0001 g/l Pyridoxine hydrochloride 0.0001 g/l CuSO4 x 5 H2O 0.0001 g/l Nicotinic acid 5e-05 g/l (DL)-alpha-Lipoic acid 5e-05 g/l Thiamine HCl 5e-05 g/l Riboflavin 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Calcium D-(+)-pantothenate 5e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Vitamin B12 1e-06 g/l Distilled water
culture temp
@ref | growth | type | temperature | range | confidence |
---|---|---|---|---|---|
9000 | positive | growth | 70 | thermophilic | |
67770 | positive | growth | 70 | thermophilic | |
69480 | thermophilic | 100 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
9000 | anaerobe | |
69480 | anaerobe | 99.686 |
spore formation
- @ref: 69481
- spore formation: yes
- confidence: 100
murein
- @ref: 9000
- murein short key: A31
- type: A1gamma m-Dpm-direct
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
9000 | sewage sludge |
67770 | Sewage sludge |
isolation source categories
- Cat1: #Engineered
- Cat2: #Waste
- Cat3: #Sewage sludge
taxonmaps
- @ref: 69479
- File name: preview.99_28926.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3079;96_14245;97_17365;98_21577;99_28926&stattab=map
- Last taxonomy: Caldicoprobacter
- 16S sequence: FR749983
- Sequence Identity:
- Total samples: 1261
- soil counts: 174
- aquatic counts: 123
- animal counts: 903
- plant counts: 61
Safety information
risk assessment
- @ref: 9000
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Acetomicrobium faecale partial 16S rRNA gene, type strain DSM 20678T, clone 1 | FR749980 | 1543 | ena | 937334 |
20218 | Acetomicrobium faecale partial 16S rRNA gene, type strain DSM 20678T, clone 3 | FR749982 | 1541 | ena | 937334 |
20218 | Acetomicrobium faecale partial 16S rRNA gene, type strain DSM 20678T, clone 4 | FR749983 | 1537 | ena | 937334 |
9000 | Acetomicrobium faecale partial 16S rRNA gene, type strain DSM 20678T, clone 2 | FR749981 | 1542 | ena | 937334 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Caldicoprobacter faecalis strain DSM 20678 | 937334.3 | wgs | patric | 937334 |
66792 | Caldicoprobacter faecalis DSM 20678 | 2693429901 | draft | img | 937334 |
67770 | Caldicoprobacter faecalis DSM 20678 | GCA_900115765 | scaffold | ncbi | 937334 |
GC content
@ref | GC-content | method |
---|---|---|
9000 | 45.0 | |
67770 | 45 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
motile | no | 52.381 | no |
flagellated | no | 93.819 | no |
gram-positive | yes | 87.101 | no |
anaerobic | yes | 98.456 | yes |
halophile | no | 94.83 | no |
spore-forming | yes | 80.858 | no |
glucose-util | yes | 92.547 | no |
aerobic | no | 97.94 | no |
thermophile | yes | 100 | yes |
glucose-ferment | yes | 57.678 | no |
External links
@ref: 9000
culture collection no.: DSM 20678, JCM 30420
straininfo link
- @ref: 71224
- straininfo: 49667
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 23041645 | Caldicoprobacter guelmensis sp. nov., a thermophilic, anaerobic, xylanolytic bacterium isolated from a hot spring. | Bouanane-Darenfed A, Ben Hania W, Hacene H, Cayol JL, Ollivier B, Fardeau ML | Int J Syst Evol Microbiol | 10.1099/ijs.0.043497-0 | 2012 | Algeria, Bacteria, Anaerobic/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Fermentation, Gram-Positive Bacteria/*classification/genetics/isolation & purification, Hot Springs/*microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Xylans/metabolism | Enzymology |
Phylogeny | 26297233 | Reclassification of Acetomicrobium faecale as Caldicoprobacter faecalis comb. nov. | Bouanane-Darenfed A, Ben Hania W, Cayol JL, Ollivier B, Fardeau ML | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000409 | 2015 | Bacterial Typing Techniques, Base Composition, Clostridiales/*classification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gram-Positive Bacteria/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9000 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20678) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20678 | |||
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 | |
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 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
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) | |||
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 | |||
71224 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49667.1 | StrainInfo: A central database for resolving microbial strain identifiers |