Strain identifier
BacDive ID: 17676
Type strain: 
Species: Youngiibacter multivorans
Strain Designation: PeC1
Strain history: DSM 6139 <-- K. Tanaka PeC1.
NCBI tax ID(s): 937251 (species)
version 8.1 (current version)
General
@ref: 2502
BacDive-ID: 17676
DSM-Number: 6139
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Youngiibacter multivorans PeC1 is an anaerobe, mesophilic bacterium that was isolated from anoxic sludge, oil refinery waste water treatment facility.
NCBI tax id
- NCBI tax id: 937251
- Matching level: species
strain history
| @ref | history |
|---|---|
| 2502 | <- K. Tanaka; PeC1 <- K. Tanaka {1989} |
| 67770 | DSM 6139 <-- K. Tanaka PeC1. |
doi: 10.13145/bacdive17676.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Clostridiaceae
- genus: Youngiibacter
- species: Youngiibacter multivorans
- full scientific name: Youngiibacter multivorans (Tanaka et al. 1992) Lawson et al. 2014
synonyms
- @ref: 20215
- synonym: Acetivibrio multivorans
@ref: 2502
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Youngiibacter
species: Youngiibacter multivorans
full scientific name: Youngiibacter multivorans Lawson et al. 2014
strain designation: PeC1
type strain: yes
Culture and growth conditions
culture medium
- @ref: 2502
- name: FORMIVIBRIO MEDIUM (DSMZ Medium 505)
- growth: yes
- link: https://mediadive.dsmz.de/medium/505
- composition: Name: FORMIVIBRIO MEDIUM (DSMZ Medium 505; with strain-specific modifications) Composition: None 1.69492 g/l Na2CO3 1.49551 g/l KH2PO4 1.39581 g/l NH4Cl 0.498505 g/l Na2S x 9 H2O 0.299103 g/l MgCl2 x 6 H2O 0.199402 g/l CaCl2 x 2 H2O 0.149552 g/l Yeast extract 0.0498504 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498505 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 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
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 2502 | positive | growth | 30 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 2502 | anaerobe | |
| 69480 | anaerobe | 97.822 |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 98.609
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 2502 | anoxic sludge, oil refinery waste water treatment facility | Yokohama | Japan | JPN | Asia |
| 67770 | Anoxic sludge of an oil refinery wastewater treatment facility |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | |
| #Engineered | #Waste | #Industrial wastewater |
| #Environmental | #Terrestrial | #Mud (Sludge) |
| #Condition | #Anoxic (anaerobic) |
Safety information
risk assessment
- @ref: 2502
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 2502 | Acetivibrio multivorans partial 16S rRNA gene, type strain DSM 6139T | FR749900 | 1460 | ena | 937251 |
| 67770 | Youngiibacter multivorans gene for 16S ribosomal RNA, partial sequence | AB910755 | 1470 | ena | 937251 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Youngiibacter multivorans DSM 6139 | GCA_017873395 | contig | ncbi | 937251 |
| 66792 | Youngiibacter multivorans strain DSM 6139 | 937251.3 | wgs | patric | 937251 |
| 66792 | Acetivibrio multivorans DSM 6139 | 2913345020 | draft | img | 937251 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 2502 | 44.0 | |
| 67770 | 44 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 86 | no |
| motile | no | 88.651 | no |
| flagellated | no | 89.285 | no |
| gram-positive | yes | 76.179 | no |
| anaerobic | yes | 98.236 | yes |
| halophile | no | 84.234 | no |
| spore-forming | no | 73.112 | no |
| glucose-util | yes | 89.404 | no |
| aerobic | no | 96.473 | yes |
| thermophile | no | 82.916 | yes |
| glucose-ferment | yes | 58.194 | no |
External links
@ref: 2502
culture collection no.: DSM 6139, ATCC 49731, JCM 19730
straininfo link
- @ref: 86667
- straininfo: 48112
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24048874 | Youngiibacter fragilis gen. nov., sp. nov., isolated from natural gas production-water and reclassification of Acetivibrio multivorans as Youngiibacter multivorans comb. nov. | Lawson PA, Wawrik B, Allen TD, Johnson CN, Marks CR, Tanner RS, Harriman BH, Strapoc D, Callaghan AV | Int J Syst Evol Microbiol | 10.1099/ijs.0.053728-0 | 2013 | Alaska, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Gram-Negative Anaerobic Straight, Curved, and Helical Rods/*classification/genetics/isolation & purification, Molecular Sequence Data, Natural Gas/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Water/*analysis, Water Microbiology | Genetics |
| Phylogeny | 35394905 | Proteiniclasticum aestuarii sp. nov., isolated from tidal flat sediment, and emended descriptions of the genus Proteiniclasticum and Proteiniclasticum ruminis. | Namirimu T, Yang JA, Yang SH, Yu J, Kim YJ, Kwon KK | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005275 | 2022 | Bacteria, Anaerobic/genetics, Bacterial Typing Techniques, Base Composition, Clostridiaceae, DNA, Bacterial/genetics, *Fatty Acids/chemistry, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Seawater/microbiology, Sequence Analysis, DNA | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 2502 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6139) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6139 | |
| 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/ | ||
| 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) | |
| 86667 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID48112.1 | StrainInfo: A central database for resolving microbial strain identifiers |