Strain identifier
BacDive ID: 3836
Type strain: 
Species: Fibrisoma limi
Strain history: <- H. Bagheri, Univ. Zurich, Switzerland; BUZ 3 <- M. Filippini
NCBI tax ID(s): 1185876 (strain), 663275 (species)
version 9.2 (current version)
General
@ref: 16402
BacDive-ID: 3836
DSM-Number: 22564
keywords: 16S sequence, Bacteria, aerobe, mesophilic
description: Fibrisoma limi DSM 22564 is an aerobe, mesophilic bacterium that was isolated from mud from tidal flats.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1185876 | strain |
| 663275 | species |
strain history
- @ref: 16402
- history: <- H. Bagheri, Univ. Zurich, Switzerland; BUZ 3 <- M. Filippini
doi: 10.13145/bacdive3836.20241212.9.2
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Cytophagia
- order: Cytophagales
- family: Spirosomataceae
- genus: Fibrisoma
- species: Fibrisoma limi
- full scientific name: Fibrisoma limi Filippini et al. 2011
@ref: 16402
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Spirosomaceae
genus: Fibrisoma
species: Fibrisoma limi
full scientific name: Fibrisoma limi Filippini et al. 2011
type strain: yes
Culture and growth conditions
culture medium
- @ref: 16402
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 16402 | positive | growth | 28 |
| 61605 | positive | growth | 30 |
Physiology and metabolism
oxygen tolerance
- @ref: 61605
- oxygen tolerance: aerobe
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude | sampling date |
|---|---|---|---|---|---|---|---|---|
| 16402 | mud from tidal flats | North Sea coast, Fedderwardersiel (53° 35' 59'' N, 8° 21' 23'' E, elevation 0 m) | Germany | DEU | Europe | 53.5997 | 8.3564 | |
| 61605 | Mud,tidal flats | North Sea coast,Fedderwardersiel | Germany | DEU | Europe | 2008 |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Mud (Sludge) |
| #Environmental | #Terrestrial | #Tidal flat |
taxonmaps
- @ref: 69479
- File name: preview.99_7593.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_656;96_3537;97_4343;98_5560;99_7593&stattab=map
- Last taxonomy: Fibrisoma limi subclade
- 16S sequence: GQ355622
- Sequence Identity:
- Total samples: 3325
- soil counts: 241
- aquatic counts: 504
- animal counts: 2501
- plant counts: 79
Safety information
risk assessment
- @ref: 16402
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16402
- description: Fibrisoma limi strain BUZ 3 16S ribosomal RNA gene, partial sequence
- accession: GQ355622
- length: 1430
- database: nuccore
- NCBI tax ID: 1185876
GC content
- @ref: 16402
- GC-content: 52.0
- method: high performance liquid chromatography (HPLC)
External links
@ref: 16402
culture collection no.: DSM 22564, CCUG 58137, BUZ 3
straininfo link
- @ref: 73346
- straininfo: 406396
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20601484 | Fibrisoma limi gen. nov., sp. nov., a filamentous bacterium isolated from tidal flats. | Filippini M, Kaech A, Ziegler U, Bagheri HC | Int J Syst Evol Microbiol | 10.1099/ijs.0.025395-0 | 2010 | Base Composition, Cluster Analysis, Cytophagaceae/chemistry/*classification/genetics/*isolation & purification, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Germany, Molecular Sequence Data, North Sea, Phospholipids/analysis, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology | Genetics |
| 21914201 | Antagonistic interactions between filamentous heterotrophs and the cyanobacterium Nostoc muscorum. | Svercel M, Saladin B, van Moorsel SJ, Wolf S, Bagheri HC | BMC Res Notes | 10.1186/1756-0500-4-357 | 2011 | |||
| Genetics | 22843583 | Genome sequence of the filamentous bacterium Fibrisoma limi BUZ 3T. | Filippini M, Qi W, Jaenicke S, Goesmann A, Smits TH, Bagheri HC | J Bacteriol | 10.1128/JB.00869-12 | 2012 | Chromosomes, Bacterial, Cytophagaceae/*genetics/isolation & purification, DNA, Bacterial/*chemistry/*genetics, *Genome, Bacterial, Geologic Sediments/microbiology, Germany, Molecular Sequence Data, North Sea, Plasmids, *Sequence Analysis, DNA | Transcriptome |
| Phylogeny | 31605155 | Fibrisoma montanum sp. nov., isolated from soil of Mountain Danxia, China. | Huang Y, Niu Y, Wang G, Zheng S | Arch Microbiol | 10.1007/s00203-019-01741-w | 2019 | Bacterial Typing Techniques, Base Composition/genetics, China, Cytophagaceae/*genetics/growth & development/*isolation & purification/metabolism, DNA, Bacterial/genetics, Fatty Acids/metabolism, Genome, Bacterial/genetics, Phospholipids/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, *Soil Microbiology | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 16402 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22564) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22564 | |
| 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 | |
| 61605 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 58137) | https://www.ccug.se/strain?id=58137 | |
| 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 | |
| 73346 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID406396.1 | StrainInfo: A central database for resolving microbial strain identifiers |