Strain identifier
BacDive ID: 2416
Type strain:
Species: Roseiflexus castenholzii
Strain Designation: HLO8
Strain history: S. Hanada HLO8.
NCBI tax ID(s): 383372 (strain), 120962 (species)
General
@ref: 5192
BacDive-ID: 2416
DSM-Number: 13941
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, photoheterotroph, thermophilic, Gram-negative, motile, filament-shaped
description: Roseiflexus castenholzii HLO8 is an anaerobe, photoheterotroph, thermophilic bacterium that was isolated from a bacterial mat in Nakabusa hot spring .
NCBI tax id
NCBI tax id | Matching level |
---|---|
383372 | strain |
120962 | species |
strain history
@ref | history |
---|---|
5192 | <- S. Hanada; HLO8 |
67770 | S. Hanada HLO8. |
doi: 10.13145/bacdive2416.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/chloroflexota
- domain: Bacteria
- phylum: Chloroflexota
- class: Chloroflexia
- order: Chloroflexales
- family: Roseiflexaceae
- genus: Roseiflexus
- species: Roseiflexus castenholzii
- full scientific name: Roseiflexus castenholzii Hanada et al. 2002
@ref: 5192
domain: Bacteria
phylum: Chloroflexi
class: Chloroflexia
order: Chloroflexales, not validated
family: Roseiflexaceae
genus: Roseiflexus
species: Roseiflexus castenholzii
full scientific name: Roseiflexus castenholzii Hanada et al. 2002 emend. Nouioui et al. 2018
strain designation: HLO8
type strain: yes
Morphology
cell morphology
- @ref: 23075
- gram stain: negative
- cell width: 0.8-1.0 µm
- cell shape: filament-shaped
- motility: yes
colony morphology
- @ref: 23075
- colony color: red to reddish-brown
- medium used: 1.5% agar-containing PE plate
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
5192 | CHLOROFLEXUS AGGREGANS MEDIUM (DSMZ Medium 87a) | yes | https://mediadive.dsmz.de/medium/87a | Name: CHLOROFLEXUS AGGREGANS MEDIUM (DSMZ Medium 87a; with strain-specific modifications) Composition: Na-pyruvate 3.0 g/l Yeast extract 3.0 g/l Glycyl-glycine 0.952381 g/l NaNO3 0.47619 g/l KNO3 0.0952381 g/l MgSO4 x 7 H2O 0.0952381 g/l Na2HPO4 x 2 H2O 0.0952381 g/l NaCl 0.0952381 g/l CaCl2 x 2 H2O 0.047619 g/l Na3-EDTA 0.00190476 g/l Nicotinic acid 0.000952381 g/l Thiamine-HCl x 2 H2O 0.000952381 g/l p-Aminobenzoic acid 0.00047619 g/l Pyridoxine hydrochloride 0.00047619 g/l Folic acid 0.00047619 g/l Calcium pantothenate 0.00047619 g/l H3BO3 0.000285714 g/l CoCl2 x 6 H2O 0.000190476 g/l ZnSO4 x 7 H2O 9.52381e-05 g/l Biotin 4.7619e-05 g/l Na2MoO4 x 2 H2O 2.85714e-05 g/l MnCl2 x 4 H2O 2.85714e-05 g/l NiCl2 x 6 H2O 1.90476e-05 g/l Vitamin B12 9.52381e-06 g/l CuCl2 x 2 H2O 9.52381e-06 g/l Fe(III) citrate Distilled water |
23075 | 1.5% agar-containing PE plate | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
5192 | positive | growth | 48 | thermophilic |
23075 | positive | growth | 45.0-55.0 | thermophilic |
23075 | positive | optimum | 50.0 | thermophilic |
67770 | positive | growth | 50 | thermophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
23075 | positive | optimum | 7.5-8.0 | |
23075 | positive | growth | 7.0-9.0 | alkaliphile |
Physiology and metabolism
oxygen tolerance
- @ref: 5192
- oxygen tolerance: anaerobe
nutrition type
@ref | type |
---|---|
23075 | photoheterotroph |
23075 | chemoheterotroph |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 98.806
observation
- @ref: 67770
- observation: quinones: MK-11
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|
23075 | yeast extract | + | carbon source |
23075 | yeast extract (0.01 %, w/v) | + | growth |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | enrichment culture | enrichment culture temperature |
---|---|---|---|---|---|---|---|
5192 | a bacterial mat in Nakabusa hot spring (40-60°C, pH 7.8-8.2) | Nagano Pref. | Japan | JPN | Asia | ||
23075 | PE medium | 50.0 | |||||
67770 | Bacterial mat in Nakabusa hot spring | Nagano Pref. | Japan | JPN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Thermal spring |
#Environmental | #Microbial community | #Microbial mat |
#Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_4824.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_223;96_2383;97_2899;98_3613;99_4824&stattab=map
- Last taxonomy: Roseiflexus castenholzii subclade
- 16S sequence: AB041226
- Sequence Identity:
- Total samples: 1615
- soil counts: 508
- aquatic counts: 615
- animal counts: 457
- plant counts: 35
Safety information
risk assessment
- @ref: 5192
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5192
- description: Roseiflexus castenholzii gene for 16S rRNA, partial sequence
- accession: AB041226
- length: 1398
- database: ena
- NCBI tax ID: 383372
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Roseiflexus castenholzii DSM 13941 | GCA_000017805 | complete | ncbi | 383372 |
66792 | Roseiflexus castenholzii DSM 13941 | 383372.6 | complete | patric | 383372 |
66792 | Roseiflexus castenholzii HLO8, DSM 13941 | 640753047 | complete | img | 383372 |
GC content
@ref | GC-content | method |
---|---|---|
5192 | 62.4 | high performance liquid chromatography (HPLC) |
23075 | 62.0 | high performance liquid chromatography (HPLC) |
67770 | 60.7 | genome sequence analysis |
67770 | 62 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 69 | no |
motile | no | 72.521 | yes |
flagellated | no | 95.948 | no |
gram-positive | no | 93.828 | yes |
anaerobic | no | 58.17 | yes |
aerobic | no | 75.59 | yes |
halophile | no | 93.201 | no |
spore-forming | no | 81.418 | no |
thermophile | yes | 99.32 | yes |
glucose-util | yes | 84.791 | no |
glucose-ferment | no | 89.019 | no |
External links
@ref: 5192
culture collection no.: DSM 13941, JCM 11240, NBRC 100045
straininfo link
- @ref: 71966
- straininfo: 49536
literature
- topic: Phylogeny
- Pubmed-ID: 11837302
- title: Roseiflexus castenholzii gen. nov., sp. nov., a thermophilic, filamentous, photosynthetic bacterium that lacks chlorosomes.
- authors: Hanada S, Takaichi S, Matsuura K, Nakamura K
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/00207713-52-1-187
- year: 2002
- mesh: Bacteriochlorophylls/metabolism, Carotenoids/metabolism, Chlorobi/*classification/genetics/*physiology/ultrastructure, DNA, Ribosomal/analysis, Fresh Water/microbiology, Light-Harvesting Protein Complexes, Molecular Sequence Data, *Photosynthesis, Photosynthetic Reaction Center Complex Proteins/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
5192 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13941) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-13941 | |||
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 | |||
23075 | Satoshi Hanada,Shinichi Takaichi,Katsumi Matsuura,Kazunori Nakamura | 10.1099/00207713-52-1-187 | Roseiflexus castenholzii gen. nov., sp. nov., a thermophilic, filamentous, photosynthetic bacterium that lacks chlorosomes. | IJSEM 52: 187-193 2002 | 11837302 | |
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/ | ||||
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) | |||
71966 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49536.1 | StrainInfo: A central database for resolving microbial strain identifiers |