Strain identifier

BacDive ID: 2416

Type strain: Yes

Species: Roseiflexus castenholzii

Strain Designation: HLO8

Strain history: S. Hanada HLO8.

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

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 idMatching level
383372strain
120962species

strain history

@refhistory
5192<- S. Hanada; HLO8
67770S. 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

@refnamegrowthlinkcomposition
5192CHLOROFLEXUS AGGREGANS MEDIUM (DSMZ Medium 87a)yeshttps://mediadive.dsmz.de/medium/87aName: 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
230751.5% agar-containing PE plateyes

culture temp

@refgrowthtypetemperaturerange
5192positivegrowth48thermophilic
23075positivegrowth45.0-55.0thermophilic
23075positiveoptimum50.0thermophilic
67770positivegrowth50thermophilic

culture pH

@refabilitytypepHPH range
23075positiveoptimum7.5-8.0
23075positivegrowth7.0-9.0alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 5192
  • oxygen tolerance: anaerobe

nutrition type

@reftype
23075photoheterotroph
23075chemoheterotroph

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.806

observation

  • @ref: 67770
  • observation: quinones: MK-11

metabolite utilization

@refmetaboliteutilization activitykind of utilization tested
23075yeast extract+carbon source
23075yeast extract (0.01 %, w/v)+growth

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture temperature
5192a bacterial mat in Nakabusa hot spring (40-60°C, pH 7.8-8.2)Nagano Pref.JapanJPNAsia
23075PE medium50.0
67770Bacterial mat in Nakabusa hot springNagano Pref.JapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Roseiflexus castenholzii DSM 13941GCA_000017805completencbi383372
66792Roseiflexus castenholzii DSM 13941383372.6completepatric383372
66792Roseiflexus castenholzii HLO8, DSM 13941640753047completeimg383372

GC content

@refGC-contentmethod
519262.4high performance liquid chromatography (HPLC)
2307562.0high performance liquid chromatography (HPLC)
6777060.7genome sequence analysis
6777062high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno69no
motileno72.521yes
flagellatedno95.948no
gram-positiveno93.828yes
anaerobicno58.17yes
aerobicno75.59yes
halophileno93.201no
spore-formingno81.418no
thermophileyes99.32yes
glucose-utilyes84.791no
glucose-fermentno89.019no

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

@idauthorscataloguedoi/urltitlejournalpubmed
5192Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13941)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13941
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
23075Satoshi Hanada,Shinichi Takaichi,Katsumi Matsuura,Kazunori Nakamura10.1099/00207713-52-1-187Roseiflexus castenholzii gen. nov., sp. nov., a thermophilic, filamentous, photosynthetic bacterium that lacks chlorosomes.IJSEM 52: 187-193 200211837302
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
71966Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49536.1StrainInfo: A central database for resolving microbial strain identifiers