Strain identifier

BacDive ID: 3792

Type strain: Yes

Species: Hugenholtzia roseola

Strain Designation: CR-155

Strain history: CIP <- 2000, J.F. Bernardet, INRA, Jouy en Josas, France <- ATCC <- R.A. Lewin: strain CR-155

NCBI tax ID(s): 1121903 (strain), 1002 (species)

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General

@ref: 3635

BacDive-ID: 3792

DSM-Number: 9546

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, rod-shaped

description: Hugenholtzia roseola CR-155 is a mesophilic, Gram-negative, rod-shaped bacterium that was isolated from hot spring.

NCBI tax id

NCBI tax idMatching level
1002species
1121903strain

strain history

@refhistory
3635<- ATCC <- R. A. Lewin, CR-155
122257CIP <- 2000, J.F. Bernardet, INRA, Jouy en Josas, France <- ATCC <- R.A. Lewin: strain CR-155

doi: 10.13145/bacdive3792.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Cytophagia
  • order: Cytophagales
  • family: Bernardetiaceae
  • genus: Hugenholtzia
  • species: Hugenholtzia roseola
  • full scientific name: Hugenholtzia roseola (Lewin 1969) Hahnke et al. 2017

  • synonyms

    • @ref: 20215
    • synonym: Flexibacter roseolus

@ref: 3635

domain: Bacteria

phylum: Bacteroidetes

class: Cytophagia

order: Cytophagales

family: Bernardetiaceae

genus: Hugenholtzia

species: Hugenholtzia roseola

full scientific name: Hugenholtzia roseola (Lewin 1969) Hahnke et al. 2017

strain designation: CR-155

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
122257negativerod-shapedno
125438negative96.978
125439negative99.8

pigmentation

  • @ref: 122257
  • production: no
  • name: Flexirubin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3635FLEXIBACTER CANADENSIS MEDIUM (DSMZ Medium 357)yeshttps://mediadive.dsmz.de/medium/357Name: FLEXIBACTER CANADENSIS MEDIUM (DSMZ Medium 357) Composition: Agar 10.0 g/l Tris 1.0 g/l Glucose 1.0 g/l Casamino acids 1.0 g/l Sodium glycerophosphate 0.1 g/l CaCl2 x 2 H2O 0.1 g/l KNO3 0.1 g/l MgSO4 x 7 H2O 0.1 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l Thiamine-HCl x 2 H2O 0.001 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Vitamin B12 1e-06 g/l Distilled water
42266MEDIUM 33 - For Flexibacter flexilis and Flexibacter elegansyesDistilled water make up to (1000.000 ml);Magnesium sulphate heptahydrate (0.100 g);Calcium chloride dihydrate (0.100 g);Glucose (1.000 g);Potassium nitrate (0.100 g);Casamino acids (1.000 g);Sodium glycerophosphate hexahydrate (0.100 g);Trizma hydrochlori
122257CIP Medium 33yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=33

culture temp

@refgrowthtypetemperature
3635positivegrowth30
42266positivegrowth25
122257positivegrowth15-37
122257nogrowth5
122257nogrowth41
122257nogrowth45

Physiology and metabolism

oxygen tolerance

  • @ref: 125439
  • oxygen tolerance: obligate aerobe
  • confidence: 99.2

spore formation

@refspore formationconfidence
125438no91.5
125439no99.5

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1222574853esculin-hydrolysis
122257606565hippurate-hydrolysis
12225717632nitrate-reduction
12225716301nitrite-reduction

metabolite production

  • @ref: 122257
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12225715688acetoin-
12225717234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin+3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase+3.4.11.3
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382lipase (C 14)+
68382esterase lipase (C 8)+
68382alkaline phosphatase+3.1.3.1
122257oxidase+
122257beta-galactosidase-3.2.1.23
122257alcohol dehydrogenase-1.1.1.1
122257gelatinase-
122257catalase-1.11.1.6
122257tween esterase+
122257gamma-glutamyltransferase-2.3.2.2
122257lysine decarboxylase-4.1.1.18
122257ornithine decarboxylase-4.1.1.17
122257phenylalanine ammonia-lyase-4.3.1.24
122257tryptophan deaminase-
122257urease-3.5.1.5
68382alpha-galactosidase-3.2.1.22
68382esterase (C 4)+

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122257-+++++++++++--------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
3635hot springCosta RicaCRIMiddle and South America
122257Environment, Hot springCosta RicaCRINorth AmericaAgua Caliente

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Thermal spring
#Condition#Thermophilic (>45°C)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
36351Risk group (German classification)
1222571Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Flexibacter roseolus 16S ribosomal RNAM587871466nuccore1002
20218Flexibacter roseolus gene for 16S rRNA, strain:IFO 16486AB0780621461nuccore1002
20218Flexibacter roseolus gene for 16S rRNA, strain:IFO 16707AB0780631471nuccore1002
20218Flexibacter roseolus gene for 16S rRNA, partial sequence, strain: NBRC 16486AB6810701431nuccore1002
20218Flexibacter roseolus gene for 16S rRNA, partial sequence, strain: NBRC 16707AB6811101441nuccore1002
3635Hugenholtzia roseola strain NBRC 16707 16S ribosomal RNA, partial sequenceNR_1138621441nuccore1002

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Hugenholtzia roseola DSM 9546GCA_000422585scaffoldncbi1121903
66792Hugenholtzia roseola DSM 95461121903.5wgspatric1121903
66792Hugenholtzia roseola DSM 95462523533540draftimg1121903

GC content

  • @ref: 3635
  • GC-content: 42.2

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno96.978no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.879no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes78.974no
125438spore-formingspore-formingAbility to form endo- or exosporesno91.5no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno84.285yes
125438motile2+flagellatedAbility to perform flagellated movementno87.923no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno99.5
125439BacteriaNetmotilityAbility to perform movementno72.9
125439BacteriaNetgram_stainReaction to gram-stainingnegative99.8
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe99.2

External links

@ref: 3635

culture collection no.: DSM 9546, ATCC 23088, IFO 16707, NBRC 16707, CIP 106406, LMG 13856, NCIMB 1433

straininfo link

  • @ref: 73304
  • straininfo: 2842

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3635Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9546)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9546
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
42266Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18532
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)
68382Automatically annotated from API zym
73304Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2842.1StrainInfo: A central database for resolving microbial strain identifiers
122257Curators of the CIPCollection of Institut Pasteur (CIP 106406)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106406
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1