Hugenholtzia roseola (DSM 9546, ATCC 23088, IFO 16707)

Name: Hugenholtzia roseola (DSM 9546, ATCC 23088, IFO 16707)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3792

Type strain

Strain Designation CR-155

Culture col. no. DSM 9546 ATCC 23088 IFO 16707 NBRC 16707 CIP 106406 3 more

NCBI tax ID(s) 1121903 1002

Special Collections DSMZ CIP

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

Links

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

Gram-negative rod-shaped mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 2842

LMG 3993,ATCC 23088,DSM 9546,LMG 13856,LMG 13168,NCIMB 1433,LMG 13507,CIP 106406,IFO 16707,IFO16486,IFO 16031,NBRC 16486,NBRC 16707

@ref 20215

Last LPSN update 2025-12-16 09:47:39

Domain Pseudomonadati

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 (1)

Flexibacter roseolus

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
122257	negative	rod-shaped
125438	negative		96.978
125439	negative		99.8

Pigmentation

@ref	Production	Name
122257		flexirubin type pigments

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
3635	FLEXIBACTER CANADENSIS MEDIUM (DSMZ Medium 357)	Medium recipe at MediaDive	Name: 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
42266	MEDIUM 33 - For Flexibacter flexilis and Flexibacter elegans		Distilled 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
122257	CIP Medium 33	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
3635	positive	growth	30	mesophilic
42266	positive	growth	25	mesophilic
122257	positive	growth	15-37
122257	negative	growth	5
122257	negative	growth	41
122257	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.2

Spore formation

@ref	Spore formation	Confidence
125438		91.5
125439		99.5

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
122257	4853 ChEBI	esculin	-	hydrolysis
122257	606565 ChEBI	hippurate	-	hydrolysis
122257	17632 ChEBI	nitrate	-	reduction
122257	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
122257	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
122257	15688 ChEBI	acetoin	-
122257	17234 ChEBI	glucose		-

Enzymes

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

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
122257	-	+	+	+	+	+	+	+	+	+	+	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Thermal spring
#Condition	#Thermophilic (>45°C)	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
3635	hot spring		Costa Rica	CRI	Middle and South America
122257	Environment, Hot spring	Agua Caliente	Costa Rica	CRI	North America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
3635	1	Risk group (German classification) According to TRBA 466
122257	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM42258v1 assembly for Hugenholtzia roseola DSM 9546	scaffold	GCA_000422585	1121903.5	2523533540	1121903	59.79

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Flexibacter roseolus 16S ribosomal RNA	M58787	1466	1002
20218	Flexibacter roseolus gene for 16S rRNA, strain:IFO 16486	AB078062	1461	1002
20218	Flexibacter roseolus gene for 16S rRNA, strain:IFO 16707	AB078063	1471	1002
20218	Flexibacter roseolus gene for 16S rRNA, partial sequence, strain: NBRC 16486	AB681070	1431	1002
20218	Flexibacter roseolus gene for 16S rRNA, partial sequence, strain: NBRC 16707	AB681110	1441	1002
3635	Hugenholtzia roseola strain NBRC 16707 16S ribosomal RNA, partial sequence	NR_113862	1441	1002

GC content

3635

GC-content (mol%)42.2

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Hugenholtzia roseola DSM 9546
NCBI: GCA_000422585

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.50	no
125439	motility	BacteriaNetⓘ	no	72.90	no
125439	gram_stain	BacteriaNetⓘ	negative	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Hugenholtzia roseola DSM 9546 DSM 9546
NCBI: GCA_000422585.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.98	no
125438	anaerobic	anaerobicⓘ	no	96.88	no
125438	aerobic	aerobicⓘ	yes	78.97	no
125438	spore-forming	spore-formingⓘ	no	91.50	no
125438	thermophilic	thermophileⓘ	no	84.29	yes
125438	flagellated	motile2+ⓘ	no	87.92	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Genome-Based Taxonomic Classification of Bacteroidetes.	Hahnke RL, Meier-Kolthoff JP, Garcia-Lopez M, Mukherjee S, Huntemann M, Ivanova NN, Woyke T, Kyrpides NC, Klenk HP, Goker M.	Front Microbiol	10.3389/fmicb.2016.02003	2016
Phylogeny	Nonomuraea dietzii sp. nov..	Stackebrandt E, Wink J, Steiner U, Kroppenstedt RM.	Int J Syst Evol Microbiol	10.1099/00207713-51-4-1437	2001

References

#3635	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 9546
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#42266	; Curators of the CIP;
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#68382	Automatically annotated from API zym .
#122257	Collection of Institut Pasteur ; Curators of the CIP; CIP 106406
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Hugenholtzia roseola (DSM 9546, ATCC 23088, IFO 16707)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000422585

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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