Name: Fervidicoccus fontis Kam940
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 17820

Type strain:

Species: Fervidicoccus fontis

Strain Designation: Kam940

Culture col. no.: DSM 19380, JCM 18336, VKM B-2539

Strain history: DSM 19380 <-- A. A. Perevalova Kam940.

NCBI tax ID(s): 1163730 (strain), 683846 (species)

SI-ID 397044

DSM 19380

Special Collections

Section

When using BacDive for research please cite our paper

Fervidicoccus fontis Kam940 is an anaerobe, organotroph, hyperthermophilic archaeon that was isolated from sediment and water of hot springs.

coccus-shaped
anaerobe
hyperthermophilic
organotroph
16S sequence
Archaea
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Archaea*
	Phylum	*Thermoproteota*
	Class	*Thermoprotei*
	Order	*Fervidicoccales*
	Family	*Fervidicoccaceae*
	Genus	*Fervidicoccus*
	Species	**Fervidicoccus fontis**
	Full Scientific Name (LPSN)	Fervidicoccus fontis Perevalova et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #26085]	Cell length	1-3 µm

[Ref.: #26085]	Cell width	1-3 µm
[Ref.: #29702]	Cell width	01-03 µm

[Ref.: #26085]	Cell shape	coccus-shaped
[Ref.: #29702]	Cell shape	coccus-shaped

[Ref.: #26085]	Motility	no
[Ref.: #29702]	Motility	no

[Ref.: #29702]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8082]

Culture medium

FERVIDICOCCUS MEDIUM (DSMZ Medium 395b)

[Ref.: #8082]

Culture medium growth

[Ref.: #8082]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8082]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8082]	growth	80 °C
[Ref.: #26085]	optimum	65-70 °C
[Ref.: #26085]	growth	55-85 °C
[Ref.: #29702]	growth	55-85 °C
[Ref.: #29702]	optimum	65-70 °C
[Ref.: #67770]	growth	80 °C

		pH
[Ref.: #29702]	optimum	5.5-6
[Ref.: #26085]	optimum	5.5-6.0
[Ref.: #29702]	growth	4.5-7
[Ref.: #26085]	growth	4.5-7.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #8082]	Oxygen tolerance	anaerobe
[Ref.: #29702]	Oxygen tolerance	anaerobe
[Ref.: #26085]	Oxygen tolerance	anaerobe
[Ref.: #125439]	Oxygen tolerance	anaerobe Confidence in %96.9

[Ref.: #26085]

Nutrition type

organotroph

[Ref.: #125438]

Ability of spore formation

no Confidence in %92.575

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #26085]	acetate ChEBI	-	fermentation
[Ref.: #26085]	agarose ChEBI	-	fermentation
[Ref.: #26085]	amygdalin ChEBI	+/-	fermentation
[Ref.: #26085]	arabinose ChEBI	+/-	fermentation
[Ref.: #26085]	beef extract	+	fermentation
[Ref.: #26085]	carboxymethylcellulose ChEBI	-	fermentation
[Ref.: #26085]	casein hydrolysate	-	fermentation
[Ref.: #26085]	cellobiose ChEBI	+/-	fermentation
[Ref.: #26085]	cellulose ChEBI	-	fermentation
[Ref.: #26085]	cellulose ChEBI	-	hydrolysis
[Ref.: #26085]	chitin ChEBI	-	fermentation
[Ref.: #26085]	dextran ChEBI	-	fermentation
[Ref.: #26085]	dihydrogen ChEBI	-	growth
[Ref.: #26085]	fructose ChEBI	-	fermentation
[Ref.: #26085]	fumarate ChEBI	-	fermentation
[Ref.: #29702]	gelatin ChEBI	+	carbon source
[Ref.: #26085]	gelatin ChEBI	+	fermentation
[Ref.: #26085]	glucose ChEBI	-	fermentation
[Ref.: #26085]	lactate ChEBI	-	fermentation
[Ref.: #26085]	maltose ChEBI	-	fermentation
[Ref.: #26085]	mannitol ChEBI	-	fermentation
[Ref.: #26085]	methanol ChEBI	-	fermentation
[Ref.: #26085]	pectin ChEBI	-	fermentation
[Ref.: #26085]	peptone	+	fermentation
[Ref.: #29702]	pyruvate ChEBI	+	carbon source
[Ref.: #26085]	pyruvate ChEBI	+/-	fermentation
[Ref.: #29702]	rhamnose ChEBI	+	carbon source
[Ref.: #26085]	rhamnose ChEBI	+/-	fermentation
[Ref.: #29702]	sucrose ChEBI	+	carbon source
[Ref.: #26085]	sucrose ChEBI	+/-	fermentation
[Ref.: #26085]	tryptone	+/-	fermentation
[Ref.: #26085]	xylan ChEBI	-	fermentation
[Ref.: #26085]	yeast extract (0.01 %, w/v)	+	fermentation
	Only first 10 entries are displayed. Click here to see all.

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	hydrogen production	80	4 of 5
[Ref.: #66794]	palmitate biosynthesis	77.27	17 of 22
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	coenzyme A metabolism	75	3 of 4
[Ref.: #66794]	glutamate and glutamine metabolism	71.43	20 of 28
[Ref.: #66794]	pyrimidine metabolism	71.11	32 of 45
[Ref.: #66794]	Entner Doudoroff pathway	70	7 of 10
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	66.67	6 of 9
[Ref.: #66794]	flavin biosynthesis	66.67	10 of 15
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	pantothenate biosynthesis	66.67	4 of 6
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	purine metabolism	64.89	61 of 94
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	photosynthesis	64.29	9 of 14
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	NAD metabolism	55.56	10 of 18
[Ref.: #66794]	serine metabolism	55.56	5 of 9
[Ref.: #66794]	pentose phosphate pathway	54.55	6 of 11
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	50	1 of 2
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	lipid metabolism	48.39	15 of 31
[Ref.: #66794]	phenylalanine metabolism	46.15	6 of 13
[Ref.: #66794]	leucine metabolism	46.15	6 of 13
[Ref.: #66794]	urea cycle	46.15	6 of 13
[Ref.: #66794]	oxidative phosphorylation	45.05	41 of 91
[Ref.: #66794]	alanine metabolism	44.83	13 of 29
[Ref.: #66794]	CO2 fixation in Crenarchaeota	44.44	4 of 9
[Ref.: #66794]	cysteine metabolism	44.44	8 of 18
[Ref.: #66794]	polyamine pathway	43.48	10 of 23
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	arginine metabolism	41.67	10 of 24
[Ref.: #66794]	lysine metabolism	40.48	17 of 42
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	propionate fermentation	40	4 of 10
[Ref.: #66794]	creatinine degradation	40	2 of 5
[Ref.: #66794]	methionine metabolism	38.46	10 of 26
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
[Ref.: #66794]	glutathione metabolism	35.71	5 of 14
[Ref.: #66794]	citric acid cycle	35.71	5 of 14
[Ref.: #66794]	isoprenoid biosynthesis	34.62	9 of 26
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	valine metabolism	33.33	3 of 9
[Ref.: #66794]	vitamin B12 metabolism	32.35	11 of 34
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	tryptophan metabolism	31.58	12 of 38
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	threonine metabolism	30	3 of 10
[Ref.: #66794]	non-pathway related	28.95	11 of 38
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	vitamin B6 metabolism	27.27	3 of 11
[Ref.: #66794]	proline metabolism	27.27	3 of 11
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	peptidoglycan biosynthesis	26.67	4 of 15
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	25	2 of 8
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	isoleucine metabolism	25	2 of 8
[Ref.: #66794]	phenol degradation	25	5 of 20
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	degradation of pentoses	25	7 of 28
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	tetrahydrofolate metabolism	21.43	3 of 14
[Ref.: #66794]	tyrosine metabolism	21.43	3 of 14
[Ref.: #66794]	histidine metabolism	20.69	6 of 29
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #8082]	Sample type/isolated from	sediment and water of hot springs
[Ref.: #8082]	Geographic location (country and/or sea, region)	Kamchatka, Uzon caldera, East Thermal Field
[Ref.: #8082]	Country	Russia
[Ref.: #8082]	Country ISO 3 Code	RUS
[Ref.: #8082]	Continent	Asia

[Ref.: #26085]	Sample type/isolated from	hot spring of the east thermal field of the Uzon Caldera
[Ref.: #26085]	Geographic location (country and/or sea, region)	Kamchatka
[Ref.: #26085]	Country	Russia
[Ref.: #26085]	Country ISO 3 Code	RUS
[Ref.: #26085]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Hot spring of the east thermal field of the Uzon caldera
[Ref.: #67770]	Geographic location (country and/or sea, region)	Kamchatka
[Ref.: #67770]	Country	Russia
[Ref.: #67770]	Country ISO 3 Code	RUS
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Thermal spring
#Environmental	#Terrestrial	#Sediment
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #8082]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #8082]	Fervidicoccus fontis strain Kam940 16S ribosomal RNA gene, partial sequence	EF552404	1269	GenBank ENA	1163730 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Fervidicoccus fontis Kam940	GCA_000258425	complete	GenBank ENA	1163730 tax ID	*
[Ref.: #66792]	Fervidicoccus fontis Kam940	2513237177	complete	JGI IMG/M	1163730 tax ID	*
[Ref.: #66792]	Fervidicoccus fontis Kam940	1163730.6	complete	PATRIC	1163730 tax ID	*

[Ref.: #8082]	GC-content	37 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #29702]	GC-content	37 mol%

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Fervidicoccus fontis Kam940 Kam940 NCBI: GCA_000258425.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	75.62	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	86.956	yes
[Ref.: #125438]	aerobic	aerobicⓘ	no	90.76	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	92.575	no
[Ref.: #125438]	thermophile	thermophilicⓘ	yes	88.497	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	80.857	yes

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Fervidicoccus fontis Kam940 NCBI: GCA_000258425
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	anaerobe	96.9
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	variable	72.5
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	61.5
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	66

Availability in culture collections External links

[Ref.: #8082]

Culture collection no.

DSM 19380, JCM 18336, VKM B-2539

[Ref.: #86811]

SI-ID 397044

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Analysis of the complete genome of Fervidococcus fontis confirms the distinct phylogenetic position of the order Fervidicoccales and suggests its environmental function.	Lebedinsky AV, Mardanov AV, Kublanov IV, Gumerov VM, Beletsky AV, Perevalova AA, Bidzhieva SKh, Bonch-Osmolovskaya EA, Skryabin KG, Ravin NV	Extremophiles	10.1007/s00792-013-0616-7	2013	*
Phylogeny	Fervidicoccus fontis gen. nov., sp. nov., an anaerobic, thermophilic crenarchaeote from terrestrial hot springs, and proposal of Fervidicoccaceae fam. nov. and Fervidicoccales ord. nov.	Perevalova AA, Bidzhieva SK, Kublanov IV, Hinrichs KU, Liu XL, Mardanov AV, Lebedinsky AV, Bonch-Osmolovskaya EA	Int J Syst Evol Microbiol	10.1099/ijs.0.019042-0	2009	*

References

#8082

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19380

#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 )

#26085

IJSEM 2082 2010 ( DOI 10.1099/ijs.0.019042-0 , PubMed 19837732 )

#29702

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26085 (see below)

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#86811

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID397044.1 )

#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 .

#26085

IJSEM 2082 2010 ( DOI 10.1099/ijs.0.019042-0 , PubMed 19837732 )

* These data were automatically processed and therefore are not curated

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Fervidicoccus fontis Kam940 Kam940

Fervidicoccus fontis Kam940

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