Ignicoccus hospitalis (DSM 18386, JCM 14125, KIN4/1)

Name: Ignicoccus hospitalis (DSM 18386, JCM 14125, KIN4/1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 4191

Type strain

Strain Designation KIN4/1, KIN4/I

Culture col. no. DSM 18386 JCM 14125 KIN4/1 KIN4/I

NCBI tax ID(s) 453591 160233

Special Collections DSMZ JCM Literature strains

Links

Ignicoccus hospitalis KIN4/1 is an anaerobe, chemolithoautotroph, hyperthermophilic prokaryote that forms irregular colonies and was isolated from hot marine sediment.

Gram-negative coccus-shaped colony-forming anaerobe chemolithoautotroph hyperthermophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 302763

DSM 18386,JCM 14125

@ref 20215

Last LPSN update 2025-12-16 09:47:45

Domain Thermoproteati

Phylum Thermoproteota

Class Thermoprotei

Order Desulfurococcales

Family Desulfurococcaceae

Genus Ignicoccus

Species Ignicoccus hospitalis

Full scientific name Ignicoccus hospitalis Paper et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell shape
23220	negative	1.0-6.0 µm	coccus-shaped

Colony morphology

23220

Colony shapeirregular

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7367	IGNICOCCUS MEDIUM (DSMZ Medium 897)		Medium recipe at MediaDive	Name: IGNICOCCUS MEDIUM (DSMZ Medium 897; with strain-specific modifications) Composition: NaCl 13.5417 g/l Sulfur 4.96032 g/l MgSO4 x 7 H2O 3.47222 g/l MgCl2 x 6 H2O 2.72817 g/l KH2PO4 0.496032 g/l CaCl2 x 2 H2O 0.376984 g/l KCl 0.327381 g/l (NH4)2SO4 0.248016 g/l Na2S x 9 H2O 0.198413 g/l NaBr 0.0496032 g/l H3BO3 0.014881 g/l SrCl2 x 6 H2O 0.00694444 g/l Sodium resazurin 0.000496032 g/l KI 4.96032e-05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7367	positive	growth	90	hyperthermophilic
23220	positive	growth	73-98	hyperthermophilic
23220	positive	optimum	90	hyperthermophilic
67770	positive	growth	90	hyperthermophilic

Culture pH

@ref	Ability	Type	PH
23220	positive	optimum	5.5
23220	positive	growth	4.5-7.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
7367	anaerobe
23220	anaerobe
125439	facultative anaerobe

Nutrition type

23220

Typechemolithoautotroph

Spore formation

@ref	Spore formation	Confidence
125438		94.605

Halophily

@ref	Salt	Growth	Tested relation	Concentration
23220	NaCl	positive	growth	0.5-5.5 %
23220	NaCl	positive	optimum	1.4 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
23220	33403 ChEBI	elemental sulfur	+	electron acceptor
23220	17632 ChEBI	nitrate	-	electron acceptor
23220	16189 ChEBI	sulfate	-	electron acceptor
23220	17359 ChEBI	sulfite	-	electron acceptor
23220	15226 ChEBI	tetrathionate	-	electron acceptor
23220	16094 ChEBI	thiosulfate	-	electron acceptor

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	ribulose monophosphate pathway	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	suberin monomers biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	flavin biosynthesis	93.33	14 of 15
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	hydrogen production	80	4 of 5
66794	photosynthesis	78.57	11 of 14
66794	valine metabolism	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	palmitate biosynthesis	77.27	17 of 22
66794	acetate fermentation	75	3 of 4
66794	coenzyme A metabolism	75	3 of 4
66794	threonine metabolism	70	7 of 10
66794	methionine metabolism	69.23	18 of 26
66794	formaldehyde oxidation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	heme metabolism	64.29	9 of 14
66794	isoleucine metabolism	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	C4 and CAM-carbon fixation	62.5	5 of 8
66794	gluconeogenesis	62.5	5 of 8
66794	vitamin B1 metabolism	61.54	8 of 13
66794	phenylalanine metabolism	61.54	8 of 13
66794	purine metabolism	60.64	57 of 94
66794	glycine betaine biosynthesis	60	3 of 5
66794	reductive acetyl coenzyme A pathway	57.14	4 of 7
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	glutamate and glutamine metabolism	57.14	16 of 28
66794	d-mannose degradation	55.56	5 of 9
66794	lipid metabolism	54.84	17 of 31
66794	pentose phosphate pathway	54.55	6 of 11
66794	pyrimidine metabolism	53.33	24 of 45
66794	glycolysis	52.94	9 of 17
66794	tetrahydrofolate metabolism	50	7 of 14
66794	ethanol fermentation	50	1 of 2
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	ketogluconate metabolism	50	4 of 8
66794	denitrification	50	1 of 2
66794	adipate degradation	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	pantothenate biosynthesis	50	3 of 6
66794	1,4-dihydroxy-6-naphthoate biosynthesis	50	3 of 6
66794	CMP-KDO biosynthesis	50	2 of 4
66794	selenocysteine biosynthesis	50	3 of 6
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	histidine metabolism	48.28	14 of 29
66794	sulfate reduction	46.15	6 of 13
66794	leucine metabolism	46.15	6 of 13
66794	tryptophan metabolism	44.74	17 of 38
66794	serine metabolism	44.44	4 of 9
66794	nitrate assimilation	44.44	4 of 9
66794	cysteine metabolism	44.44	8 of 18
66794	polyamine pathway	43.48	10 of 23
66794	tyrosine metabolism	42.86	6 of 14
66794	propanol degradation	42.86	3 of 7
66794	citric acid cycle	42.86	6 of 14
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	arginine metabolism	41.67	10 of 24
66794	glycogen metabolism	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	glycine metabolism	40	4 of 10
66794	3-chlorocatechol degradation	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	urea cycle	38.46	5 of 13
66794	isoprenoid biosynthesis	38.46	10 of 26
66794	oxidative phosphorylation	38.46	35 of 91
66794	degradation of sugar alcohols	37.5	6 of 16
66794	methanogenesis from CO2	33.33	4 of 12
66794	methane metabolism	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	L-lactaldehyde degradation	33.33	1 of 3
66794	degradation of hexoses	33.33	6 of 18
66794	cyanate degradation	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	alanine metabolism	31.03	9 of 29
66794	lysine metabolism	30.95	13 of 42
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	non-pathway related	28.95	11 of 38
66794	glutathione metabolism	28.57	4 of 14
66794	mevalonate metabolism	28.57	2 of 7
66794	metabolism of disaccharids	27.27	3 of 11
66794	proline metabolism	27.27	3 of 11
66794	vitamin B6 metabolism	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	lactate fermentation	25	1 of 4
66794	phenol degradation	25	5 of 20
66794	glycogen biosynthesis	25	1 of 4
66794	degradation of pentoses	25	7 of 28
66794	butanoate fermentation	25	1 of 4
66794	toluene degradation	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment
#Condition	#Thermophilic (>45°C)	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7367	hot marine sediment	Kolbeinsey Ridge	Iceland	ISL	Europe
67770	Submarine hydrothermal system at the Kolbeinsey Ridge		Iceland	ISL	Europe

Taxonmaps

69479

Global distribution of 16S sequence AJ318042 (>99% sequence identity) for Ignicoccus hospitalis subclade from Microbeatlas

Aquatic Samples	40
Soil Samples	2
Animal Samples	1
Plant Samples
Total Samples	43

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7367	1	Risk group (German 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	ASM1794v1 assembly for Ignicoccus hospitalis KIN4/I	complete	GCA_000017945	453591.15	640753029	453591	99.21

Genome browser: GCA_000017945

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7367	Ignicoccus sp. Kin4-I 16S rRNA gene, strain Kin4-I	AJ318042	1382		453591

GC content

@ref	GC-content (mol%)
7367	56
23220	56.0
67770	56

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Ignicoccus hospitalis KIN4/I
NCBI: GCA_000017945

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	88.60	no
125439	motility	BacteriaNetⓘ	yes	72.10	no
125439	gram_stain	BacteriaNetⓘ	positive	68.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	97.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Ignicoccus hospitalis KIN4/I KIN4/I
NCBI: GCA_000017945.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	71.71	yes
125438	anaerobic	anaerobicⓘ	yes	85.20	yes
125438	aerobic	aerobicⓘ	no	90.81	yes
125438	spore-forming	spore-formingⓘ	no	94.61	no
125438	thermophilic	thermophileⓘ	yes	85.89	yes
125438	flagellated	motile2+ⓘ	no	68.35	no

Literature

Title	Authors	Journal	DOI	Year
Life on the edge: functional genomic response of Ignicoccus hospitalis to the presence of Nanoarchaeum equitans.	Giannone RJ, Wurch LL, Heimerl T, Martin S, Yang Z, Huber H, Rachel R, Hettich RL, Podar M.	ISME J	10.1038/ismej.2014.112	2015
AMP-forming acetyl coenzyme A synthetase in the outermost membrane of the hyperthermophilic crenarchaeon Ignicoccus hospitalis.	Mayer F, Kuper U, Meyer C, Daxer S, Muller V, Rachel R, Huber H.	J Bacteriol	10.1128/jb.06130-11	2012
Identified Hybrid tRNA Structure Genes in Archaeal Genome.	Mandal UR, Das SS, Chattopadhyay B, Sahoo S	Iran J Biotechnol	10.29252/ijb.2254	2019
Igni18, a novel metallo-hydrolase from the hyperthermophilic archaeon Ignicoccus hospitalis KIN4/I: cloning, expression, purification and X-ray analysis.	Kobus S, Perez-Garcia P, Hoeppner A, Holzscheck N, Kovacic F, Streit WR, Jaeger KE, Chow J, Smits SHJ	Acta Crystallogr F Struct Biol Commun	10.1107/S2053230X19002851	2019
Characterization of a family B DNA polymerase from the hyperthermophilic crenarchaeon Ignicoccus hospitalis KIN4/I and its application to PCR.	Seo KJ, Cho SS, Ppyun HW, Youn MH, Kim SH, Seo BS, Kwon ST	Appl Biochem Biotechnol	10.1007/s12010-014-0918-y	2014
Ignicoccus hospitalis sp. nov., the host of 'Nanoarchaeum equitans'.	Paper W, Jahn U, Hohn MJ, Kronner M, Nather DJ, Burghardt T, Rachel R, Stetter KO, Huber H	Int J Syst Evol Microbiol	10.1099/ijs.0.64721-0	2007

References

#7367	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18386
#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 )
#23220	Walter Paper, Ulrike Jahn, Michael J. Hohn, Michaela Kronner, Daniela J. Näther, Tillmann Burghardt, Reinhard Rachel, Karl O. Stetter, Harald Huber: Ignicoccus hospitalis sp. nov., the host of 'Nanoarchaeum equitans'. IJSEM 57: 803 - 808 2007 ( DOI 10.1099/ijs.0.64721-0 , PubMed 17392210 )
#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;
#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.: MicrobeAtlas 1.0 beta .
#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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Ignicoccus hospitalis (DSM 18386, JCM 14125, KIN4/1)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Metabolite utilization

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000017945

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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