Name: Ignicoccus hospitalis KIN4/1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 4191

Type strain:

Species: Ignicoccus hospitalis

Strain Designation: KIN4/1, KIN4/I

Culture col. no.: DSM 18386, JCM 14125

Strain history: H. Huber KIN4/I.

NCBI tax ID(s): 453591 (strain), 160233 (species)

SI-ID 302763

DSM 18386, JCM 14125

Special Collections

Section

Ignicoccus hospitalis KIN4/1 is an anaerobe, chemolithoautotroph, Gram-negative archaeon that forms irregular colonies and was isolated from hot marine sediment.

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

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Archaea"
	Phylum	*Thermoproteota*
	Class	*Thermoprotei*
	Order	*Desulfurococcales*
	Family	*Desulfurococcaceae*
	Genus	*Ignicoccus*
	Species	**Ignicoccus hospitalis**
	Full Scientific Name (LPSN)	Ignicoccus hospitalis Paper et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #23220]	Gram stain	negative

[Ref.: #23220]	Cell length	1.0-6.0 µm

[Ref.: #23220]	Cell shape	coccus-shaped

[Ref.: #23220]

Colony shape

irregular

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7367]

Culture medium

IGNICOCCUS MEDIUM (DSMZ Medium 897)

[Ref.: #7367]

Culture medium growth

[Ref.: #7367]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7367]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7367]	growth	90 °C
[Ref.: #23220]	growth	73-98 °C
[Ref.: #23220]	optimum	90 °C
[Ref.: #67770]	growth	90 °C

	pH	Kind of pH		pH
[Ref.: #23220]			optimum	5.5
[Ref.: #23220]			growth	4.5-7.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7367]	Oxygen tolerance	anaerobe
[Ref.: #23220]	Oxygen tolerance	anaerobe

[Ref.: #23220]

Nutrition type

chemolithoautotroph

[Ref.: #69480]

Ability of spore formation

no Confidence in %94.605

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #23220]		NaCl		growth	0.5-5.5	%
[Ref.: #23220]		NaCl		optimum	1.4	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23220]	elemental sulfur ChEBI	+	electron acceptor
[Ref.: #23220]	nitrate ChEBI	-	electron acceptor
[Ref.: #23220]	sulfate ChEBI	-	electron acceptor
[Ref.: #23220]	sulfite ChEBI	-	electron acceptor
[Ref.: #23220]	tetrathionate ChEBI	-	electron acceptor
[Ref.: #23220]	thiosulfate ChEBI	-	electron acceptor

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	flavin biosynthesis	93.33	14 of 15
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	hydrogen production	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	palmitate biosynthesis	77.27	17 of 22
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	coenzyme A metabolism	75	3 of 4
[Ref.: #66794]	threonine metabolism	70	7 of 10
[Ref.: #66794]	methionine metabolism	69.23	18 of 26
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	66.67	6 of 9
[Ref.: #66794]	heme metabolism	64.29	9 of 14
[Ref.: #66794]	isoleucine metabolism	62.5	5 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	62.5	5 of 8
[Ref.: #66794]	gluconeogenesis	62.5	5 of 8
[Ref.: #66794]	vitamin B1 metabolism	61.54	8 of 13
[Ref.: #66794]	phenylalanine metabolism	61.54	8 of 13
[Ref.: #66794]	purine metabolism	60.64	57 of 94
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	reductive acetyl coenzyme A pathway	57.14	4 of 7
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	glutamate and glutamine metabolism	57.14	16 of 28
[Ref.: #66794]	d-mannose degradation	55.56	5 of 9
[Ref.: #66794]	lipid metabolism	54.84	17 of 31
[Ref.: #66794]	pentose phosphate pathway	54.55	6 of 11
[Ref.: #66794]	pyrimidine metabolism	53.33	24 of 45
[Ref.: #66794]	glycolysis	52.94	9 of 17
[Ref.: #66794]	tetrahydrofolate metabolism	50	7 of 14
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	denitrification	50	1 of 2
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	50	3 of 6
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	50	1 of 2
[Ref.: #66794]	histidine metabolism	48.28	14 of 29
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	leucine metabolism	46.15	6 of 13
[Ref.: #66794]	tryptophan metabolism	44.74	17 of 38
[Ref.: #66794]	serine metabolism	44.44	4 of 9
[Ref.: #66794]	nitrate assimilation	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]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	propanol degradation	42.86	3 of 7
[Ref.: #66794]	citric acid cycle	42.86	6 of 14
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	arginine metabolism	41.67	10 of 24
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	creatinine degradation	40	2 of 5
[Ref.: #66794]	urea cycle	38.46	5 of 13
[Ref.: #66794]	isoprenoid biosynthesis	38.46	10 of 26
[Ref.: #66794]	oxidative phosphorylation	38.46	35 of 91
[Ref.: #66794]	degradation of sugar alcohols	37.5	6 of 16
[Ref.: #66794]	methanogenesis from CO2	33.33	4 of 12
[Ref.: #66794]	methane metabolism	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	L-lactaldehyde degradation	33.33	1 of 3
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	alanine metabolism	31.03	9 of 29
[Ref.: #66794]	lysine metabolism	30.95	13 of 42
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	non-pathway related	28.95	11 of 38
[Ref.: #66794]	glutathione metabolism	28.57	4 of 14
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	proline metabolism	27.27	3 of 11
[Ref.: #66794]	vitamin B6 metabolism	27.27	3 of 11
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	phenol degradation	25	5 of 20
[Ref.: #66794]	glycogen biosynthesis	25	1 of 4
[Ref.: #66794]	degradation of pentoses	25	7 of 28
[Ref.: #66794]	butanoate fermentation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
		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.: #7367]	Sample type/isolated from	hot marine sediment
[Ref.: #7367]	Geographic location (country and/or sea, region)	Kolbeinsey Ridge
[Ref.: #7367]	Country	Iceland
[Ref.: #7367]	Country ISO 3 Code	ISL
[Ref.: #7367]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Submarine hydrothermal system at the Kolbeinsey Ridge
[Ref.: #67770]	Country	Iceland
[Ref.: #67770]	Country ISO 3 Code	ISL
[Ref.: #67770]	Continent	Europe
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #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

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

[Ref.: #7367]

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.: #7367]	Ignicoccus sp. Kin4-I 16S rRNA gene, strain Kin4-I	AJ318042	1382	GenBank ENA	453591 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Ignicoccus hospitalis KIN4/I	GCA_000017945	complete	GenBank ENA	453591 tax ID	*
[Ref.: #66792]	Ignicoccus hospitalis KIN4/I, DSM 18386	640753029	complete	JGI IMG/M	453591 tax ID	*
[Ref.: #66792]	Ignicoccus hospitalis KIN4/I	453591.15	complete	PATRIC	453591 tax ID	*

[Ref.: #7367]	GC-content	56 mol%
[Ref.: #23220]	GC-content	56.0 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67770]	GC-content	56 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Ignicoccus hospitalis KIN4/I KIN4/I NCBI: GCA_000017945.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	71.71	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	85.201	yes
[Ref.: #69480]	aerobic	aerobicⓘ	no	90.811	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	94.605	no
[Ref.: #69480]	thermophilic	thermophileⓘ	yes	85.889	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	68.348	no

Availability in culture collections External links

[Ref.: #7367]

Culture collection no.

DSM 18386, JCM 14125

[Ref.: #73691]

SI-ID 302763

Literature:

	Title	Authors	Journal	DOI	Year
Enzymology	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	*
Enzymology	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	*
Phylogeny	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	*
	Identified Hybrid tRNA Structure Genes in Archaeal Genome.	Mandal UR, Das SS, Chattopadhyay B, Sahoo S	Iran J Biotechnol	10.29252/ijb.2254	2019	*

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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#73691

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-ID302763.1 )

* These data were automatically processed and therefore are not curated

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Ignicoccus hospitalis KIN4/I KIN4/I

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