Infirmifilum uzonense (DSM 28062, JCM 19810, 1807-2)

Name: Infirmifilum uzonense (DSM 28062, JCM 19810, 1807-2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132972

Type strain

Strain Designation 1807-2

Culture col. no. DSM 28062 JCM 19810 1807-2

NCBI tax ID(s) 1550241

Special Collections DSMZ JCM

History DSMZ <- K. Derbikova, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; 1807-2 <- O. A. Podosokorskaya

Links

Infirmifilum uzonense 1807-2 is an archaeon that was isolated from gray-white mud pit from a hot spring.

genome sequence Archaea

Name and taxonomic classification

SI-ID 406696

JCM 19810,DSM 28062

@ref 20215

Last LPSN update 2026-05-29 08:37:59

Domain Archaea

Phylum Thermoproteota

Class Thermoprotei

Order Thermoproteales

Family Thermofilaceae

Genus Infirmifilum

Species Infirmifilum uzonense

Full scientific name Infirmifilum uzonense (Toshchakov et al. 2016) Zayulina et al. 2024

Synonyms (1)

Thermofilum uzonense

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
24760	THERMOFILUM MEDIUM (DSMZ Medium 1516)		Medium recipe at MediaDive	Name: THERMOFILUM MEDIUM (DSMZ Medium 1516) Composition: Glucose 2.0 g/l KH2PO4 0.33 g/l NH4Cl 0.33 g/l MgCl2 0.33 g/l CaCl2 0.33 g/l KCl 0.33 g/l Na2S x H2O 0.3 g/l Yeast extract 0.1 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.000784 g/l NiCl2 x 2 H2O 0.000225 g/l ZnSO4 x 7 H2O 0.000144 g/l Pyridoxine hydrochloride 0.0001 g/l MnCl2 x 4 H2O 9.9e-05 g/l Na2SeO4 9.5e-05 g/l Calcium D-(+)-pantothenate 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l (DL)-alpha-Lipoic acid 5e-05 g/l Nicotinic acid 5e-05 g/l Thiamine HCl 5e-05 g/l Riboflavin 5e-05 g/l CoCl2 x 6 H2O 3.8e-05 g/l Na2WO4 x 2 H2O 3.3e-05 g/l Na2MoO4 x 2 H2O 2.4e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Vitamin B12 1e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
24760	positive	growth	85

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	facultative anaerobe	98.909

Spore formation

@ref	Spore formation	Confidence
125439		99.25

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	dolichol and dolichyl phosphate biosynthesis	100	2 of 2
66794	hydrogen production	80	4 of 5
66794	starch degradation	80	8 of 10
66794	d-mannose degradation	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	palmitate biosynthesis	77.27	17 of 22
66794	glycolysis	76.47	13 of 17
66794	glycogen biosynthesis	75	3 of 4
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	ketogluconate metabolism	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	NAD metabolism	61.11	11 of 18
66794	myo-inositol biosynthesis	60	6 of 10
66794	glycogen metabolism	60	3 of 5
66794	methylglyoxal degradation	60	3 of 5
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	lipid A biosynthesis	55.56	5 of 9
66794	pentose phosphate pathway	54.55	6 of 11
66794	metabolism of disaccharids	54.55	6 of 11
66794	methionine metabolism	53.85	14 of 26
66794	vitamin B1 metabolism	53.85	7 of 13
66794	phenylalanine metabolism	53.85	7 of 13
66794	oxidative phosphorylation	53.85	49 of 91
66794	pyrimidine metabolism	53.33	24 of 45
66794	ribulose monophosphate pathway	50	1 of 2
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	acetate fermentation	50	2 of 4
66794	suberin monomers biosynthesis	50	1 of 2
66794	coenzyme A metabolism	50	2 of 4
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	photosynthesis	50	7 of 14
66794	ethanol fermentation	50	1 of 2
66794	purine metabolism	50	47 of 94
66794	adipate degradation	50	1 of 2
66794	C4 and CAM-carbon fixation	50	4 of 8
66794	selenocysteine biosynthesis	50	3 of 6
66794	gluconeogenesis	50	4 of 8
66794	glutamate and glutamine metabolism	46.43	13 of 28
66794	sulfate reduction	46.15	6 of 13
66794	alanine metabolism	44.83	13 of 29
66794	valine metabolism	44.44	4 of 9
66794	degradation of hexoses	44.44	8 of 18
66794	reductive acetyl coenzyme A pathway	42.86	3 of 7
66794	propanol degradation	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	Entner Doudoroff pathway	40	4 of 10
66794	flavin biosynthesis	40	6 of 15
66794	glycine betaine biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	cellulose degradation	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	propionate fermentation	40	4 of 10
66794	non-pathway related	39.47	15 of 38
66794	degradation of pentoses	39.29	11 of 28
66794	lipid metabolism	38.71	12 of 31
66794	isoprenoid biosynthesis	38.46	10 of 26
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	37.5	3 of 8
66794	d-xylose degradation	36.36	4 of 11
66794	lysine metabolism	35.71	15 of 42
66794	polyamine pathway	34.78	8 of 23
66794	CO2 fixation in Crenarchaeota	33.33	3 of 9
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	serine metabolism	33.33	3 of 9
66794	octane oxidation	33.33	1 of 3
66794	cysteine metabolism	33.33	6 of 18
66794	sphingosine metabolism	33.33	2 of 6
66794	tryptophan metabolism	31.58	12 of 38
66794	leucine metabolism	30.77	4 of 13
66794	threonine metabolism	30	3 of 10
66794	glycine metabolism	30	3 of 10
66794	coenzyme M biosynthesis	30	3 of 10
66794	citric acid cycle	28.57	4 of 14
66794	glutathione metabolism	28.57	4 of 14
66794	CMP-KDO biosynthesis	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	phenol degradation	25	5 of 20
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	isoleucine metabolism	25	2 of 8
66794	butanoate fermentation	25	1 of 4
66794	urea cycle	23.08	3 of 13
66794	chorismate metabolism	22.22	2 of 9
66794	tyrosine metabolism	21.43	3 of 14

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
24760	gray-white mud pit from a hot spring	Kamchatka, Uzon Caldera, Orange Thermal Field (54.30 N 160.00 E)	Russia	RUS	Asia	54.3	160 54.3/160

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24760	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	IMG accession	NCBI tax ID	Score
66792	ASM99380v1 assembly for Infirmifilum uzonense 1807-2	complete	GCA_000993805	2639762927	1550241	97.77

GC content

@ref	GC-content (mol%)	Method
24760	47.9	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM99380v1 assembly for Infirmifilum uzonense 1807-2
NCBI: GCA_000993805

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	positive	71.87	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	98.91	no
125439	motility	BacteriaNetⓘ	no	72.49	no
125439	spore_formation	BacteriaNetⓘ	no	99.25	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Validation List no. 219. Valid publication of new names and new combinations effectively published outside the IJSEM.	Oren A, Goker M.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006452	2024
Phylogeny	Novel hyperthermophilic crenarchaeon Infirmifilum lucidum gen. nov. sp. nov., reclassification of Thermofilum uzonense as Infirmifilum uzonense comb. nov. and assignment of the family Thermofilaceae to the order Thermofilales ord. nov.	Zayulina KS, Elcheninov AG, Toshchakov SV, Kochetkova TV, Novikov AA, Blamey JM, Kublanov IV	Syst Appl Microbiol	10.1016/j.syapm.2021.126230	2021
Genetics	Complete genome sequence of and proposal of Thermofilum uzonense sp. nov. a novel hyperthermophilic crenarchaeon and emended description of the genus Thermofilum.	Toshchakov SV, Korzhenkov AA, Samarov NI, Mazunin IO, Mozhey OI, Shmyr IS, Derbikova KS, Taranov EA, Dominova IN, Bonch-Osmolovskaya EA, Patrushev MV, Podosokorskaya OA, Kublanov IV	Stand Genomic Sci	10.1186/s40793-015-0105-y	2015

References

#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 )
#24760	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28062
#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 )
#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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Infirmifilum uzonense (DSM 28062, JCM 19810, 1807-2)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000993805

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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