Kyrpidia spormannii (DSM 106492, CCOS 1194, EA-1)

Name: Kyrpidia spormannii (DSM 106492, CCOS 1194, EA-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 158437

Type strain

Strain Designation EA-1

Culture col. no. DSM 106492 CCOS 1194 EA-1

NCBI tax ID(s) 2055160

Special Collections DSMZ Literature strains

History DSMZ <- J. Gescher, Karlsruher Institut für Technologie, Germany; EA-1 <- J.E. Reiner

Links

Kyrpidia spormannii EA-1 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from sediment from hydrothermal systems.

spore-forming Gram-positive rod-shaped aerobe genome sequence Bacteria

Name and taxonomic classification

SI-ID 397149

DSM 106492

@ref 20215

Last LPSN update 2026-05-29 08:43:58

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Alicyclobacillaceae

Genus Kyrpidia

Species Kyrpidia spormannii

Full scientific name Kyrpidia spormannii Reiner et al. 2018

BacDive ID	Other strains from **Kyrpidia spormannii** (2)	Type strain
159656	K. spormannii FAVT 5, DSM 109470
159657	K. spormannii COOX1, DSM 109471

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
66748	positive	4-8 µm	0.7-1.2 µm	rod-shaped

Colony morphology

@ref	Colony color	Incubation period	Medium used
66748	pale cream	2-5 days	Reasoner's 2A agar (R2A)

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
65113	R2A MEDIUM (DSMZ Medium 830)	Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
66748	Reasoner's 2A agar (R2A)
66748	Lysogeny broth medium

Culture temp

@ref	Growth	Type	Temperature (°C)
65113	positive	growth	55
66748	negative	growth	37
66748	positive	optimum	55
66748	negative	growth	70
66748	positive	growth	45-65

Culture pH

@ref	Ability	Type	PH
66748	positive	optimum	5.5
66748		growth	<4.5
66748		growth	>7
66748	positive	growth	4.5-7

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
66748	aerobe
125439	facultative anaerobe	96.212

Spore formation

@ref	Type of spore	Spore formation	Confidence
66748	endospore
125438			90.473

Halophily

@ref	Salt	Growth	Tested relation	Concentration
66748	NaCl	positive	growth	0-1 %(w/v)
66748	NaCl		growth	1.5 %(w/v)

Observation

@ref	Observation
66748	The strain is capable of autotrophic growth with carbon dioxide as the sole carbon source using hydrogen as electron donor and oxygen as the terminal electron acceptor.
66748	Nile red stains intracellular granules.
66748	Neither nitrate, DMSO, sulfate nor fumarate serves as electron acceptor under anaerobic growth conditions.

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
66748	30796 ChEBI	(R)-malic acid	+	carbon source
66748	30797 ChEBI	(S)-malic acid	+	carbon source
66748	16810 ChEBI	2-oxoglutarate	+	carbon source
66748	16411 ChEBI	acetic acid	+	carbon source
66748	13705 ChEBI	acetoacetate	+	carbon source
66748	31206 ChEBI	ammonium chloride	+	nitrogen source
66748	22653 ChEBI	asparagine	+	nitrogen source
66748	16526 ChEBI	carbon dioxide	+	carbon source
66748	15570 ChEBI	D-alanine	+	carbon source
66748	15824 ChEBI	D-fructose	+	carbon source
66748	12936 ChEBI	D-galactose	+	carbon source
66748	18024 ChEBI	D-galacturonic acid	+	carbon source
66748	17634 ChEBI	D-glucose	+	carbon source
66748	16024 ChEBI	D-mannose	+	carbon source
66748	27605 ChEBI	D-psicose	+	carbon source
66748	16988 ChEBI	D-ribose	+	carbon source
66748	65327 ChEBI	D-xylose	+	carbon source
66748	18276 ChEBI	dihydrogen	+	electron donor
66748	15379 ChEBI	dioxygen	+	electron acceptor
66748	17234 ChEBI	glucose	-	fermentation
66748	32323 ChEBI	glucuronamide	+	carbon source
66748	30849 ChEBI	L-arabinose	+	carbon source
66748	18287 ChEBI	L-fucose	+	carbon source
66748	62320 ChEBI	L-lyxose	+	carbon source
66748	62345 ChEBI	L-rhamnose	+	carbon source
66748	75146 ChEBI	monomethyl succinate	+	carbon source
66748	15361 ChEBI	pyruvate	+	carbon source
66748	30031 ChEBI	succinate	+	carbon source

Enzymes

@ref	Value	Activity	Ec
66748	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Hydrothermal vent
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature	Isolation procedure
65113	sediment from hydrothermal systems	Azores, Sao Miguel	Portugal	PRT	Europe
66748	hydrothermal sediment samples	Sao Miguel Island, Azores	Portugal	PRT	Europe	37.7733	-25.3036 37.7733/-25.3036	R2A agar	pH 6	2-5 days	60	Sediment samples of hydrothermal systems served as inoculum. The working electrode potential was set to 594 mV versus saturated calomel electrode and the ES medium (pH 3.5; 10 mM NH4Cl, 2.5 mM NaCl, 0.3 mM KH2PO4, 0.12 mM MgSO4, 0.1 mM CaCl2, 1 ml l-1 Wolfe's mineral elixir) was constantly sparged with a gas mix consisting of 80 % N2 and 20 % CO2 (v/v). The final enrichment was performed at 60°C under autotrophic conditions in ES medium with 0.25 cm^2 of the cathodic graphite felt as inoculum. The gas phase consisted of 20 % CO2, 75 % H2 and 5 % O2 (v/v/v). After serial dilutions in ES medium, single colonies were obtained by plating the culture on Reasoner's 2A agar at 60°C and 2-5 days.

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM280406v1 assembly for Kyrpidia spormannii EA-1	complete	GCA_002804065	2055160.3	2775506848	2055160	93.25

GC content

@ref	GC-content (mol%)	Method
65113	58.7
66748	58.7	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM280406v1 assembly for Kyrpidia spormannii EA-1
NCBI: GCA_002804065

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	negative	64.71	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	96.21	no
125439	motility	BacteriaNetⓘ	yes	45.41	no
125439	spore_formation	BacteriaNetⓘ	yes	63.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Kyrpidia spormannii EA-1
NCBI: GCA_002804065.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	53.61	no
125438	anaerobic	anaerobicⓘ	no	85.52	yes
125438	aerobic	aerobicⓘ	yes	55.26	no
125438	spore-forming	spore-formingⓘ	yes	90.47	yes
125438	thermophilic	thermophileⓘ	yes	54.09	no
125438	flagellated	motile2+ⓘ	yes	70.92	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Improving the Cathodic Biofilm Growth Capabilities of Kyrpidia spormannii EA-1 by Undirected Mutagenesis.	Jung T, Hackbarth M, Horn H, Gescher J	Microorganisms	10.3390/microorganisms9010077	2020
Phylogeny	Kyrpidia spormannii sp. nov., a thermophilic, hydrogen-oxidizing, facultative autotroph, isolated from hydrothermal systems at Sao Miguel Island, and emended description of the genus Kyrpidia.	Reiner JE, Jung T, Lapp CJ, Siedler M, Bunk B, Overmann J, Gescher J	Int J Syst Evol Microbiol	10.1099/ijsem.0.003037	2018

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 )
#65113	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 106492
#66748	Johannes Eberhard Reiner, Tobias Jung, Christian Jonas Lapp, Marvin Siedler, Boyke Bunk, Jörg Overmann, Johannes Gescher: Kyrpidia spormannii sp. nov., a thermophilic, hydrogen-oxidizing, facultative autotroph, isolated from hydrothermal systems at Sao Miguel Island, and emended description of the genus Kyrpidia. IJSEM 68: 3735 - 3740 2018 ( DOI 10.1099/ijsem.0.003037 , PubMed 30234478 )
#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) .
#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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Kyrpidia spormannii (DSM 106492, CCOS 1194, EA-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

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_002804065

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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