Ignicoccus pacificus (DSM 13166, ATCC 700958, LPC 33)

Name: Ignicoccus pacificus (DSM 13166, ATCC 700958, LPC 33)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 4190

Type strain

Strain Designation LPC 33

Culture col. no. DSM 13166 ATCC 700958 LPC 33

NCBI tax ID(s) 940294 114376

Special Collections DSMZ Literature strains

History <- H. Huber and K. O. Stetter, Univ. Regensburg, Germany; LPC 33 <- H. Huber {1996}

Links

Ignicoccus pacificus LPC 33 is an anaerobe, chemolithoautotroph, Gram-negative archaeon that was isolated from rocky block smoker material.

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

Name and taxonomic classification

SI-ID 49426

DSM 13166,ATCC 700958

@ref 20215

Last LPSN update 2026-02-09 11:18:40

Domain Archaea

Phylum Thermoproteota

Class Thermoprotei

Order Desulfurococcales

Family Desulfurococcaceae

Genus Ignicoccus

Species Ignicoccus pacificus

Full scientific name Ignicoccus pacificus Huber and Stetter 2000

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell shape	Motility	Flagellum arrangement
23219	negative	1-2 µm	coccus-shaped		polytrichous, monopolar

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
4956	IGNICOCCUS MEDIUM (DSMZ Medium 897)		Medium recipe at MediaDive	Name: IGNICOCCUS MEDIUM (DSMZ Medium 897) 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 Meat extract 0.992063 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)
4956	positive	growth	90
23219	positive	growth	75-98
23219	positive	optimum	90

Culture pH

@ref	Ability	Type	PH
23219	positive	optimum	6.0
23219	positive	growth	4.5-7.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
4956	anaerobe
23219	anaerobe

Nutrition type

23219

Typechemolithoautotroph

Spore formation

@ref	Spore formation	Confidence
125438		93.605

Halophily

@ref	Salt	Growth	Tested relation	Concentration
23219	NaCl	positive	growth	1.0-5.0 %
23219	NaCl	positive	optimum	2 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
23219	17632 ChEBI	nitrate	-	electron acceptor
23219	16189 ChEBI	sulfate	-	electron acceptor
23219	17359 ChEBI	sulfite	-	electron acceptor
23219	15226 ChEBI	tetrathionate	-	electron acceptor
23219	16094 ChEBI	thiosulfate	-	electron acceptor

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Condition	#Thermophilic (>45°C)	-
#Environmental	#Aquatic	#Hydrothermal vent
#Environmental	#Terrestrial	#Geologic

Isolation

@ref	Sample type	Geographic location	Country	Latitude	Longitude
4956	rocky block smoker material	East Pacific Rise	International waters	9	-104 9/-104
23219	black smoker samples	Pacific Ocean		9	-104 9/-104

Taxonmaps

69479

Global distribution of 16S sequence AJ271794 (>99% sequence identity) for Ignicoccus pacificus subclade from Microbeatlas

Aquatic Samples	24
Soil Samples
Animal Samples
Plant Samples
Total Samples	24

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4956	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM2534020v1 assembly for Ignicoccus pacificus DSM 13166	complete	GCA_025340205	940294.5	940294	73.12

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
4956	Ignicoccus pacificus 16S rRNA gene, strain LPC33	AJ271794	1331		940294

GC content

4956

GC-content (mol%)45

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Ignicoccus pacificus DSM 13166
NCBI: GCA_025340205

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	85.90	no
125439	motility	BacteriaNetⓘ	yes	71.70	no
125439	gram_stain	BacteriaNetⓘ	variable	83.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	87.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Ignicoccus pacificus DSM 13166 DSM 13166
NCBI: GCA_025340205.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	71.53	yes
125438	anaerobic	anaerobicⓘ	yes	86.25	yes
125438	aerobic	aerobicⓘ	no	89.48	yes
125438	spore-forming	spore-formingⓘ	no	93.61	no
125438	thermophilic	thermophileⓘ	yes	85.47	no
125438	flagellated	motile2+ⓘ	no	63.21	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Purification of a Crenarchaeal ATP Synthase in the Light of the Unique Bioenergetics of Ignicoccus Species.	Kreuter LJ, Weinfurtner A, Ziegler A, Weigl J, Hoffmann J, Morgner N, Muller V, Huber H.	J Bacteriol	10.1128/jb.00510-18	2019
Phylogeny	Rise of Microbial Culturomics: Noncontiguous Finished Genome Sequence and Description of Beduini massiliensis gen. nov., sp. nov.	Mourembou G, Yasir M, Azhar EI, Lagier JC, Bibi F, Jiman-Fatani AA, Helmy N, Robert C, Rathored J, Fournier PE, Raoult D, Million M.	OMICS	10.1089/omi.2015.0143	2015
Phylogeny	Ignicoccus gen. nov., a novel genus of hyperthermophilic, chemolithoautotrophic Archaea, represented by two new species, Ignicoccus islandicus sp nov and Ignicoccus pacificus sp nov. and Ignicoccus pacificus sp. nov.	Huber H, Burggraf S, Mayer T, Wyschkony I, Rachel R, Stetter KO	Int J Syst Evol Microbiol	10.1099/00207713-50-6-2093	2000

References

#4956	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 13166
#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 )
#23219	H Huber, S Burggraf, T Mayer, I Wyschkony, R Rachel, K O Stetter: Ignicoccus gen. nov., a novel genus of hyperthermophilic, chemolithoautotrophic Archaea, represented by two new species, Ignicoccus islandicus sp nov and Ignicoccus pacificus sp nov. and Ignicoccus pacificus sp. nov.. IJSEM 50: 2093 - 2100 2000 ( DOI 10.1099/00207713-50-6-2093 , PubMed 11155984 )
#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) .
#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 pacificus (DSM 13166, ATCC 700958, LPC 33)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Metabolite utilization

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_025340205

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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