Name: Thermoplasma acidophilum 122-1B2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17017

Type strain:

Species: Thermoplasma acidophilum

Strain Designation: 122-1B2

Culture col. no.: DSM 1728, ATCC 25905, AMRC C165, JCM 9062, IFO 15155, NBRC 15155

Strain history: IFO 15155 <-- T. Itoh <-- ATCC 25905 <-- R. G. Wittler <-- T. D. Brock <-- G. Darland 122-1B2.

NCBI tax ID(s): 273075 (strain), 2303 (species)

SI-ID 38714

ATCC 25905, DSM 1728, JCM 9062, IFO 15155, NBRC 15155

Other strains from Thermoplasma acidophilum

T. acidophilum JCM 17946
T. acidophilum JCM 17947
T. acidophilum JCM 17948
T. acidophilum JCM 17949
T. acidophilum JCM 17950
T. acidophilum JCM 17951
T. acidophilum JCM 17952
T. acidophilum JCM 17953
T. acidophilum JCM 17954
T. acidophilum JCM 17955
T. acidophilum JCM 17956

Section

Thermoplasma acidophilum 122-1B2 is an anaerobe, thermophilic, Gram-negative archaeon that was isolated from coal refuse pile.

Gram-negative
anaerobe
thermophilic
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	*Methanobacteriota*
	Class	*Thermoplasmata*
	Order	*Thermoplasmatales*
	Family	*Thermoplasmataceae*
	Genus	*Thermoplasma*
	Species	**Thermoplasma acidophilum**
	Full Scientific Name (LPSN)	Thermoplasma acidophilum corrig. Darland et al. 1970 (Approved Lists 1980)

Synonym

Thermoplasma acidophila

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.993

Information on culture and growth conditions Culture and growth conditions

[Ref.: #884]

Culture medium

THERMOPLASMA ACIDOPHILUM MEDIUM (DSMZ Medium 158)

[Ref.: #884]

Culture medium growth

[Ref.: #884]

Culture medium link

Medium recipe at MediaDive

[Ref.: #884]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #884]			growth	55 °C
[Ref.: #67770]			growth	55 °C

[Ref.: #884]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	thermophilic
[Ref.: #69480]	Temperature range	thermophilic Confidence in %99.999

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

anaerobe Confidence in %96.888

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.978

[Ref.: #884]

Name of produced compound

restriction endonuclease ThaI

[Ref.: #67770]

Observation

quinones: MK-7, MMK-7, MK-7, MMK-7

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	glycine betaine biosynthesis	100	5 of 5
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	ceramide biosynthesis	100	1 of 1
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	palmitate biosynthesis	77.27	17 of 22
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	glutamate and glutamine metabolism	75	21 of 28
[Ref.: #66794]	coenzyme A metabolism	75	3 of 4
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	lipid metabolism	70.97	22 of 31
[Ref.: #66794]	vitamin B12 metabolism	70.59	24 of 34
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	threonine metabolism	70	7 of 10
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	valine metabolism	66.67	6 of 9
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	tetrahydrofolate metabolism	64.29	9 of 14
[Ref.: #66794]	lysine metabolism	64.29	27 of 42
[Ref.: #66794]	pentose phosphate pathway	63.64	7 of 11
[Ref.: #66794]	purine metabolism	62.77	59 of 94
[Ref.: #66794]	gluconeogenesis	62.5	5 of 8
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	NAD metabolism	61.11	11 of 18
[Ref.: #66794]	pyrimidine metabolism	60	27 of 45
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	3-chlorocatechol degradation	60	3 of 5
[Ref.: #66794]	alanine metabolism	58.62	17 of 29
[Ref.: #66794]	isoprenoid biosynthesis	57.69	15 of 26
[Ref.: #66794]	mevalonate metabolism	57.14	4 of 7
[Ref.: #66794]	d-mannose degradation	55.56	5 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	serine metabolism	55.56	5 of 9
[Ref.: #66794]	tryptophan metabolism	55.26	21 of 38
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	vitamin B1 metabolism	53.85	7 of 13
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	degradation of sugar acids	52	13 of 25
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	50	3 of 6
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	50	1 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	coenzyme M biosynthesis	50	5 of 10
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	arginine metabolism	50	12 of 24
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	oxidative phosphorylation	46.15	42 of 91
[Ref.: #66794]	d-xylose degradation	45.45	5 of 11
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	histidine metabolism	44.83	13 of 29
[Ref.: #66794]	non-pathway related	42.11	16 of 38
[Ref.: #66794]	phenylacetate degradation (aerobic)	40	2 of 5
[Ref.: #66794]	cellulose degradation	40	2 of 5
[Ref.: #66794]	hydrogen production	40	2 of 5
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	creatinine degradation	40	2 of 5
[Ref.: #66794]	degradation of pentoses	39.29	11 of 28
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	isoleucine metabolism	37.5	3 of 8
[Ref.: #66794]	vitamin B6 metabolism	36.36	4 of 11
[Ref.: #66794]	ascorbate metabolism	36.36	8 of 22
[Ref.: #66794]	glutathione metabolism	35.71	5 of 14
[Ref.: #66794]	polyamine pathway	34.78	8 of 23
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	flavin biosynthesis	33.33	5 of 15
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	cardiolipin biosynthesis	28.57	2 of 7
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	tyrosine metabolism	28.57	4 of 14
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	sulfopterin metabolism	25	1 of 4
[Ref.: #66794]	degradation of sugar alcohols	25	4 of 16
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
		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.: #884]	Sample type/isolated from	coal refuse pile
[Ref.: #884]	Country	USA
[Ref.: #884]	Country ISO 3 Code	USA
[Ref.: #884]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Coal refuse pile
* marker position based on {}

Isolation sources categories

#Engineered	#Other	#Mine
#Engineered	#Waste	#Solid waste

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence M38637 (>99% sequence identity) for Thermoplasma from Microbeatlas

Aquatic Samples	38
Soil Samples
Animal Samples
Plant Samples
Total Samples	38

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

[Ref.: #884]

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.: #884]	Thermoplasma acidophilum 16S rRNA gene	M38637	2914	ENA	2303 tax ID
[Ref.: #884]	Citrus unshiu DNA, scaffold00261, cultivar: Miyagawa wase, whole genome shotgun sequence	M20822	321284	ENA	55188 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Thermoplasma acidophilum DSM 1728	GCA_000195915	complete	GenBank	273075 tax ID	*
[Ref.: #66792]	Thermoplasma acidophilum DSM 1728	638154521	complete	JGI IMG/M	273075 tax ID	*
[Ref.: #66792]	Thermoplasma acidophilum DSM 1728	273075.10	complete	PATRIC	273075 tax ID	*

[Ref.: #884]	GC-content	46.8 mol%
[Ref.: #67770]	GC-content	45 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67770]	GC-content	45 mol%	Buoyant density centrifugation (BD)
[Ref.: #67770]	GC-content	46.9 mol%	Buoyant density centrifugation (BD)
[Ref.: #67770]	GC-content	46 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Thermoplasma acidophilum DSM 1728 DSM1728 NCBI: GCA_000195915.1
[Ref.: #69481]	spore-forming	no	72	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Thermoplasma acidophilum DSM 1728 DSM1728 NCBI: GCA_000195915.1
[Ref.: #69480]	motile	no	88.531	no
[Ref.: #69480]	flagellated	no	98.101	no
[Ref.: #69480]	gram-positive	no	93.086	no
[Ref.: #69480]	anaerobic	yes	80.625	no
[Ref.: #69480]	aerobic	no	91.301	no
[Ref.: #69480]	halophile	no	85.815	no
[Ref.: #69480]	spore-forming	no	94.406	no
[Ref.: #69480]	thermophile	yes	100	yes
[Ref.: #69480]	glucose-util	yes	86.965	no
[Ref.: #69480]	glucose-ferment	no	64.767	no

Availability in culture collections External links

[Ref.: #884]

Culture collection no.

DSM 1728, ATCC 25905, AMRC C165, JCM 9062, IFO 15155, NBRC 15155

[Ref.: #86018]

SI-ID 38714

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	The Main (Glyco) Phospholipid (MPL) of Thermoplasma acidophilum.	Freisleben HJ	Int J Mol Sci	10.3390/ijms20205217	2019	*
Enzymology	Heterologous expression and characterization of an alcohol dehydrogenase from the archeon Thermoplasma acidophilum.	Marino-Marmolejo EN, De Leon-Rodriguez A, de la Rosa AP, Santos L	Mol Biotechnol	10.1007/s12033-008-9130-z	2008	*
Metabolism	Crystallization and preliminary X-ray diffraction analysis of 5,10- methylenetetrahydrofolate dehydrogenase/cyclohydrolase from Thermoplasma acidophilum DSM 1728.	Kim JH, Sung MW, Lee EH, Nam KH, Hwang KY	J Microbiol Biotechnol	7137	2008	*
Metabolism	Structural and mutational analysis of tRNA intron-splicing endonuclease from Thermoplasma acidophilum DSM 1728: catalytic mechanism of tRNA intron-splicing endonucleases.	Kim YK, Mizutani K, Rhee KH, Nam KH, Lee WH, Lee EH, Kim EE, Park SY, Hwang KY	J Bacteriol	10.1128/JB.00713-07	2007	*

References

#884	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1728

#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 )

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#86018

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-ID38714.1 )

* These data were automatically processed and therefore are not curated

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Thermoplasma acidophilum DSM 1728 DSM1728

Thermoplasma acidophilum DSM 1728 DSM1728

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