Acidiplasma cupricumulans (DSM 16651, JCM 13668, BH2)

Name: Acidiplasma cupricumulans (DSM 16651, JCM 13668, BH2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5460

Type strain

Strain Designation BH2

Culture col. no. DSM 16651 JCM 13668 BH2

NCBI tax ID(s) 1295373 312540

Special Collections DSMZ JCM

History <- J. J. Plumb, CSIRO Land and Water, Wembley, WA, Australia; BH2 <- R. B. Hawkes {2003} J. J. Plumb BH2.

Links

Acidiplasma cupricumulans BH2 is a thermophilic prokaryote that was isolated from mineral sulfide ore, Monywa Minesite.

thermophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 297629

DSM 16651,JCM 13668

@ref 20215

Last LPSN update 2026-02-09 11:18:58

Domain Archaea

Phylum Methanobacteriota

Class Thermoplasmata

Order Thermoplasmatales

Family Ferroplasmataceae

Genus Acidiplasma

Species Acidiplasma cupricumulans

Full scientific name Acidiplasma cupricumulans (Hawkes et al. 2008) Golyshina et al. 2009

Synonyms (1)

Ferroplasma cupricumulans

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	94.9

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6551	FERROPLASMA ACIDIPHILUM MEDIUM (DSMZ Medium 874)		Medium recipe at MediaDive	Name: FERROPLASMA ACIDIPHILUM MEDIUM (DSMZ Medium 874; with strain-specific modifications) Composition: FeSO4 x 7 H2O 25.0 g/l Potassium tetrathionate 2.0 g/l MgSO4 x 7 H2O 0.4 g/l (NH4)2SO4 0.2 g/l Yeast extract 0.2 g/l K2HPO4 0.1 g/l KCl 0.1 g/l FeCl3 x 6 H2O 0.0193 g/l Na2B4O7 x 10 H2O 0.0045 g/l MnCl2 x 4 H2O 0.0018 g/l ZnSO4 x 7 H2O 0.00022 g/l CuCl2 x 2 H2O 5e-05 g/l VOSO4 x 5 H2O 3.8e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l CoSO4 x 7 H2O 2e-05 g/l H2SO4 Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6551	positive	growth	55	thermophilic
67770	positive	growth	55	thermophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	91.1

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	starch degradation	100	10 of 10
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	acetate fermentation	100	4 of 4
66794	folate polyglutamylation	100	1 of 1
66794	methylglyoxal degradation	100	5 of 5
66794	ethanol fermentation	100	2 of 2
66794	formaldehyde oxidation	100	3 of 3
66794	Entner Doudoroff pathway	90	9 of 10
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	palmitate biosynthesis	86.36	19 of 22
66794	photosynthesis	85.71	12 of 14
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	vitamin B12 metabolism	82.35	28 of 34
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	glycogen metabolism	80	4 of 5
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	pyrimidine metabolism	77.78	35 of 45
66794	d-mannose degradation	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	alanine metabolism	75.86	22 of 29
66794	glutamate and glutamine metabolism	75	21 of 28
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	ketogluconate metabolism	75	6 of 8
66794	coenzyme A metabolism	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	purine metabolism	74.47	70 of 94
66794	flavin biosynthesis	73.33	11 of 15
66794	citric acid cycle	71.43	10 of 14
66794	mevalonate metabolism	71.43	5 of 7
66794	heme metabolism	71.43	10 of 14
66794	propanol degradation	71.43	5 of 7
66794	glycolysis	70.59	12 of 17
66794	propionate fermentation	70	7 of 10
66794	vitamin B1 metabolism	69.23	9 of 13
66794	cyanate degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	serine metabolism	66.67	6 of 9
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	octane oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	lipid metabolism	64.52	20 of 31
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	vitamin B6 metabolism	63.64	7 of 11
66794	proline metabolism	63.64	7 of 11
66794	metabolism of disaccharids	63.64	7 of 11
66794	gluconeogenesis	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	isoleucine metabolism	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	methionine metabolism	61.54	16 of 26
66794	NAD metabolism	61.11	11 of 18
66794	glycine betaine biosynthesis	60	3 of 5
66794	histidine metabolism	58.62	17 of 29
66794	arginine metabolism	58.33	14 of 24
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	reductive acetyl coenzyme A pathway	57.14	4 of 7
66794	cysteine metabolism	55.56	10 of 18
66794	degradation of hexoses	55.56	10 of 18
66794	pentose phosphate pathway	54.55	6 of 11
66794	degradation of pentoses	53.57	15 of 28
66794	tryptophan metabolism	52.63	20 of 38
66794	lactate fermentation	50	2 of 4
66794	1,4-dihydroxy-6-naphthoate biosynthesis	50	3 of 6
66794	myo-inositol biosynthesis	50	5 of 10
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	sulfopterin metabolism	50	2 of 4
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	butanoate fermentation	50	2 of 4
66794	glycine metabolism	50	5 of 10
66794	biotin biosynthesis	50	2 of 4
66794	lysine metabolism	50	21 of 42
66794	tyrosine metabolism	50	7 of 14
66794	coenzyme M biosynthesis	50	5 of 10
66794	degradation of sugar acids	48	12 of 25
66794	non-pathway related	44.74	17 of 38
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	vitamin K metabolism	40	2 of 5
66794	4-hydroxyphenylacetate degradation	40	4 of 10
66794	lipoate biosynthesis	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	cellulose degradation	40	2 of 5
66794	phenylacetate degradation (aerobic)	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	polyamine pathway	39.13	9 of 23
66794	sulfate reduction	38.46	5 of 13
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	oxidative phosphorylation	37.36	34 of 91
66794	d-xylose degradation	36.36	4 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	glutathione metabolism	35.71	5 of 14
66794	bile acid biosynthesis, neutral pathway	35.29	6 of 17
66794	enterobactin biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	phenol degradation	30	6 of 20
66794	cardiolipin biosynthesis	28.57	2 of 7
66794	ascorbate metabolism	27.27	6 of 22
66794	CMP-KDO biosynthesis	25	1 of 4
66794	ppGpp biosynthesis	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	toluene degradation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	carotenoid biosynthesis	22.73	5 of 22
66794	4-hydroxymandelate degradation	22.22	2 of 9
66794	nitrate assimilation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Environmental	#Terrestrial
#Condition	#Sulfuric

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6551	mineral sulfide ore, Monywa Minesite	Monywa	Myanmar	MMR	Asia
67770	Industrial mineral sulphide bioleach heap in Myanmar

Taxonmaps

69479

Global distribution of 16S sequence AY907888 (>99% sequence identity) for Ferroplasmaceae from Microbeatlas

Aquatic Samples	23
Soil Samples	1
Animal Samples	1
Plant Samples
Total Samples	25

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6551	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM131622v1 assembly for Acidiplasma cupricumulans JCM 13668 = DSM 16651	contig	GCA_001316225	1295373.3	2681813016	1295373	13.43
67770	ASM140293v1 assembly for Acidiplasma cupricumulans BH2	contig	GCA_001402935		2654587522	312540	13.07

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6551	Ferroplasma cupricumulans strain BH2 16S ribosomal RNA gene, partial sequence	AY907888	1445		312540

GC content

@ref	GC-content (mol%)
6551	34.0
67770	34

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Acidiplasma cupricumulans JCM 13668
NCBI: GCA_001316225

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	66.40	no
125439	motility	BacteriaNetⓘ	no	67.40	no
125439	gram_stain	BacteriaNetⓘ	negative	94.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	91.10	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Microbial immobilisation and adaptation to Cu²⁺ enhances microbial Fe²⁺ oxidation for bioleaching of printed circuit boards in the presence of mixed metal ions.	Maluleke MD, Kotsiopoulos A, Govender-Opitz E, Harrison STL.	Res Microbiol	10.1016/j.resmic.2023.104148	2024
	The environmental adaptation of acidophilic archaea: promotion of horizontal gene transfer by genomic islands.	Qiu J, Tao H, Li H, Liu X, Liu R, Nawaz MN, Wang X, Ma L.	BMC Genomics	10.1186/s12864-025-11875-5	2025
Pathogenicity	Rubidium chloride modulated the fecal microbiota community in mice.	Chen Q, He Z, Zhuo Y, Li S, Yang W, Hu L, Zhong H.	BMC Microbiol	10.1186/s12866-021-02095-4	2021
Phylogeny	Lack of detection of a human placenta microbiome in samples from preterm and term deliveries.	Leiby JS, McCormick K, Sherrill-Mix S, Clarke EL, Kessler LR, Taylor LJ, Hofstaedter CE, Roche AM, Mattei LM, Bittinger K, Elovitz MA, Leite R, Parry S, Bushman FD.	Microbiome	10.1186/s40168-018-0575-4	2018
	A review on the bioleaching of toxic metal(loid)s from contaminated soil: Insight into the mechanism of action and the role of influencing factors.	Sarkodie EK, Jiang L, Li K, Yang J, Guo Z, Shi J, Deng Y, Liu H, Jiang H, Liang Y, Yin H, Liu X.	Front Microbiol	10.3389/fmicb.2022.1049277	2022
Genetics	Metagenomic Mining for Esterases in the Microbial Community of Los Rueldos Acid Mine Drainage Formation.	Vidal P, Martinez-Martinez M, Fernandez-Lopez L, Roda S, Mendez-Garcia C, Golyshina OV, Guallar V, Pelaez AI, Ferrer M.	Front Microbiol	10.3389/fmicb.2022.868839	2022
Metabolism	An Adaptation To Life In Acid Through A Novel Mevalonate Pathway.	Vinokur JM, Cummins MC, Korman TP, Bowie JU.	Sci Rep	10.1038/srep39737	2016
Genetics	Omics on bioleaching: current and future impacts.	Martinez P, Vera M, Bobadilla-Fazzini RA.	Appl Microbiol Biotechnol	10.1007/s00253-015-6903-8	2015
Phylogeny	Acidiplasma aeolicum gen. nov., sp. nov., a euryarchaeon of the family Ferroplasmaceae isolated from a hydrothermal pool, and transfer of Ferroplasma cupricumulans to Acidiplasma cupricumulans comb. nov.	Golyshina OV, Yakimov MM, Lunsdorf H, Ferrer M, Nimtz M, Timmis KN, Wray V, Tindall BJ, Golyshin PN	Int J Syst Evol Microbiol	10.1099/ijs.0.009639-0	2009
Phylogeny	Ferroplasma cupricumulans sp. nov., a novel moderately thermophilic, acidophilic archaeon isolated from an industrial-scale chalcocite bioleach heap.	Hawkes RB, Franzmann PD, O'Hara G, Plumb JJ	Extremophiles	10.1007/s00792-006-0527-y	2006

References

#6551	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16651
#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 )
#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 .
#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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Acidiplasma cupricumulans (DSM 16651, JCM 13668, BH2)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001316225

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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