Halarchaeum acidiphilum (DSM 22442, CECT 7534, JCM 16109)

Name: Halarchaeum acidiphilum (DSM 22442, CECT 7534, JCM 16109)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5977

Type strain

Strain Designation MH1-52-1

Culture col. no. DSM 22442 CECT 7534 JCM 16109 MH1-52-1

NCBI tax ID(s) 1261545 489138

Special Collections DSMZ JCM Literature strains

History DSMZ <- H. Minegishi, Bio-Nano Electronics Res. Centre, Toyo Univ., Kawagoe, Japan; MH1-52-1 JCM <-- H. Minegishi MH1-52-1.

Links

Halarchaeum acidiphilum MH1-52-1 is an anaerobe, Gram-negative, ovoid-shaped archaeon that was isolated from solar salt.

Gram-negative ovoid-shaped anaerobe genome sequence 16S sequence Archaea

Name and taxonomic classification

SI-ID 371184

CECT 7534,DSM 22442,JCM 16109,JCM 16108,CECT 7535,DSM 22443

@ref 20215

Last LPSN update 2026-05-29 08:26:17

Domain Archaea

Phylum Methanobacteriota

Class Halobacteria

Order Halobacteriales

Family Halobacteriaceae

Genus Halarchaeum

Species Halarchaeum acidiphilum

Full scientific name Halarchaeum acidiphilum Minegishi et al. 2010

Morphology

Cell morphology

@ref	Gram stain	Cell width	Cell shape	Motility
29468	negative	2 µm	ovoid-shaped

Pigmentation

29468

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16336	HALOARCHAEAL MEDIUM MH-1 (DSMZ Medium 1396)		Medium recipe at MediaDive	Name: HALOARCHAEAL MEDIUM MH-1 (DSMZ Medium 1396) Composition: NaCl 249.377 g/l Agar 24.9377 g/l K2SO4 6.23441 g/l Casamino acids 4.98753 g/l L-Glutamic acid 2.49377 g/l Trisodium citrate x 2 H2O 2.49377 g/l Yeast extract 2.49377 g/l NH4Cl 1.24688 g/l KH2PO4 1.24688 g/l Na2S2O3 x 5 H2O 0.00498753 g/l FeSO4 x 6 H2O 0.00498753 g/l CaCl2 x 2 H2O 0.00249377 g/l CoCl2 x 6 H2O 0.00074813 g/l Na2MoO4 x 2 H2O 0.000249377 g/l MnCl2 x 4 H2O 0.000249377 g/l ZnCl2 0.000249377 g/l NiCl2 x 6 H2O 0.000249377 g/l AlCl3 9.97506e-05 g/l H3BO4 4.98753e-05 g/l Na2WO4 x 2 H2O 4.98753e-05 g/l CuCl2 x 6 H2O 2.49377e-05 g/l BaCl2 x 2 H2O 2.49377e-05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
16336	positive	growth	37
29468	positive	growth	15-45
29468	positive	optimum	37
67770	positive	growth	37

Culture pH

@ref	Ability	Type	PH	PH range
29468	positive	optimum	4.4-4.5
29468	positive	growth	4-6	acidophile

Physiology and metabolism

Oxygen tolerance

29468

Oxygen toleranceanaerobe

Spore formation

@ref	Spore formation	Confidence
29468
125439		90.904

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29468	NaCl	positive	growth	18-30 %
29468	NaCl	positive	optimum	21-24 %

Observation

29468

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29468	22599 ChEBI	arabinose	+	carbon source
29468	17057 ChEBI	cellobiose	+	carbon source
29468	28757 ChEBI	fructose	+	carbon source
29468	28260 ChEBI	galactose	+	carbon source
29468	17234 ChEBI	glucose	+	carbon source
29468	17754 ChEBI	glycerol	+	carbon source
29468	16634 ChEBI	raffinose	+	carbon source
29468	17992 ChEBI	sucrose	+	carbon source
29468	18222 ChEBI	xylose	+	carbon source

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	adipate degradation	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	methylglyoxal degradation	100	5 of 5
66794	flavin biosynthesis	93.33	14 of 15
66794	Entner Doudoroff pathway	90	9 of 10
66794	threonine metabolism	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	ketogluconate metabolism	87.5	7 of 8
66794	phenylalanine metabolism	84.62	11 of 13
66794	factor 420 biosynthesis	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	cellulose degradation	80	4 of 5
66794	valine metabolism	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	palmitate biosynthesis	77.27	17 of 22
66794	vitamin B1 metabolism	76.92	10 of 13
66794	glycogen biosynthesis	75	3 of 4
66794	gluconeogenesis	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	isoleucine metabolism	75	6 of 8
66794	NAD metabolism	72.22	13 of 18
66794	photosynthesis	71.43	10 of 14
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	heme metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	glutamate and glutamine metabolism	71.43	20 of 28
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	lipid metabolism	67.74	21 of 31
66794	cyanate degradation	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	UDP-GlcNAc biosynthesis	66.67	2 of 3
66794	pantothenate biosynthesis	66.67	4 of 6
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	tetrahydrofolate metabolism	64.29	9 of 14
66794	degradation of sugar acids	64	16 of 25
66794	proline metabolism	63.64	7 of 11
66794	purine metabolism	62.77	59 of 94
66794	arginine metabolism	62.5	15 of 24
66794	histidine metabolism	62.07	18 of 29
66794	urea cycle	61.54	8 of 13
66794	propionate fermentation	60	6 of 10
66794	3-chlorocatechol degradation	60	3 of 5
66794	pyrimidine metabolism	60	27 of 45
66794	hydrogen production	60	3 of 5
66794	lysine metabolism	59.52	25 of 42
66794	ascorbate metabolism	59.09	13 of 22
66794	glycolysis	58.82	10 of 17
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	tryptophan metabolism	57.89	22 of 38
66794	glutathione metabolism	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	citric acid cycle	57.14	8 of 14
66794	d-mannose degradation	55.56	5 of 9
66794	aspartate and asparagine metabolism	55.56	5 of 9
66794	serine metabolism	55.56	5 of 9
66794	nitrate assimilation	55.56	5 of 9
66794	non-pathway related	55.26	21 of 38
66794	alanine metabolism	55.17	16 of 29
66794	oxidative phosphorylation	54.95	50 of 91
66794	d-xylose degradation	54.55	6 of 11
66794	pentose phosphate pathway	54.55	6 of 11
66794	leucine metabolism	53.85	7 of 13
66794	kanosamine biosynthesis II	50	1 of 2
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
66794	degradation of sugar alcohols	50	8 of 16
66794	myo-inositol biosynthesis	50	5 of 10
66794	sulfopterin metabolism	50	2 of 4
66794	resorcinol degradation	50	1 of 2
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	coenzyme M biosynthesis	50	5 of 10
66794	butanoate fermentation	50	2 of 4
66794	cysteine metabolism	50	9 of 18
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	vitamin B6 metabolism	45.45	5 of 11
66794	tyrosine metabolism	42.86	6 of 14
66794	degradation of pentoses	42.86	12 of 28
66794	methionine metabolism	42.31	11 of 26
66794	methanogenesis from CO2	41.67	5 of 12
66794	gallate degradation	40	2 of 5
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	glycogen metabolism	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	arachidonic acid metabolism	38.89	7 of 18
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	cholesterol biosynthesis	36.36	4 of 11
66794	phenol degradation	35	7 of 20
66794	isoprenoid biosynthesis	34.62	9 of 26
66794	lipid A biosynthesis	33.33	3 of 9
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	sulfoquinovose degradation	33.33	1 of 3
66794	mevalonate metabolism	28.57	2 of 7
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	carotenoid biosynthesis	27.27	6 of 22
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	polyamine pathway	26.09	6 of 23
66794	vitamin E metabolism	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	biotin biosynthesis	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	vitamin B12 metabolism	20.59	7 of 34

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Condition	#Saline

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
16336	solar salt	solar salt imported into Japan from Australia	Australia	AUS	Australia and Oceania
67770	Commercially available salt imported from Australia into Japan

Taxonmaps

69479

Global distribution of 16S sequence AB371717 (>99% sequence identity) for Halarchaeum acidiphilum from Microbeatlas

Aquatic Samples	2
Soil Samples	0
Animal Samples	4
Plant Samples	2
Total Samples	8

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16336	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	ASM47423v1 assembly for Halarchaeum acidiphilum MH1-52-1 JCM 16109	contig	GCA_000474235	1261545.10	2648501819	1261545	36.69
67770	ASM40097v1 assembly for Halarchaeum acidiphilum MH1-52-1	contig	GCA_000400975	1261545.11	2648501790	1261545	0

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Halarchaeum acidiphilum gene for 16S rRNA, complete sequence, strain: JCM 16109	AB663350	1474		1261545
16336	Halarchaeum acidiphilum gene for 16S ribosomal RNA, partial sequence	AB371717	1474		1261545

GC content

@ref	GC-content (mol%)	Method
16336	61.4	high performance liquid chromatography (HPLC)
29468	61.4

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM47423v1 assembly for Halarchaeum acidiphilum MH1-52-1 JCM 16109
NCBI: GCA_000474235

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	67.47	no
125439	gram_stain	BacteriaNetⓘ	positive	60.60	no
125439	motility	BacteriaNetⓘ	yes	41.58	no
125439	spore_formation	BacteriaNetⓘ	no	90.90	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halarchaeum grantii sp. nov., a moderately acidophilic haloarchaeon isolated from a commercial salt sample.	Shimane Y, Minegishi H, Echigo A, Kamekura M, Itoh T, Ohkuma M, Tsubouchi T, Usui K, Maruyama T, Usami R, Hatada Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.000501	2015
Phylogeny	Halarchaeum nitratireducens sp. nov., a moderately acidophilic haloarchaeon isolated from commercial sea salt.	Minegishi H, Yamauchi Y, Echigo A, Shimane Y, Kamekura M, Itoh T, Ohkuma M, Usami R	Int J Syst Evol Microbiol	10.1099/ijs.0.054668-0	2013
Phylogeny	Halarchaeum rubridurum sp. nov., a moderately acidophilic haloarchaeon isolated from commercial sea salt samples.	Yamauchi Y, Minegishi H, Echigo A, Shimane Y, Kamekura M, Itoh T, Ohkuma M, Doukyu N, Inoue A, Usami R	Int J Syst Evol Microbiol	10.1099/ijs.0.049262-0	2013
Phylogeny	Halarchaeum salinum sp. nov., a moderately acidophilic haloarchaeon isolated from commercial sea salt.	Yamauchi Y, Minegishi H, Echigo A, Shimane Y, Shimoshige H, Kamekura M, Itoh T, Doukyu N, Inoue A, Usami R	Int J Syst Evol Microbiol	10.1099/ijs.0.044693-0	2012
Phylogeny	Halarchaeum acidiphilum gen. nov., sp. nov., a moderately acidophilic haloarchaeon isolated from commercial solar salt.	Minegishi H, Echigo A, Nagaoka S, Kamekura M, Usami R	Int J Syst Evol Microbiol	10.1099/ijs.0.013722-0	2009

References

#16336	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22442
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#25871	IJSEM 2513 2010 ( DOI 10.1099/ijs.0.013722-0 , PubMed 19965997 )
#29468	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25871
#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 )

Content

About us

Halarchaeum acidiphilum (DSM 22442, CECT 7534, JCM 16109)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000474235

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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