Name: Halarchaeum acidiphilum MH1-52-1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 5977

Type strain:

Species: Halarchaeum acidiphilum

Strain Designation: MH1-52-1

Culture col. no.: DSM 22442, CECT 7534, JCM 16109

Strain history: H. Minegishi MH1-52-1.

NCBI tax ID(s): 1261545 (strain), 489138 (species)

SI-ID 371184

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

Special Collections

Section

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

Gram-negative
ovoid-shaped
anaerobe
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	*Halobacteria*
	Order	*Halobacteriales*
	Family	*Halobacteriaceae*
	Genus	*Halarchaeum*
	Species	**Halarchaeum acidiphilum**
	Full Scientific Name (LPSN)	Halarchaeum acidiphilum Minegishi et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29468]	Gram stain	negative

[Ref.: #29468]	Cell width	2 µm

[Ref.: #29468]	Cell shape	ovoid-shaped

[Ref.: #29468]	Motility	no

[Ref.: #29468]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16336]

Culture medium

HALOARCHAEAL MEDIUM MH-1 (DSMZ Medium 1396)

[Ref.: #16336]

Culture medium growth

[Ref.: #16336]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16336]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16336]	growth	37 °C
[Ref.: #29468]	growth	15-45 °C
[Ref.: #29468]	optimum	37 °C
[Ref.: #67770]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #29468]			optimum	4.4.-4.5
[Ref.: #29468]			growth	04-06

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29468]

Oxygen tolerance

anaerobe

[Ref.: #29468]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29468]		NaCl		growth	18-30	%
[Ref.: #29468]		NaCl		optimum	21-24	%

[Ref.: #29468]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29468]	arabinose ChEBI	+	carbon source
[Ref.: #29468]	cellobiose ChEBI	+	carbon source
[Ref.: #29468]	fructose ChEBI	+	carbon source
[Ref.: #29468]	galactose ChEBI	+	carbon source
[Ref.: #29468]	glucose ChEBI	+	carbon source
[Ref.: #29468]	glycerol ChEBI	+	carbon source
[Ref.: #29468]	raffinose ChEBI	+	carbon source
[Ref.: #29468]	sucrose ChEBI	+	carbon source
[Ref.: #29468]	xylose ChEBI	+	carbon source

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	flavin biosynthesis	93.33	14 of 15
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	ketogluconate metabolism	87.5	7 of 8
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	factor 420 biosynthesis	80	4 of 5
[Ref.: #66794]	vitamin K metabolism	80	4 of 5
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	palmitate biosynthesis	77.27	17 of 22
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	gluconeogenesis	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	photosynthesis	71.43	10 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	glutamate and glutamine metabolism	71.43	20 of 28
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	lipid metabolism	67.74	21 of 31
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	UDP-GlcNAc biosynthesis	66.67	2 of 3
[Ref.: #66794]	pantothenate biosynthesis	66.67	4 of 6
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	tetrahydrofolate metabolism	64.29	9 of 14
[Ref.: #66794]	degradation of sugar acids	64	16 of 25
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	purine metabolism	62.77	59 of 94
[Ref.: #66794]	arginine metabolism	62.5	15 of 24
[Ref.: #66794]	histidine metabolism	62.07	18 of 29
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	3-chlorocatechol degradation	60	3 of 5
[Ref.: #66794]	pyrimidine metabolism	60	27 of 45
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	lysine metabolism	59.52	25 of 42
[Ref.: #66794]	ascorbate metabolism	59.09	13 of 22
[Ref.: #66794]	glycolysis	58.82	10 of 17
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
[Ref.: #66794]	tryptophan metabolism	57.89	22 of 38
[Ref.: #66794]	glutathione metabolism	57.14	8 of 14
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	citric acid cycle	57.14	8 of 14
[Ref.: #66794]	d-mannose degradation	55.56	5 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	55.56	5 of 9
[Ref.: #66794]	serine metabolism	55.56	5 of 9
[Ref.: #66794]	nitrate assimilation	55.56	5 of 9
[Ref.: #66794]	non-pathway related	55.26	21 of 38
[Ref.: #66794]	alanine metabolism	55.17	16 of 29
[Ref.: #66794]	oxidative phosphorylation	54.95	50 of 91
[Ref.: #66794]	d-xylose degradation	54.55	6 of 11
[Ref.: #66794]	pentose phosphate pathway	54.55	6 of 11
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	50	1 of 2
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
[Ref.: #66794]	degradation of sugar alcohols	50	8 of 16
[Ref.: #66794]	myo-inositol biosynthesis	50	5 of 10
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	resorcinol degradation	50	1 of 2
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	coenzyme M biosynthesis	50	5 of 10
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	degradation of pentoses	42.86	12 of 28
[Ref.: #66794]	methionine metabolism	42.31	11 of 26
[Ref.: #66794]	methanogenesis from CO2	41.67	5 of 12
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	arachidonic acid metabolism	38.89	7 of 18
[Ref.: #66794]	sulfate reduction	38.46	5 of 13
[Ref.: #66794]	dTDPLrhamnose biosynthesis	37.5	3 of 8
[Ref.: #66794]	androgen and estrogen metabolism	37.5	6 of 16
[Ref.: #66794]	cholesterol biosynthesis	36.36	4 of 11
[Ref.: #66794]	phenol degradation	35	7 of 20
[Ref.: #66794]	isoprenoid biosynthesis	34.62	9 of 26
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	3-phenylpropionate degradation	33.33	5 of 15
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	carotenoid biosynthesis	27.27	6 of 22
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	polyamine pathway	26.09	6 of 23
[Ref.: #66794]	vitamin E metabolism	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	vitamin B12 metabolism	20.59	7 of 34
		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.: #16336]	Sample type/isolated from	solar salt
[Ref.: #16336]	Geographic location (country and/or sea, region)	solar salt imported into Japan from Australia
[Ref.: #16336]	Country	Australia
[Ref.: #16336]	Country ISO 3 Code	AUS
[Ref.: #16336]	Continent	Australia and Oceania

[Ref.: #67770]	Sample type/isolated from	Commercially available salt imported from Australia into Japan
* marker position based on {}

Isolation sources categories

#Condition

#Saline

What are isolation sources categories?

[Ref.: #69479]

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

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

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

[Ref.: #16336]

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.: #16336]	Halarchaeum acidiphilum gene for 16S ribosomal RNA, partial sequence	AB371717	1474	GenBank ENA	1261545 tax ID
[Ref.: #20218]	Halarchaeum acidiphilum gene for 16S rRNA, complete sequence, strain: JCM 16109	AB663350	1474	GenBank ENA	1261545 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Halarchaeum acidiphilum MH1-52-1	GCA_000400975	contig	GenBank ENA	1261545 tax ID
[Ref.: #67770]	Halarchaeum acidiphilum MH1-52-1 JCM 16109	GCA_000474235	contig	GenBank ENA	1261545 tax ID
[Ref.: #66792]	Halarchaeum acidiphilum JCM 16109	2648501819	draft	JGI IMG/M	1261545 tax ID	*
[Ref.: #66792]	Halarchaeum acidiphilum MH1-52-1	2648501790	draft	JGI IMG/M	1261545 tax ID	*
[Ref.: #66792]	Halarchaeum acidiphilum MH1-52-1	1261545.10	wgs	PATRIC	1261545 tax ID	*
[Ref.: #66792]	Halarchaeum acidiphilum MH1-52-1	1261545.11	wgs	PATRIC	1261545 tax ID	*

[Ref.: #16336]	GC-content	61.4 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29468]	GC-content	61.4 mol%

Availability in culture collections External links

[Ref.: #16336]

Culture collection no.

DSM 22442, CECT 7534, JCM 16109

[Ref.: #75466]

SI-ID 371184

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 )

#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 (see below)

#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 .

#75466

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-ID371184.1 )

#25871

IJSEM 2513 2010 ( DOI 10.1099/ijs.0.013722-0 , PubMed 19965997 )

* These data were automatically processed and therefore are not curated

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