Halomicrobium mukohataei (DSM 12286, ATCC 700874, JCM 9738)

Name: Halomicrobium mukohataei (DSM 12286, ATCC 700874, JCM 9738)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5874

Type strain

Strain Designation arg-2

Culture col. no. DSM 12286 ATCC 700874 JCM 9738 NCIMB 13541 arg-2 3 more

NCBI tax ID(s) 485914 57705

Special Collections DSMZ JCM KCTC CIP

History <- JCM <- K. Ihara, arg-2 K. Ihara arg-2. CIP <- 1997, K. Ihara, Nagoya Univ., Japan: strain arg-2 <- Y. Mukohata

Links

Halomicrobium mukohataei arg-2 is a Gram-negative, motile, rod-shaped archaeon that was isolated from salinas grandes.

Gram-negative motile rod-shaped genome sequence 16S sequence Archaea

Name and taxonomic classification

SI-ID 44188

ATCC 700874,DSM 12286,NCIMB 13541,JCM 9738,CIP 105174,KCTC 12965,CIP107720

@ref 20215

Last LPSN update 2026-02-09 11:19:04

Domain Archaea

Phylum Methanobacteriota

Class Halobacteria

Order Halobacteriales

Family Haloarculaceae

Genus Halomicrobium

Species Halomicrobium mukohataei

Full scientific name Halomicrobium mukohataei (Ihara et al. 1997) Oren et al. 2002

Synonyms (2)

Haloarcula mukohataei
Halomicrobium katesii

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility	Confidence
121171	negative	rod-shaped
125439	negative			95.3

Multimedia

@ref:	66793
multimedia content:	EM_DSM_12286_1.jpg
multimedia.multimedia content:	EM_DSM_12286_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
4672	HALOBACTERIA MEDIUM (DSMZ Medium 372)	Medium recipe at MediaDive	Name: HALOBACTERIA MEDIUM (DSMZ Medium 372) Composition: NaCl 200.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l Na glutamate 1.0 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.00036 g/l Distilled water
36895	MEDIUM 198 - for Haloarcula		Sodium hydrogen carbonate (0.200 g);Distilled water make up to (1000.000 ml);Sodium chloride (200.000 g);Potassium chloride (4.000 g);Magnesium chloride hexahydrate(13.000 g);Magnesium sulphate heptahydrate (20.000 g);Calcium chloride dihydrate (1.000 g);
121171	CIP Medium 198	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
4672	positive	growth	37
36895	positive	growth	37
67770	positive	growth	37
121171	positive	growth	30-37
121171	negative	growth	5
121171	negative	growth	15
121171	negative	growth	22
121171	negative	growth	41

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	91.2

Spore formation

@ref	Spore formation	Confidence
125439		95.5

Halophily

@ref	Salt	Tested relation	Concentration
121171	NaCl	growth	0 %
121171	NaCl	growth	2 %
121171	NaCl	growth	4 %
121171	NaCl	growth	6 %
121171	NaCl	growth	8 %
121171	NaCl	growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	+	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
121171	16947 ChEBI	citrate	-	carbon source
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	-	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
121171	4853 ChEBI	esculin	-	hydrolysis
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
121171	17234 ChEBI	glucose	-	degradation
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
121171	17632 ChEBI	nitrate	-	reduction
121171	16301 ChEBI	nitrite	-	reduction
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	+	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	+	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite	Production
121171	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
121171	15688 ChEBI	acetoin	-
121171	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121171	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
121171	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
121171	gamma-glutamyltransferase	-	2.3.2.2
121171	gelatinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
121171	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
121171	ornithine decarboxylase	-	4.1.1.17
121171	oxidase	-
121171	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	-	3.4.21.4	from API zym
121171	tryptophan deaminase	-
121171	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	isoleucine metabolism	100	8 of 8
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	denitrification	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	aerobactin biosynthesis	100	1 of 1
66794	palmitate biosynthesis	100	22 of 22
66794	folate polyglutamylation	100	1 of 1
66794	methylglyoxal degradation	100	5 of 5
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	starch degradation	90	9 of 10
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	flavin biosynthesis	86.67	13 of 15
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	Entner Doudoroff pathway	80	8 of 10
66794	factor 420 biosynthesis	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	cellulose degradation	80	4 of 5
66794	chorismate metabolism	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	biotin biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	gluconeogenesis	75	6 of 8
66794	vitamin B12 metabolism	73.53	25 of 34
66794	proline metabolism	72.73	8 of 11
66794	NAD metabolism	72.22	13 of 18
66794	photosynthesis	71.43	10 of 14
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	glutathione metabolism	71.43	10 of 14
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	acetoin degradation	66.67	2 of 3
66794	serine metabolism	66.67	6 of 9
66794	enterobactin biosynthesis	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	pantothenate biosynthesis	66.67	4 of 6
66794	methionine metabolism	65.38	17 of 26
66794	purine metabolism	64.89	61 of 94
66794	pyrimidine metabolism	64.44	29 of 45
66794	citric acid cycle	64.29	9 of 14
66794	pentose phosphate pathway	63.64	7 of 11
66794	non-pathway related	63.16	24 of 38
66794	arginine metabolism	62.5	15 of 24
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	alanine metabolism	62.07	18 of 29
66794	oxidative phosphorylation	61.54	56 of 91
66794	leucine metabolism	61.54	8 of 13
66794	myo-inositol biosynthesis	60	6 of 10
66794	3-chlorocatechol degradation	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	gallate degradation	60	3 of 5
66794	glycogen metabolism	60	3 of 5
66794	4-hydroxyphenylacetate degradation	60	6 of 10
66794	lipid metabolism	58.06	18 of 31
66794	heme metabolism	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	nitrate assimilation	55.56	5 of 9
66794	tryptophan metabolism	55.26	21 of 38
66794	histidine metabolism	55.17	16 of 29
66794	lysine metabolism	54.76	23 of 42
66794	vitamin B1 metabolism	53.85	7 of 13
66794	glycolysis	52.94	9 of 17
66794	carotenoid biosynthesis	50	11 of 22
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	phenylmercury acetate degradation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	cysteine metabolism	50	9 of 18
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	tyrosine metabolism	50	7 of 14
66794	sulfate reduction	46.15	6 of 13
66794	urea cycle	46.15	6 of 13
66794	degradation of sugar acids	44	11 of 25
66794	androgen and estrogen metabolism	43.75	7 of 16
66794	reductive acetyl coenzyme A pathway	42.86	3 of 7
66794	ubiquinone biosynthesis	42.86	3 of 7
66794	mevalonate metabolism	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	creatinine degradation	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	3-phenylpropionate degradation	40	6 of 15
66794	lipoate biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	phenol degradation	40	8 of 20
66794	O-antigen biosynthesis	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	cholesterol biosynthesis	36.36	4 of 11
66794	metabolism of disaccharids	36.36	4 of 11
66794	degradation of pentoses	35.71	10 of 28
66794	polyamine pathway	34.78	8 of 23
66794	cyanate degradation	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	peptidoglycan biosynthesis	33.33	5 of 15
66794	ascorbate metabolism	31.82	7 of 22
66794	isoprenoid biosynthesis	30.77	8 of 26
66794	bile acid biosynthesis, neutral pathway	29.41	5 of 17
66794	cardiolipin biosynthesis	28.57	2 of 7
66794	degradation of hexoses	27.78	5 of 18
66794	vitamin B6 metabolism	27.27	3 of 11
66794	d-xylose degradation	27.27	3 of 11
66794	catecholamine biosynthesis	25	1 of 4
66794	ppGpp biosynthesis	25	1 of 4
66794	degradation of sugar alcohols	25	4 of 16
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	CMP-KDO biosynthesis	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	4-hydroxymandelate degradation	22.22	2 of 9

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
121171	-	-	+	+	-	+	-	-	-	-	+	+	-	-	-	-	-	+	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
121171	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Condition	#Saline

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
4672	salinas grandes	Jujuy, Andes highlands	Argentina	ARG	Middle and South America
67770	Salinas Grandes in the Andes highlands	Jujuy	Argentina	ARG	Middle and South America
121171	Environment, Soil of salt flats	Jujuy, Andes highlands	Argentina	ARG	Middle and South America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4672	1	Risk group (German classification) According to TRBA 466
121171	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2396v1 assembly for Halomicrobium mukohataei DSM 12286	complete	GCA_000023965	485914.12	644736372	485914	97.53

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Halomicrobium mukohataei gene for 16S rRNA, complete sequence, strain: JCM 9738	AB663392	1473	485914
4672	Haloarcula mukohataei DNA for 16S rRNA	D50850	1469	57705
4672	Halomicrobium mukohataei strain JCM9738 16S ribosomal RNA (rrnB) gene, complete sequence	EF645691	1472	485914
4672	Halomicrobium mukohataei strain JCM9738 16S ribosomal RNA (rrnA) gene, complete sequence	EF645690	1473	485914

GC content

@ref	GC-content (mol%)	Method
4672	62.0
67770	65	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Halomicrobium mukohataei DSM 12286
NCBI: GCA_000023965

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.50	no
125439	motility	BacteriaNetⓘ	yes	59.40	no
125439	gram_stain	BacteriaNetⓘ	negative	95.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	91.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Halomicrobium mukohataei DSM 12286 DSM 12286
NCBI: GCA_000023965.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	78.16	no
125438	anaerobic	anaerobicⓘ	no	85.75	no
125438	aerobic	aerobicⓘ	yes	83.58	no
125438	spore-forming	spore-formingⓘ	no	84.12	no
125438	thermophilic	thermophileⓘ	no	82.99	no
125438	flagellated	motile2+ⓘ	no	87.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Isolation and Taxonomic Characterization of Novel Haloarchaeal Isolates From Indian Solar Saltern: A Brief Review on Distribution of Bacteriorhodopsins and V-Type ATPases in Haloarchaea.	Verma DK, Chaudhary C, Singh L, Sidhu C, Siddhardha B, Prasad SE, Thakur KG.	Front Microbiol	10.3389/fmicb.2020.554927	2020
	A virus-borne DNA damage signaling pathway controls the lysogeny-induction switch in a group of temperate pleolipoviruses.	Chen Z, Liu Y, Wang Y, Du X, Deng X, Xiang J, Wang Y, Wang J, Krupovic M, Du S, Chen X.	Nucleic Acids Res	10.1093/nar/gkad125	2023
Genetics	Genome sequence of carboxylesterase, carboxylase and xylose isomerase producing alkaliphilic haloarchaeon Haloterrigena turkmenica WANU15.	Selim S, Hagagy N.	Genom Data	10.1016/j.gdata.2015.11.031	2016
	Identification of the novel potential pathogen Trueperella pecoris with interspecies significance by LAMP diagnostics.	Kreitlow A, Ningrum SG, Lammler C, Erhard M, Hoffmann C, Plotz M, Abdulmawjood A.	Sci Rep	10.1038/s41598-023-40787-1	2023
Metabolism	Divergent degeneration of creA antitoxin genes from minimal CRISPRs and the convergent strategy of tRNA-sequestering CreT toxins.	Cheng F, Wang R, Yu H, Liu C, Yang J, Xiang H, Li M.	Nucleic Acids Res	10.1093/nar/gkab821	2021
Metabolism	Perchlorate reduction in microbial electrolysis cell with polyaniline modified cathode.	Li JJ, Gao MM, Zhang G, Wang XH, Wang SG, Song C, Xu YY.	Bioresour Technol	10.1016/j.biortech.2014.11.065	2015
	Evolution of endonuclease IV protein family: an in silico analysis.	Kanchan S, Sharma P, Chowdhury S.	3 Biotech	10.1007/s13205-019-1696-6	2019
Genetics	GenomeFingerprinter: the genome fingerprint and the universal genome fingerprint analysis for systematic comparative genomics.	Ai Y, Ai H, Meng F, Zhao L.	PLoS One	10.1371/journal.pone.0077912	2013
	Diversity and Potential Multifunctionality of Archaeal CetZ Tubulin-like Cytoskeletal Proteins.	Brown HJ, Duggin IG.	Biomolecules	10.3390/biom13010134	2023
Enzymology	Heterologous Gene Regulation in Clostridia: Rationally Designed Gene Regulation for Industrial and Medical Applications.	Zhang Y, Bailey TS, Kubiak AM, Lambin P, Theys J.	ACS Synth Biol	10.1021/acssynbio.2c00401	2022
Stress	HtrAs are essential for the survival of the haloarchaeon Natrinema gari J7-2 in response to heat, high salinity, and toxic substances.	Luo H, Qu X, Deng X, He L, Wu Y, Liu Y, He D, Yin J, Wang B, Gan F, Tang B, Tang X-F.	Appl Environ Microbiol	10.1128/aem.02048-23	2024
Genetics	Related haloarchaeal pleomorphic viruses contain different genome types.	Sencilo A, Paulin L, Kellner S, Helm M, Roine E.	Nucleic Acids Res	10.1093/nar/gks215	2012
Metabolism	The core and unique proteins of haloarchaea.	Capes MD, DasSarma P, DasSarma S.	BMC Genomics	10.1186/1471-2164-13-39	2012
Genetics	Deconstruction of archaeal genome depict strategic consensus in core pathways coding sequence assembly.	Pal A, Banerjee R, Mondal UK, Mukhopadhyay S, Bothra AK.	PLoS One	10.1371/journal.pone.0118245	2015
Metabolism	Species Widely Distributed in Halophilic Archaea Exhibit Opsin-Mediated Inhibition of Bacterioruberin Biosynthesis.	Peck RF, Graham SM, Gregory AM.	J Bacteriol	10.1128/jb.00576-18	2019
Enzymology	A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2.	Wang J, Liu Y, Liu Y, Du K, Xu S, Wang Y, Krupovic M, Chen X.	Nucleic Acids Res	10.1093/nar/gky005	2018
Phylogeny	Intragenomic heterogeneity of 16S rRNA genes causes overestimation of prokaryotic diversity.	Sun DL, Jiang X, Wu QL, Zhou NY.	Appl Environ Microbiol	10.1128/aem.01282-13	2013
Genetics	A unique group of virus-related, genome-integrating elements found solely in the bacterial family Thermaceae and the archaeal family Halobacteriaceae.	Jalasvuori M, Pawlowski A, Bamford JK.	J Bacteriol	10.1128/jb.00124-10	2010
Genetics	Bipyrimidine Signatures as a Photoprotective Genome Strategy in G + C-rich Halophilic Archaea.	Jones DL, Baxter BK.	Life (Basel)	10.3390/life6030037	2016
Enzymology	Wide distribution among halophilic archaea of a novel polyhydroxyalkanoate synthase subtype with homology to bacterial type III synthases.	Han J, Hou J, Liu H, Cai S, Feng B, Zhou J, Xiang H.	Appl Environ Microbiol	10.1128/aem.01117-10	2010
Transcriptome	Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux.	Lynch EA, Langille MG, Darling A, Wilbanks EG, Haltiner C, Shao KS, Starr MO, Teiling C, Harkins TT, Edwards RA, Eisen JA, Facciotti MT.	PLoS One	10.1371/journal.pone.0041389	2012
	Phylogeny and Taxonomy of Archaea: A Comparison of the Whole-Genome-Based CVTree Approach with 16S rRNA Sequence Analysis.	Zuo G, Xu Z, Hao B.	Life (Basel)	10.3390/life5010949	2015
	Halophiles and Their Biomolecules: Recent Advances and Future Applications in Biomedicine.	Corral P, Amoozegar MA, Ventosa A.	Mar Drugs	10.3390/md18010033	2019
	Adaptation of the Haloarcula hispanica CRISPR-Cas system to a purified virus strictly requires a priming process.	Li M, Wang R, Zhao D, Xiang H.	Nucleic Acids Res	10.1093/nar/gkt1154	2014
Metabolism	Archaeosortases and exosortases are widely distributed systems linking membrane transit with posttranslational modification.	Haft DH, Payne SH, Selengut JD.	J Bacteriol	10.1128/jb.06026-11	2012
Metabolism	Dihydroxyacetone metabolism in Haloferax volcanii.	Ouellette M, Makkay AM, Papke RT.	Front Microbiol	10.3389/fmicb.2013.00376	2013
Metabolism	Amino acid substitutions in cold-adapted proteins from Halorubrum lacusprofundi, an extremely halophilic microbe from antarctica.	DasSarma S, Capes MD, Karan R, DasSarma P.	PLoS One	10.1371/journal.pone.0058587	2013
Pathogenicity	Curcumin Mitigates Immune-Induced Epithelial Barrier Dysfunction by Campylobacter jejuni.	Lobo de Sa FD, Butkevych E, Nattramilarasu PK, Fromm A, Mousavi S, Moos V, Golz JC, Stingl K, Kittler S, Seinige D, Kehrenberg C, Heimesaat MM, Bereswill S, Schulzke JD, Bucker R.	Int J Mol Sci	10.3390/ijms20194830	2019
Metabolism	Ribonucleotide reduction - horizontal transfer of a required function spans all three domains.	Lundin D, Gribaldo S, Torrents E, Sjoberg BM, Poole AM.	BMC Evol Biol	10.1186/1471-2148-10-383	2010
	Diversity and Antibiotic Susceptibility of Acinetobacter Strains From Milk Powder Produced in Germany.	Cho GS, Li B, Rostalsky A, Fiedler G, Rosch N, Igbinosa E, Kabisch J, Bockelmann W, Hammer P, Huys G, Franz CMAP.	Front Microbiol	10.3389/fmicb.2018.00536	2018
Biotechnology	Synthesis, production, and biotechnological applications of exopolysaccharides and polyhydroxyalkanoates by archaea.	Poli A, Di Donato P, Abbamondi GR, Nicolaus B.	Archaea	10.1155/2011/693253	2011
Metabolism	Sequence and structural analysis of the chitinase insertion domain reveals two conserved motifs involved in chitin-binding.	Li H, Greene LH.	PLoS One	10.1371/journal.pone.0008654	2010
Phylogeny	Quantifying homologous replacement of loci between haloarchaeal species.	Williams D, Gogarten JP, Papke RT.	Genome Biol Evol	10.1093/gbe/evs098	2012
	Characterizing the DNA Methyltransferases of Haloferax volcanii via Bioinformatics, Gene Deletion, and SMRT Sequencing.	Ouellette M, Gogarten JP, Lajoie J, Makkay AM, Papke RT.	Genes (Basel)	10.3390/genes9030129	2018
	The complete genome sequence of Natrinema sp. J7-2, a haloarchaeon capable of growth on synthetic media without amino acid supplements.	Feng J, Liu B, Zhang Z, Ren Y, Li Y, Gan F, Huang Y, Chen X, Shen P, Wang L, Tang B, Tang XF.	PLoS One	10.1371/journal.pone.0041621	2012
Metabolism	Phylogenomic reconstruction of archaeal fatty acid metabolism.	Dibrova DV, Galperin MY, Mulkidjanian AY.	Environ Microbiol	10.1111/1462-2920.12359	2014
Metabolism	Archaeal ubiquitin-like proteins: functional versatility and putative ancestral involvement in tRNA modification revealed by comparative genomic analysis.	Makarova KS, Koonin EV.	Archaea	10.1155/2010/710303	2010
	Identification of polyhydroxyalkanoates in Halococcus and other haloarchaeal species.	Legat A, Gruber C, Zangger K, Wanner G, Stan-Lotter H.	Appl Microbiol Biotechnol	10.1007/s00253-010-2611-6	2010
Metabolism	Autocatalytic maturation of the Tat-dependent halophilic subtilase Nep produced by the archaeon Natrialba magadii.	Ruiz DM, Paggi RA, Gimenez MI, De Castro RE.	J Bacteriol	10.1128/jb.06792-11	2012
Genetics	The haloarchaeal MCM proteins: bioinformatic analysis and targeted mutagenesis of the beta7-beta8 and beta9-beta10 hairpin loops and conserved zinc binding domain cysteines.	Kristensen TP, Maria Cherian R, Gray FC, MacNeill SA.	Front Microbiol	10.3389/fmicb.2014.00123	2014
Metabolism	A novel pathway for the biosynthesis of heme in Archaea: genome-based bioinformatic predictions and experimental evidence.	Storbeck S, Rolfes S, Raux-Deery E, Warren MJ, Jahn D, Layer G.	Archaea	10.1155/2010/175050	2010
Metabolism	Halophilic archaea and their potential to generate renewable fuels and chemicals.	Kasirajan L, Maupin-Furlow JA.	Biotechnol Bioeng	10.1002/bit.27639	2021
	Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms.	Nasir A, Naeem A, Khan MJ, Nicora HD, Caetano-Anolles G.	Genes (Basel)	10.3390/genes2040869	2011
Metabolism	A complex of Cas proteins 5, 6, and 7 is required for the biogenesis and stability of clustered regularly interspaced short palindromic repeats (crispr)-derived rnas (crrnas) in Haloferax volcanii.	Brendel J, Stoll B, Lange SJ, Sharma K, Lenz C, Stachler AE, Maier LK, Richter H, Nickel L, Schmitz RA, Randau L, Allers T, Urlaub H, Backofen R, Marchfelder A.	J Biol Chem	10.1074/jbc.m113.508184	2014
Phylogeny	A rooted net of life.	Williams D, Fournier GP, Lapierre P, Swithers KS, Green AG, Andam CP, Gogarten JP.	Biol Direct	10.1186/1745-6150-6-45	2011
Metabolism	Physiological response to silver toxicity in the extremely halophilic archaeon Halomicrobium mukohataei.	Buda DM, Bulzu PA, Barbu-Tudoran L, Porfire A, Patras L, Sesarman A, Tripon S, Senila M, Ionescu MI, Banciu HL	FEMS Microbiol Lett	10.1093/femsle/fnz231	2019
Genetics	Complete genome sequence of Halomicrobium mukohataei type strain (arg-2).	Tindall BJ, Schneider S, Lapidus A, Copeland A, Glavina Del Rio T, Nolan M, Lucas S, Chen F, Tice H, Cheng JF, Saunders E, Bruce D, Goodwin L, Pitluck S, Mikhailova N, Pati A, Ivanova N, Mavrommatis K, Chen A, Palaniappan K, Chain P, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Han C, Rohde M, Goker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides NC, Detter JC	Stand Genomic Sci	10.4056/sigs.42644	2009
Phylogeny	Intraspecific polymorphism of 16S rRNA genes in two halophilic archaeal genera, Haloarcula and Halomicrobium.	Cui HL, Zhou PJ, Oren A, Liu SJ	Extremophiles	10.1007/s00792-008-0194-2	2008
Phylogeny	Halomicrobium mukohataei gen. nov., comb. nov., and emended description of Halomicrobium mukohataei.	Oren A, Elevi R, Watanabe S, Ihara K, Corcelli A	Int J Syst Evol Microbiol	10.1099/00207713-52-5-1831	2002
Phylogeny	Halomicrobium zhouii sp. nov., a halophilic archaeon from a marine solar saltern.	Yang X, Cui HL	Int J Syst Evol Microbiol	10.1099/ijs.0.031989-0	2011
Phylogeny	Halomicrobium katesii sp. nov., an extremely halophilic archaeon.	Kharroub K, Lizama C, Aguilera M, Boulahrouf A, Campos V, Ramos-Cormenzana A, Monteoliva-Sanchez M	Int J Syst Evol Microbiol	10.1099/ijs.0.65662-0	2008
Phylogeny	Haloarcula argentinensis sp. nov. and Haloarcula mukohataei sp. nov., two new extremely halophilic archaea collected in Argentina.	Ihara K, Watanabe S, Tamura T	Int J Syst Bacteriol	10.1099/00207713-47-1-73	1997

References

#4672	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12286
#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 )
#36895	; Curators of the CIP;
#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) .
#66793	Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )
#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;
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#121171	Collection of Institut Pasteur ; Curators of the CIP; CIP 105174
#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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Halomicrobium mukohataei (DSM 12286, ATCC 700874, JCM 9738)

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