Name: Halarchaeum rubridurum MH1-16-3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24088

Type strain:

Species: Halarchaeum rubridurum

Strain Designation: MH1-16-3

Culture col. no.: DSM 22443, CECT 7535, JCM 16108

Strain history: H. Minegishi MH1-16-3.

NCBI tax ID(s): 489911 (species)

Section

Halarchaeum rubridurum MH1-16-3 is an aerobe, mesophilic, Gram-negative archaeon that was isolated from commercial solar sea salt.

Gram-negative
aerobe
mesophilic
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 rubridurum**
	Full Scientific Name (LPSN)	Halarchaeum rubridurum Yamauchi et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30997]	Gram stain	negative

[Ref.: #30997]	Cell length	1.5 µm

[Ref.: #30997]	Cell width	1.5 µm

[Ref.: #30997]	Motility	no

[Ref.: #30997]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21215]

Culture medium

HALOARCHAEAL MEDIUM MH-1 (DSMZ Medium 1396)

[Ref.: #21215]

Culture medium growth

[Ref.: #21215]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21215]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #21215]	growth	37 °C
[Ref.: #30997]	growth	20-50 °C
[Ref.: #30997]	optimum	42.5 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #21215]	Temperature range	mesophilic
[Ref.: #30997]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30997]			optimum	5.75
[Ref.: #30997]			growth	4.5-6.8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30997]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30997]		NaCl		growth	09-30	%
[Ref.: #30997]		NaCl		optimum	19.5	%

[Ref.: #30997]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30997]	cellobiose ChEBI	+	carbon source
[Ref.: #30997]	fructose ChEBI	+	carbon source
[Ref.: #30997]	galactose ChEBI	+	carbon source
[Ref.: #30997]	glucose ChEBI	+	carbon source
[Ref.: #30997]	malate ChEBI	+	carbon source
[Ref.: #30997]	succinate ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30997]		catalase	+	1.11.1.6

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #21215]	Sample type/isolated from	commercial solar sea salt
[Ref.: #21215]	Country	Philippines
[Ref.: #21215]	Country ISO 3 Code	PHL
[Ref.: #21215]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Commercial solar salt sample produced in the Philippines
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Food
#Environmental	#Aquatic	#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB372513 (>99% sequence identity) for Halarchaeum rubridurum subclade from Microbeatlas

Aquatic Samples	17
Soil Samples	1
Animal Samples
Plant Samples
Total Samples	18

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

[Ref.: #21215]

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.: #21215]	Halarchaeum rubridurum gene for 16S ribosomal RNA, complete sequence	AB372513	1476	ENA	489911 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halarchaeum rubridurum JCM 16108	GCA_014647115	contig	GenBank	489911 tax ID	*
[Ref.: #66792]	Halarchaeum rubridurum DSM 22443	GCA_017873775	contig	GenBank	489911 tax ID	*
[Ref.: #66792]	Halarchaeum rubridurum DSM 22443	2913406730	draft	JGI IMG/M	489911 tax ID	*
[Ref.: #66792]	Halarchaeum rubridurum strain JCM 16108	489911.3	wgs	PATRIC	489911 tax ID	*

[Ref.: #21215]	GC-content	63.2 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30997]	GC-content	63.2 mol%

Availability in culture collections External links

[Ref.: #21215]

Culture collection no.

DSM 22443, CECT 7535, JCM 16108

Literature:

Topic	Title	Authors	Journal	DOI	Year
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	*

References

#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 )

#21215

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22443

#30997

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 #27327 (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) .

#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 .

#27327

IJSEM 3143 2013 ( DOI 10.1099/ijs.0.049262-0 , PubMed 23435243 )

* These data were automatically processed and therefore are not curated

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