Name: Haladaptatus cibarius D43
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5972

Type strain:

Species: Haladaptatus cibarius

Strain Designation: D43

Culture col. no.: DSM 19505, JCM 15962, KCTC 4055

Strain history: J.-W. Bae D43.

NCBI tax ID(s): 1455608 (strain), 453847 (species)

SI-ID 399544

DSM 19505

Section

Haladaptatus cibarius D43 is an aerobe, mesophilic, Gram-negative archaeon that was isolated from salt-fermented seafood.

coccus-shaped
Gram-negative
motile
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	*Haladaptatus*
	Species	**Haladaptatus cibarius**
	Full Scientific Name (LPSN)	Haladaptatus cibarius Roh et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29432]	Gram stain	negative

[Ref.: #29432]	Cell width	1 µm

[Ref.: #29432]	Cell shape	coccus-shaped

[Ref.: #29432]	Motility	yes

[Ref.: #29432]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8136]

Culture medium

MEDIUM FOR H. DOMBROWSKII (DSMZ Medium 954)

[Ref.: #8136]

Culture medium growth

[Ref.: #8136]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8136]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8136]	growth	37 °C
[Ref.: #29432]	growth	15-50 °C
[Ref.: #29432]	optimum	37 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #8136]	Temperature range	mesophilic
[Ref.: #29432]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29432]			optimum	7
[Ref.: #29432]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29432]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29432]		NaCl		growth	10-30	%
[Ref.: #29432]		NaCl		optimum	15	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29432]	acetate ChEBI	+	carbon source
[Ref.: #29432]	formate ChEBI	+	carbon source
[Ref.: #29432]	fructose ChEBI	+	carbon source
[Ref.: #29432]	glucose ChEBI	+	carbon source
[Ref.: #29432]	lactose ChEBI	+	carbon source
[Ref.: #29432]	sucrose ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #29432]		indole ChEBI	yes

	Physiological tests	Metabolite	Indole test
[Ref.: #29432]		indole ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #29432]	catalase	+	1.11.1.6
[Ref.: #29432]	cytochrome oxidase	+	1.9.3.1
[Ref.: #29432]	gelatinase	+

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

[Ref.: #8136]	Sample type/isolated from	salt-fermented seafood
[Ref.: #8136]	Country	Republic of Korea
[Ref.: #8136]	Country ISO 3 Code	KOR
[Ref.: #8136]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Jeotgal, traditional Korean fermented seafood
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Seafood
#Condition	#Saline	-
#Engineered	#Food production	#Fermented

What are isolation sources categories?

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

[Ref.: #8136]

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.: #8136]	Haladaptatus cibarius D43 16S ribosomal RNA gene, partial sequence	EF660747	1405	ENA	1455608 tax ID
[Ref.: #20218]	Haladaptatus cibarius gene for 16S rRNA, complete sequence, strain: JCM 15962	AB663345	1471	ENA	1455608 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Haladaptatus cibarius D43	GCA_000710615	contig	GenBank	1455608 tax ID
[Ref.: #66792]	Haladaptatus cibarius D43	2582580505	draft	JGI IMG/M	1455608 tax ID	*
[Ref.: #66792]	Haladaptatus cibarius D43	1455608.3	wgs	PATRIC	1455608 tax ID	*

[Ref.: #8136]	GC-content	56.5 mol%	fluorimetric
[Ref.: #29432]	GC-content	56.5 mol%
[Ref.: #67770]	GC-content	56.5 mol%	thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #8136]

Culture collection no.

DSM 19505, JCM 15962, KCTC 4055

[Ref.: #75461]

SI-ID 399544

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Haladaptatus pallidirubidus sp. nov., a halophilic archaeon isolated from saline soil samples in Yunnan and Xinjiang, China.	Liu BB, Zhao WY, Chu X, Hozzein WN, Prabhu DM, Wadaan MA, Tang SK, Zhang LL, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-014-0259-4	2014	*
Phylogeny	Haladaptatus cibarius sp. nov., an extremely halophilic archaeon from seafood, and emended description of the genus Haladaptatus.	Roh SW, Lee ML, Bae JW	Int J Syst Evol Microbiol	10.1099/ijs.0.013037-0	2009	*

References

#8136

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19505

#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 )

#29432

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 #25838 (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;

#75461

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-ID399544.1 )

#25838

IJSEM 1187 2010 ( DOI 10.1099/ijs.0.013037-0 , PubMed 19667394 )

* These data were automatically processed and therefore are not curated

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