Name: Halorubrum trapanicum DSM 12287
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5942

Type strain:

Species: Halorubrum trapanicum

Culture col. no.: DSM 12287, CIP 105807, JCM 10477, NCIMB 13488, NRC 34021, CGMCC 1.4297

Strain history: CIP <- 1998, NCIMB <- W.D. Grant, Leicester Univ., Leicester, UK: strain derived from NRC 34021

NCBI tax ID(s): 29284 (species)

Section

Halorubrum trapanicum DSM 12287 is a mesophilic, Gram-negative, motile archaeon that was isolated from Solar salt.

Gram-negative
motile
rod-shaped
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	*Haloferacales*
	Family	*Halorubraceae*
	Genus	*Halorubrum*
	Species	**Halorubrum trapanicum**
	Full Scientific Name (LPSN)	Halorubrum trapanicum (Petter 1931) McGenity and Grant 1996

	Synonym	Halobacterium trapanicum
	Synonym	"Bacterium* trapanicum"*

Information on morphological and physiological properties Morphology

[Ref.: #123576]	Gram stain	negative

[Ref.: #123576]	Cell shape	rod-shaped

[Ref.: #123576]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #4673]

Culture medium

HALOBACTERIA MEDIUM (DSMZ Medium 372)

[Ref.: #4673]

Culture medium growth

[Ref.: #4673]

Culture medium link

Medium recipe at MediaDive

[Ref.: #4673]

Culture medium composition

expand / minimize

[Ref.: #39355]

Culture medium

MEDIUM 232 - for Halorubrum saccharovorum, Halorubrum distributum

[Ref.: #39355]

Culture medium growth

[Ref.: #39355]

Culture medium composition

expand / minimize

[Ref.: #123576]

Culture medium

CIP Medium 232

[Ref.: #123576]

Culture medium growth

[Ref.: #123576]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #123576]

Culture medium

CIP Medium 204

[Ref.: #123576]

Culture medium growth

[Ref.: #123576]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #4673]		growth	37 °C
[Ref.: #39355]		growth	37 °C
[Ref.: #67770]		growth	37 °C
[Ref.: #123576]		growth	37-45 °C
[Ref.: #123576]	no	growth	5 °C
[Ref.: #123576]	no	growth	15 °C
[Ref.: #123576]	no	growth	25 °C
[Ref.: #123576]	no	growth	30 °C

[Ref.: #4673]	Temperature range	mesophilic
[Ref.: #39355]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #123576]	Temperature range	psychrophilic
[Ref.: #123576]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]	amygdalin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	arbutin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	cellobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fructose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-galactose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-glucose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-lyxose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-sorbitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-tagatose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	esculin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	gentiobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycogen ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #123576]	hippurate ChEBI	-	hydrolysis
[Ref.: #68371]	inulin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-rhamnose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	lactose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	maltose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	melibiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-mannoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	myo-inositol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	N-acetylglucosamine ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #123576]	nitrate ChEBI	-	reduction
[Ref.: #123576]	nitrite ChEBI	-	reduction
[Ref.: #68371]	Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 5-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	raffinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	ribitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	salicin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	sucrose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	trehalose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	turanose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	xylitol ChEBI	-	builds acid from	* from API 50CH acid
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #123576]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	yes	no

	Metabolite production	Metabolite	Production
[Ref.: #123576]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #123576]		acetoin ChEBI	-
[Ref.: #123576]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #123576]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #123576]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #123576]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #123576]	gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #123576]	gelatinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #123576]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123576]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #123576]	oxidase	+
[Ref.: #123576]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #123576]	tryptophan deaminase	-
[Ref.: #123576]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 50CH acid:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	ControlQ	Acid from glycerolGLY	Acid from erythritolERY	Acid from D-arabinoseDARA	Acid from L-arabinoseLARA	Acid from D-riboseRIB	Acid from D-xyloseDXYL	Acid from L-xyloseLXYL	Acid from D-adonitolADO	Acid from methyl beta-D-xylopyranosideMDX	Acid from D-galactoseGAL	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from D-mannoseMNE	Acid from L-sorboseSBE	Acid from L-rhamnoseRHA	Acid from dulcitolDUL	Acid from inositolINO	Acid from D-mannitolMAN	Acid from D-sorbitolSOR	Acid from methyl alpha-D-mannopyranosideMDM	Acid from methyl alpha-D-glucopyranosideMDG	Acid from N-acetyl-glucosamineNAG	Acid from amygdalinAMY	Acid from arbutinARB	Acid from esculinESC	Acid from salicinSAL	Acid from cellobioseCEL	Acid from maltoseMAL	Acid from lactoseLAC	Acid from melibioseMEL	Acid from sucroseSAC	Acid from trehaloseTRE	Acid from inulinINU	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from starchAMD	Acid from glycogenGLYG	Acid from xylitolXLT	Acid from gentiobioseGEN	Acid from turanoseTUR	Acid from D-lyxoseLYX	Acid from D-tagatoseTAG	Acid from D-fucoseDFUC	Acid from L-fucoseLFUC	Acid from D-arabitolDARL	Acid from L-arabitolLARL	Acid from gluconateGNT	Acid from 2-Ketogluconate2KG	Acid from 5-Ketogluconate5KG
[Ref.: #123576]	10242	not determinedn.d.	+/-	-	-	-	+/-	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	+	-	+	+	-	-	+	-	-	-	+	-	-	-	+/-	+	-	-	+	-	-	-	-	-	-	+/-	-	-

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #123576]	9010	-	+	+	+	-	+	-	-	+	+	-	+	-	-	-	-	-	-	-	-

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

[Ref.: #4673]	Sample type/isolated from	Solar salt
[Ref.: #4673]	Geographic location (country and/or sea, region)	Sicily, Trapani
[Ref.: #4673]	Country	Italy
[Ref.: #4673]	Country ISO 3 Code	ITA
[Ref.: #4673]	Continent	Europe

[Ref.: #123576]	Sample type/isolated from	Solar salt
[Ref.: #123576]	Geographic location (country and/or sea, region)	Trapani, Sicily
[Ref.: #123576]	Country	Italy
[Ref.: #123576]	Country ISO 3 Code	ITA
[Ref.: #123576]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Condition

#Saline

What are isolation sources categories?

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

[Ref.: #4673]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123576]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

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

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #4673]	Halorubrum trapanicum gene for 16S ribosomal RNA, partial sequence, strain: JCM 10477	AB477979	1430	ENA	29284 tax ID
[Ref.: #4673]	H.trapanicum 16S rRNA gene	X82168	1460	ENA	29284 tax ID
[Ref.: #4673]	Halorubrum trapanicum gene for 16S rRNA, complete sequence, strain: JCM 10477	AB663424	1470	ENA	29284 tax ID
[Ref.: #20218]	Halorubrum trapanicum DNA for 16S rRNA	D63786	1472	ENA	228414 tax ID	*
[Ref.: #20218]	Halococcus sp. JCM 8979 16S-23S ribosomal RNA intergenic spacer, partial sequence	EU984229	257	ENA	228414 tax ID	*
[Ref.: #20218]	Halorubrum trapanicum gene for 16S rRNA, strain: NCMB 767	D14125	1472	ENA	29284 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halorubrum trapanicum DSM 12287	GCA_017873555	contig	GenBank	29284 tax ID	*
[Ref.: #66792]	Halorubrum trapanicum DSM 12287	2913354236	draft	JGI IMG/M	29284 tax ID	*

Availability in culture collections External links

[Ref.: #4673]

Culture collection no.

DSM 12287, CIP 105807, JCM 10477, NCIMB 13488, NRC 34021, CGMCC 1.4297

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halorubrum salinarum sp. nov., an extremely halophilic archaeon isolated from a saturated brine pond of a saltern.	Han HL, Danganan RE, Li Z, Shin NR, Bennett RM, Dedeles GR, Kim SG	Int J Syst Evol Microbiol	10.1099/ijsem.0.005231	2022	*
Phylogeny	Halorubrum californiense sp. nov., an extreme archaeal halophile isolated from a crystallizer pond at a solar salt plant in California, USA.	Pesenti PT, Sikaroodi M, Gillevet PM, Sanchez-Porro C, Ventosa A, Litchfield CD	Int J Syst Evol Microbiol	10.1099/ijs.0.2008/002410-0	2008	*
Phylogeny	Strain NCIMB 13488 may serve as the type strain of Halorubrum trapanicum. Opinion 74.	Judicial Commission Of The International Committee On Systematics Of Prokaryotes	Int J Syst Evol Microbiol	10.1099/ijs.0.02497-0	2003	*

References

#4673

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12287

#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 )

#39355 ; 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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68371

Automatically annotated from API 50CH acid .

#68382

Automatically annotated from API zym .

#123576 Collection of Institut Pasteur ; Curators of the CIP; CIP 105807
* These data were automatically processed and therefore are not curated

Change proposal

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