Name: Litoreibacter halocynthiae P-MA1-7
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 130644

Type strain:

Species: Litoreibacter halocynthiae

Strain Designation: P-MA1-7

Culture col. no.: DSM 29467, CCUG 63416, KCTC 32213

Strain history: <- KCTC 32213 <- J.-H. Yoon, KRIBB; P-MA1-7

NCBI tax ID(s): 1242689 (species)

SI-ID 399466

DSM 29467, CCUG 63416

Section

Litoreibacter halocynthiae P-MA1-7 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea squirt Halocynthia roretzi.

coccus-shaped
Gram-negative
aerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Rhodobacterales*
	Family	*Roseobacteraceae*
	Genus	*Litoreibacter*
	Species	**Litoreibacter halocynthiae**
	Full Scientific Name (LPSN)	Litoreibacter halocynthiae Kim et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30920]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.99

[Ref.: #30920]	Cell length	1.3 µm

[Ref.: #30920]	Cell width	0.6 µm

[Ref.: #30920]	Cell shape	coccus-shaped

[Ref.: #30920]	Motility	no

[Ref.: #22080]	Incubation period	1-2 days

[Ref.: #62979]	Incubation period	2 days

[Ref.: #30920]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22080]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #22080]

Culture medium growth

[Ref.: #22080]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22080]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #22080]	growth	25 °C
[Ref.: #30920]	growth	04-30 °C
[Ref.: #30920]	optimum	25 °C
[Ref.: #62979]	growth	30 °C

[Ref.: #22080]	Temperature range	mesophilic
[Ref.: #30920]	Temperature range	mesophilic
[Ref.: #62979]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30920]			optimum	7.5
[Ref.: #30920]			growth	5.5-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #62979]

Oxygen tolerance

aerobe

[Ref.: #30920]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.992

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30920]		NaCl		growth	1.5-7.0	%
[Ref.: #30920]		NaCl		optimum	2.5	%

[Ref.: #30920]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30920]	esculin ChEBI	+	hydrolysis
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #30920]	galactose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #30920]	mannitol ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #30920]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #30920]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #22080]	catalase	+	1.11.1.6
[Ref.: #30920]	catalase	+	1.11.1.6
[Ref.: #30920]	cytochrome oxidase	+	1.9.3.1
[Ref.: #22080]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #30920]	gelatinase	+
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #22080]	24054	+	-	-	-	-	+	-	+	-	-	-	+/-	-	-	-	-	-	-	-	-	not determinedn.d.

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

[Ref.: #22080]	Sample type/isolated from	sea squirt Halocynthia roretzi
[Ref.: #22080]	Host species	Halocynthia roretzi
[Ref.: #22080]	Geographic location (country and/or sea, region)	South Sea
[Ref.: #22080]	Country	Republic of Korea
[Ref.: #22080]	Country ISO 3 Code	KOR
[Ref.: #22080]	Continent	Asia

[Ref.: #62979]	Sample type/isolated from	Sea squirt (Halocynthia roretzi)
[Ref.: #62979]	Sampling date	2010
[Ref.: #62979]	Geographic location (country and/or sea, region)	South Sea
[Ref.: #62979]	Country	Republic of Korea
[Ref.: #62979]	Country ISO 3 Code	KOR
[Ref.: #62979]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host

#Invertebrates (Other)

#Tunicata

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JX644172 (>99% sequence identity) for Litoreibacter from Microbeatlas

Aquatic Samples	9
Soil Samples
Animal Samples	1
Plant Samples
Total Samples	10

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

[Ref.: #22080]

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.: #22080]	Litoreibacter halocynthiae strain P-MA1-7 16S ribosomal RNA gene, partial sequence	JX644172	1420	ENA	1242689 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Litoreibacter halocynthiae DSM 29467	GCA_004365635	contig	GenBank	1242689 tax ID	*
[Ref.: #66792]	Litoreibacter halocynthiae strain DSM 29467	1242689.3	wgs	PATRIC	1242689 tax ID	*
[Ref.: #66792]	Litoreibacter halocynthiae DSM 29467	2681812955	draft	JGI IMG/M	1242689 tax ID	*

[Ref.: #30920]	GC-content	58.3 mol%
[Ref.: #22080]	GC-content	58.3 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Litoreibacter halocynthiae strain DSM 29467 PATRIC: 1242689.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Litoreibacter halocynthiae strain DSM 29467 PATRIC: 1242689.3
[Ref.: #69480]	motile	no	62.765	yes
[Ref.: #69480]	gram-positive	no	98.456	yes
[Ref.: #69480]	anaerobic	no	98.204	no
[Ref.: #69480]	aerobic	yes	90.571	yes
[Ref.: #69480]	halophile	yes	77.77	no
[Ref.: #69480]	spore-forming	no	96.492	yes
[Ref.: #69480]	glucose-util	yes	52.007	yes
[Ref.: #69480]	flagellated	no	85.534	yes
[Ref.: #69480]	thermophile	no	92.661	no
[Ref.: #69480]	glucose-ferment	no	91.047	no

Availability in culture collections External links

[Ref.: #22080]

Culture collection no.

DSM 29467, CCUG 63416, KCTC 32213

[Ref.: #89155]

SI-ID 399466

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Litoreibacter halocynthiae sp. nov., isolated from the sea squirt Halocynthia roretzi.	Kim YO, Park S, Nam BH, Jung YT, Kim DG, Lee JS, Lee SJ, Yoon JH	Int J Syst Evol Microbiol	10.1099/ijs.0.047530-0	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 )

#22080

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29467

#30920

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 #27250 (see below)

#62979 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 63416

#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) .

#68369

Automatically annotated from API 20NE .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#89155

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-ID399466.1 )

#27250

IJSEM 3364 2013 ( DOI 10.1099/ijs.0.047530-0 , PubMed 23524350 )

* These data were automatically processed and therefore are not curated

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Litoreibacter halocynthiae strain DSM 29467

Litoreibacter halocynthiae strain DSM 29467

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