Name: Oceanobacillus profundus CL-MP28
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 1376

Type strain:

Species: Oceanobacillus profundus

Strain Designation: CL-MP28

Culture col. no.: DSM 18246, CIP 109535, KCCM 42318, KCTC 13625

Strain history: CIP <- 2007, DSMZ <- B. C. Cho, Seoul Nat. Univ., Seoul, Korea: strain CL-MP28

NCBI tax ID(s): 372463 (species)

SI-ID 297295

DSM 18246, CIP 109535

Other strains from Oceanobacillus profundus

O. profundus CCUG 69108

Section

Oceanobacillus profundus CL-MP28 is an obligate aerobe, spore-forming, mesophilic bacterium that forms circular colonies and was isolated from surface of a sediment core sample collected at a depth of 2247 m.

colony-forming
Gram-positive
motile
rod-shaped
spore-forming
mesophilic
obligate aerobe
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	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Oceanobacillus*
	Species	**Oceanobacillus profundus**
	Full Scientific Name (LPSN)	Oceanobacillus profundus Kim et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #23010]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #121960]	Gram stain	negative
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #23010]	Cell length	0.8-2.0 µm

[Ref.: #23010]	Cell width	0.2-0.4 µm

[Ref.: #23010]	Cell shape	rod-shaped
[Ref.: #121960]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #23010]	Motility	yes
[Ref.: #121960]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.597

[Ref.: #23010]	Flagellum arrangement	peritrichous
[Ref.: #67771]	Flagellum arrangement	peritrichous

[Ref.: #23010]	Colony color	creamy white
[Ref.: #23010]	Colony shape	circular

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7455]

Culture medium

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

[Ref.: #7455]

Culture medium growth

[Ref.: #7455]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7455]

Culture medium composition

expand / minimize

[Ref.: #39799]

Culture medium

Marine agar (MA)

[Ref.: #39799]

Culture medium growth

[Ref.: #39799]

Culture medium composition

expand / minimize

[Ref.: #121960]

Culture medium

CIP Medium 13

[Ref.: #121960]

Culture medium growth

[Ref.: #121960]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #7455]	growth	30 °C
[Ref.: #23010]	growth	15.0-42.0 °C
[Ref.: #23010]	optimum	35.0 °C
[Ref.: #39799]	growth	30 °C
[Ref.: #67771]	growth	35 °C

[Ref.: #7455]	Temperature range	mesophilic
[Ref.: #23010]	Temperature range	mesophilic
[Ref.: #39799]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #23010]			optimum	7.5-8.5
[Ref.: #23010]			growth	6.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #23010]	Oxygen tolerance	obligate aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #23010]	Spore description	ellipsoidal,terminal,in swollen sporangia
[Ref.: #23010]	Type of spore	endospore
[Ref.: #23010]	Ability of spore formation	yes
[Ref.: #67771]	Type of spore	spore
[Ref.: #67771]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

[Ref.: #23010]

Halophily / tolerance level

halotolerant

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #23010]		NaCl		growth	0.0-14.0	%(w/v)
[Ref.: #23010]		NaCl		optimum	1.0-3.0	%

[Ref.: #67771]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23010]	5-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #23010]	amygdalin ChEBI	+	builds acid from
[Ref.: #23010]	casein	+	hydrolysis
[Ref.: #23010]	D-arabinose ChEBI	-	builds acid from
[Ref.: #23010]	D-fructose ChEBI	+	builds acid from
[Ref.: #23010]	D-glucose ChEBI	+	builds acid from
[Ref.: #23010]	D-mannose ChEBI	+	builds acid from
[Ref.: #23010]	D-trehalose ChEBI	+	builds acid from
[Ref.: #23010]	D-xylose ChEBI	+	builds acid from
[Ref.: #23010]	esculin ChEBI	+	hydrolysis
[Ref.: #23010]	galactose ChEBI	-	builds acid from
[Ref.: #23010]	gelatin ChEBI	+	hydrolysis
[Ref.: #23010]	glycerol ChEBI	+	builds acid from
[Ref.: #23010]	glycogen ChEBI	-	builds acid from
[Ref.: #23010]	L-fucose ChEBI	-	builds acid from
[Ref.: #23010]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #23010]	lactose ChEBI	+	builds acid from
[Ref.: #23010]	maltose ChEBI	+	builds acid from
[Ref.: #23010]	mannitol ChEBI	+	builds acid from
[Ref.: #23010]	melibiose ChEBI	-	builds acid from
[Ref.: #23010]	myo-inositol ChEBI	-	builds acid from
[Ref.: #23010]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #23010]	nitrate ChEBI	+	reduction
[Ref.: #121960]	nitrate ChEBI	+	reduction
[Ref.: #121960]	nitrite ChEBI	-	reduction
[Ref.: #23010]	turanose ChEBI	+	builds acid from
[Ref.: #23010]	tween 40 ChEBI	+	hydrolysis
[Ref.: #23010]	tween 60 ChEBI	+	hydrolysis
[Ref.: #23010]	tween 80 ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #23010]		indole ChEBI	no
[Ref.: #121960]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[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.: #23010]	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.: #23010]	catalase	+	1.11.1.6
[Ref.: #121960]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #23010]	cytochrome oxidase	+	1.9.3.1
[Ref.: #23010]	DNase	+
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #121960]	oxidase	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #23010]	urease	-	3.5.1.5
[Ref.: #121960]	urease	+	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #121960]	11937	-	+	+	+	-	+	-	+	-	+	+	+	-	-	+	-	+	-	-	-

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

[Ref.: #23010]	Sample type/isolated from	surface of a sediment core sample collected at a depth of 2247 m
[Ref.: #23010]	Geographic location (country and/or sea, region)	Ulleung Basin of the East Sea
[Ref.: #23010]	Country	Republic of Korea
[Ref.: #23010]	Country ISO 3 Code	KOR
[Ref.: #23010]	Continent	Asia
[Ref.: #23010]	Enrichment culture	marine agar 2216 (Difco)
[Ref.: #23010]	Enrichment culture duration	14 days
[Ref.: #23010]	Enrichment culture temperature	20.0 ̊C

[Ref.: #7455]	Sample type/isolated from	surface sediment
[Ref.: #7455]	Geographic location (country and/or sea, region)	East Sea
[Ref.: #7455]	Country	Republic of Korea
[Ref.: #7455]	Country ISO 3 Code	KOR
[Ref.: #7455]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From surface sediment
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia

[Ref.: #121960]	Sample type/isolated from	Environment, Sediment core sample collected at a depth of 2247 m
[Ref.: #121960]	Geographic location (country and/or sea, region)	The Ulleung Basin of the East Sea
[Ref.: #121960]	Country	Republic of Korea
[Ref.: #121960]	Country ISO 3 Code	KOR
[Ref.: #121960]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Core sample
#Environmental	#Terrestrial	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HQ595230 (>99% sequence identity) for Oceanobacillus from Microbeatlas

Aquatic Samples	114
Soil Samples	176
Animal Samples	150
Plant Samples	37
Total Samples	477

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

[Ref.: #7455]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #121960]	Biosafety level	1	Risk group (French classification)

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.: #7455]	Oceanobacillus profundus strain CL-MP28 16S ribosomal RNA gene, partial sequence	DQ386635	1354	ENA	372463 tax ID
[Ref.: #20218]	Oceanobacillus profundus strain CIP 109535 16S ribosomal RNA gene, partial sequence	HQ595230	1484	ENA	372463 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Oceanobacillus profundus DSM 18246	GCA_003515705	contig	GenBank	372463 tax ID	*
[Ref.: #66792]	Oceanobacillus profundus CL-MP28	GCA_008087205	contig	GenBank	372463 tax ID	*
[Ref.: #66792]	Oceanobacillus profundus strain DSM 18246	372463.3	wgs	PATRIC	372463 tax ID	*
[Ref.: #66792]	Oceanobacillus profundus DSM 18246	2834368228	draft	JGI IMG/M	372463 tax ID	*

[Ref.: #7455]	GC-content	40.2 mol%
[Ref.: #23010]	GC-content	40.2 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: Oceanobacillus profundus strain DSM 18246 PATRIC: 372463.3
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Oceanobacillus profundus strain DSM 18246 PATRIC: 372463.3
[Ref.: #69480]	gram-positive	yes	90.615	yes
[Ref.: #69480]	anaerobic	no	98.824	yes
[Ref.: #69480]	halophile	yes	81.26	no
[Ref.: #69480]	spore-forming	yes	95.126	no
[Ref.: #69480]	glucose-util	yes	87.701	no
[Ref.: #69480]	aerobic	yes	88.071	yes
[Ref.: #69480]	motile	yes	90.293	yes
[Ref.: #69480]	flagellated	yes	88.227	yes
[Ref.: #69480]	thermophile	no	99.426	no
[Ref.: #69480]	glucose-ferment	no	82.003	no

Availability in culture collections External links

[Ref.: #7455]

Culture collection no.

DSM 18246, CIP 109535, KCCM 42318, KCTC 13625

[Ref.: #71027]

SI-ID 297295

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Two novel species of the family Bacillaceae: Oceanobacillus piezotolerans sp. nov. and Bacillus piezotolerans sp. nov., from deep-sea sediment samples of Yap Trench.	Yu L, Tang X, Wei S, Qiu Y, Xu X, Xu G, Wang Q, Yang Q	Int J Syst Evol Microbiol	10.1099/ijsem.0.003559	2019	*
Phylogeny	Oceanobacillus longus sp. nov., a moderately halophilic bacterium isolated from a salt lake.	Amoozegar MA, Bagheri M, Makhdoumi A, Mehrshad M, Didari M, Schumann P, Sproer C, Sanchez-Porro C, Ventosa A	Int J Syst Evol Microbiol	10.1099/ijsem.0.001339	2016	*
Phylogeny	Oceanobacillus halophilus sp. nov., a novel moderately halophilic bacterium from a hypersaline lake.	Amoozegar MA, Bagheri M, Makhdoumi A, Nikou MM, Fazeli SAS, Schumann P, Sproer C, Sanchez-Porro C, Ventosa A	Int J Syst Evol Microbiol	10.1099/ijsem.0.000952	2016	*
Phylogeny	Oceanobacillus pacificus sp. nov., isolated from a deep-sea sediment.	Yu C, Yu S, Zhang Z, Li Z, Zhang XH	Int J Syst Evol Microbiol	10.1099/ijs.0.056481-0	2014	*
Phylogeny	Oceanobacillus limi sp. nov., a moderately halophilic bacterium from a salt lake.	Amoozegar MA, Bagheri M, Makhdoumi-Kakhki A, Didari M, Schumann P, Sproer C, Sanchez-Porro C, Ventosa A	Int J Syst Evol Microbiol	10.1099/ijs.0.057265-0	2014	*
Phylogeny	Oceanobacillus chungangensis sp. nov., isolated from a sand dune.	Lee DC, Kang H, Weerawongwiwat V, Kim B, Choi YW, Kim W	Int J Syst Evol Microbiol	10.1099/ijs.0.046441-0	2013	*
Phylogeny	Oceanobacillus polygoni sp. nov., a facultatively alkaliphile isolated from indigo fermentation fluid.	Hirota K, Hanaoka Y, Nodasaka Y, Yumoto I	Int J Syst Evol Microbiol	10.1099/ijs.0.048595-0	2013	*
Phylogeny	Oceanobacillus profundus sp. nov., isolated from a deep-sea sediment core.	Kim YG, Choi DH, Hyun S, Cho BC	Int J Syst Evol Microbiol	10.1099/ijs.0.64375-0	2007	*

References

#7455

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18246

#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 )

#23010

Yoon-Gon Kim,Dong Han Choi,Sangmin Hyun,Byung Cheol Cho: Oceanobacillus profundus sp. nov., isolated from a deep-sea sediment core. IJSEM 57: 409 - 413 2007 ( DOI 10.1099/ijs.0.64375-0 , PubMed 17267988 )

#39799 ; 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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68382

Automatically annotated from API zym .

#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 )

#71027

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-ID297295.1 )

#121960 Collection of Institut Pasteur ; Curators of the CIP; CIP 109535
* These data were automatically processed and therefore are not curated

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Oceanobacillus profundus strain DSM 18246

Oceanobacillus profundus strain DSM 18246

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