Name: Marinobacterium profundum KCCM 43095
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140895

Type strain:

Species: Marinobacterium profundum

Culture col. no.: KCCM 43095, JCM 30410, PAMC 27536

Strain history: C. Y. Hwang; KOPRI, South Korea; PAMC 27536.

NCBI tax ID(s): 1714300 (species)

Section

Marinobacterium profundum KCCM 43095 is an obligate aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from Deep-sea sediment in the East Sea.

colony-forming
Gram-negative
motile
rod-shaped
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Alteromonadales*
	Family	*Alteromonadaceae*
	Genus	*Marinobacterium*
	Species	**Marinobacterium profundum**
	Full Scientific Name (LPSN)	Marinobacterium profundum Hwang et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43728]	Gram stain	negative

[Ref.: #43728]	Cell length	1.9-2.4 µm

[Ref.: #43728]	Cell width	0.7-1 µm

[Ref.: #43728]	Cell shape	rod-shaped

[Ref.: #43728]	Motility	yes

[Ref.: #43728]	Colony size	0.5 mm
[Ref.: #43728]	Colony color	Creamy white
[Ref.: #43728]	Colony shape	circular
[Ref.: #43728]	Incubation period	7 days
[Ref.: #43728]	Cultivation medium used	MA agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43728]

Culture medium

Marine agar (MA)

[Ref.: #43728]

Culture medium growth

		Temperature
[Ref.: #43728]	growth	4-32 °C
[Ref.: #43728]	optimum	25-30 °C
[Ref.: #67770]	growth	25 °C

[Ref.: #43728]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43728]			optimum	7-7.5
[Ref.: #43728]			growth	6-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43728]

Oxygen tolerance

obligate aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43728]		NaCl		growth	1-4	%(w/v)
[Ref.: #43728]		NaCl		optimum	3	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43728]	acetate ChEBI	-	carbon source
[Ref.: #43728]	acetate ChEBI	-	energy source
[Ref.: #43728]	amygdalin ChEBI	-	builds acid from
[Ref.: #43728]	arabinitol ChEBI	-	builds acid from
[Ref.: #43728]	arbutin ChEBI	-	builds acid from
[Ref.: #43728]	casein	-	hydrolysis
[Ref.: #43728]	cellobiose ChEBI	-	builds acid from
[Ref.: #43728]	cellobiose ChEBI	-	carbon source
[Ref.: #43728]	cellobiose ChEBI	-	energy source
[Ref.: #43728]	citrate ChEBI	-	carbon source
[Ref.: #43728]	citrate ChEBI	-	energy source
[Ref.: #43728]	D-arabinose ChEBI	-	builds acid from
[Ref.: #43728]	D-fructose ChEBI	-	carbon source
[Ref.: #43728]	D-fructose ChEBI	-	energy source
[Ref.: #43728]	D-fructose ChEBI	+	builds acid from
[Ref.: #43728]	D-galactose ChEBI	-	builds acid from
[Ref.: #43728]	D-galactose ChEBI	-	carbon source
[Ref.: #43728]	D-galactose ChEBI	-	energy source
[Ref.: #43728]	D-glucose ChEBI	-	builds acid from
[Ref.: #43728]	D-glucose ChEBI	-	carbon source
[Ref.: #43728]	D-glucose ChEBI	-	energy source
[Ref.: #43728]	D-lyxose ChEBI	-	builds acid from
[Ref.: #43728]	D-mannitol ChEBI	-	builds acid from
[Ref.: #43728]	D-mannitol ChEBI	-	carbon source
[Ref.: #43728]	D-mannitol ChEBI	-	energy source
[Ref.: #43728]	D-mannose ChEBI	-	builds acid from
[Ref.: #43728]	D-mannose ChEBI	-	carbon source
[Ref.: #43728]	D-mannose ChEBI	-	energy source
[Ref.: #43728]	D-ribose ChEBI	-	builds acid from
[Ref.: #43728]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #43728]	D-tagatose ChEBI	-	builds acid from
[Ref.: #43728]	erythritol ChEBI	-	builds acid from
[Ref.: #43728]	esculin ChEBI	-	hydrolysis
[Ref.: #43728]	esculin ferric citrate	-	builds acid from
[Ref.: #43728]	formate ChEBI	-	carbon source
[Ref.: #43728]	formate ChEBI	-	energy source
[Ref.: #43728]	fucose ChEBI	+	builds acid from
[Ref.: #43728]	galactitol ChEBI	-	builds acid from
[Ref.: #43728]	gelatin ChEBI	-	hydrolysis
[Ref.: #43728]	gentiobiose ChEBI	-	builds acid from
[Ref.: #43728]	glucose ChEBI	-	fermentation
[Ref.: #43728]	glycerol ChEBI	-	carbon source
[Ref.: #43728]	glycerol ChEBI	-	energy source
[Ref.: #43728]	glycerol ChEBI	+	builds acid from
[Ref.: #43728]	glycogen ChEBI	-	builds acid from
[Ref.: #43728]	glycogen ChEBI	+	carbon source
[Ref.: #43728]	glycogen ChEBI	+	energy source
[Ref.: #43728]	hypoxanthine ChEBI	+	hydrolysis
[Ref.: #43728]	inulin ChEBI	-	builds acid from
[Ref.: #43728]	L-arabinose ChEBI	-	carbon source
[Ref.: #43728]	L-arabinose ChEBI	-	energy source
[Ref.: #43728]	L-arabinose ChEBI	+	builds acid from
[Ref.: #43728]	L-aspartate ChEBI	+	carbon source
[Ref.: #43728]	L-aspartate ChEBI	+	energy source
[Ref.: #43728]	L-ornithine ChEBI	+	carbon source
[Ref.: #43728]	L-ornithine ChEBI	+	energy source
[Ref.: #43728]	L-proline ChEBI	+	carbon source
[Ref.: #43728]	L-proline ChEBI	+	energy source
[Ref.: #43728]	L-rhamnose ChEBI	-	carbon source
[Ref.: #43728]	L-rhamnose ChEBI	-	energy source
[Ref.: #43728]	L-rhamnose ChEBI	+/-	builds acid from
[Ref.: #43728]	L-sorbose ChEBI	-	builds acid from
[Ref.: #43728]	L-threonine ChEBI	-	carbon source
[Ref.: #43728]	L-threonine ChEBI	-	energy source
[Ref.: #43728]	lactose ChEBI	-	builds acid from
[Ref.: #43728]	lactose ChEBI	-	carbon source
[Ref.: #43728]	lactose ChEBI	-	energy source
[Ref.: #43728]	maltose ChEBI	-	builds acid from
[Ref.: #43728]	maltose ChEBI	-	carbon source
[Ref.: #43728]	maltose ChEBI	-	energy source
[Ref.: #43728]	melezitose ChEBI	-	builds acid from
[Ref.: #43728]	melibiose ChEBI	+	carbon source
[Ref.: #43728]	melibiose ChEBI	+	energy source
[Ref.: #43728]	melibiose ChEBI	+/-	builds acid from
[Ref.: #43728]	methanol ChEBI	-	carbon source
[Ref.: #43728]	methanol ChEBI	-	energy source
[Ref.: #43728]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from
[Ref.: #43728]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #43728]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #43728]	myo-inositol ChEBI	-	builds acid from
[Ref.: #43728]	myo-inositol ChEBI	-	carbon source
[Ref.: #43728]	myo-inositol ChEBI	-	energy source
[Ref.: #43728]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #43728]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #43728]	N-acetylglucosamine ChEBI	+	energy source
[Ref.: #43728]	nitrate ChEBI	-	reduction
[Ref.: #43728]	potassium 2-dehydro-D-gluconate	+	builds acid from
[Ref.: #43728]	potassium 5-dehydro-D-gluconate	-	builds acid from
[Ref.: #43728]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #43728]	pyruvate ChEBI	+	carbon source
[Ref.: #43728]	pyruvate ChEBI	+	energy source
[Ref.: #43728]	raffinose ChEBI	-	carbon source
[Ref.: #43728]	raffinose ChEBI	-	energy source
[Ref.: #43728]	raffinose ChEBI	+	builds acid from
[Ref.: #43728]	ribitol ChEBI	-	builds acid from
[Ref.: #43728]	salicin ChEBI	-	builds acid from
[Ref.: #43728]	starch ChEBI	-	builds acid from
[Ref.: #43728]	starch ChEBI	+	hydrolysis
[Ref.: #43728]	succinate ChEBI	+	carbon source
[Ref.: #43728]	succinate ChEBI	+	energy source
[Ref.: #43728]	sucrose ChEBI	-	carbon source
[Ref.: #43728]	sucrose ChEBI	-	energy source
[Ref.: #43728]	sucrose ChEBI	+	builds acid from
[Ref.: #43728]	trehalose ChEBI	-	builds acid from
[Ref.: #43728]	trehalose ChEBI	-	carbon source
[Ref.: #43728]	trehalose ChEBI	-	energy source
[Ref.: #43728]	turanose ChEBI	-	builds acid from
[Ref.: #43728]	tween 80 ChEBI	+	hydrolysis
[Ref.: #43728]	xanthine ChEBI	-	hydrolysis
[Ref.: #43728]	xylitol ChEBI	-	builds acid from
[Ref.: #43728]	xylose ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43728]		hydrogen sulfide ChEBI	no
[Ref.: #43728]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43728]	acid phosphatase	+	3.1.3.2
[Ref.: #43728]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43728]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #43728]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43728]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43728]	alpha-glucosidase	-	3.2.1.20
[Ref.: #43728]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43728]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43728]	beta-glucosidase	-	3.2.1.21
[Ref.: #43728]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43728]	catalase	+	1.11.1.6
[Ref.: #43728]	cystine arylamidase	-	3.4.11.3
[Ref.: #43728]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43728]	esterase (C 4)	+
[Ref.: #43728]	esterase Lipase (C 8)	+/-
[Ref.: #43728]	leucine arylamidase	+	3.4.11.1
[Ref.: #43728]	lipase (C 14)	-
[Ref.: #43728]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #43728]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43728]	trypsin	-	3.4.21.4
[Ref.: #43728]	urease	-	3.5.1.5
[Ref.: #43728]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43728]

Fatty acid	Percentage
C16:1ω7c / C16:1ω6c	37.1
C15:0 iso	30.7
C17:0 iso 3OH	6.4
C16:1-10-methyl / iso-C17:1ω9c	6.2
C16:1ω5c	4.9
C16:0	2.3
C15:0 iso 3OH	1.5
C14:0 anteiso	1.5
C17:1 iso I / C17:1 anteiso B	1.4
C17:0 iso	1.1
C12:0	1.1

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

[Ref.: #43728]	Sample type/isolated from	Deep-sea sediment in the East Sea
[Ref.: #43728]	Geographic location (country and/or sea, region)	East Sea, Korea
[Ref.: #43728]	Country	Republic of Korea
[Ref.: #43728]	Country ISO 3 Code	KOR
[Ref.: #43728]	Continent	Asia
[Ref.: #43728]	Geographic location	36.5000°/130.2830°
[Ref.: #43728]	Isolation date	2013-07

[Ref.: #67770]	Sample type/isolated from	Deep-sea sediment (35.90° N 129.77° E)
[Ref.: #67770]	Geographic location	35.9000°/129.7700°
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KR047788 (>99% sequence identity) for Marinobacterium from Microbeatlas

Aquatic Samples	1066
Soil Samples	153
Animal Samples	375
Plant Samples	35
Total Samples	1629

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.: #43728]	16S rRNA gene sequence	KR047788		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Marinobacterium profundum PAMC 27536	GCA_001528745	contig	GenBank	1714300 tax ID

[Ref.: #43728]	GC-content	56.1 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67770]	GC-content	57.2 mol%	genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Marinobacterium profundum PAMC 27536 NCBI: GCA_001528745.1
[Ref.: #69480]	flagellated	yes	79.442	no
[Ref.: #69480]	gram-positive	no	98.97	yes
[Ref.: #69480]	anaerobic	no	98.466	yes
[Ref.: #69480]	aerobic	yes	90.038	yes
[Ref.: #69480]	halophile	yes	79.111	no
[Ref.: #69480]	spore-forming	no	95.082	no
[Ref.: #69480]	glucose-util	yes	89.545	yes
[Ref.: #69480]	motile	yes	89.623	yes
[Ref.: #69480]	thermophile	no	99.667	yes
[Ref.: #69480]	glucose-ferment	no	86.757	yes

Availability in culture collections External links

[Ref.: #43728]

Culture collection no.

KCCM 43095, JCM 30410, PAMC 27536

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Marinobacterium aestuarii sp. nov., a benzene-degrading marine bacterium isolated from estuary sediment.	Bae SS, Jung J, Chung D, Baek K	Int J Syst Evol Microbiol	10.1099/ijsem.0.002561	2018	*
Phylogeny	Marinobacterium profundum sp. nov., a marine bacterium from deep-sea sediment.	Yeon Hwang C, Jung Yoon S, Lee I, Baek K, Mi Lee Y, Yoo KC, Il Yoon H, Kum Lee H	Int J Syst Evol Microbiol	10.1099/ijsem.0.000918	2016	*

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 )

#43728

Chung Yeon Hwang, Soo Jung Yoon, Inae Lee, Kiwoon Baek, Yung Mi Lee, Kyu-Cheul Yoo, Ho Il Yoon, Hong Kum Lee: Marinobacterium profundum sp. nov., a marine bacterium from deep-sea sediment. IJSEM 66: 1561 - 1566 2016 ( DOI 10.1099/ijsem.0.000918 , PubMed 26813672 )

#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 .

#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) .

* These data were automatically processed and therefore are not curated

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Search for species Marinobacterium profundum in external resources:
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Marinobacterium profundum PAMC 27536

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