Name: Microbacterium aquimaris JS54-2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 7439

Type strain:

Species: Microbacterium aquimaris

Strain Designation: JS54-2

Culture col. no.: DSM 19713, CIP 110688, KCTC 19124, JCM 15625

Strain history: CIP <- 2013, DSMZ <- J.S. Lee, Korea: strain JS54-2

NCBI tax ID(s): 459816 (species)

SI-ID 399256

DSM 19713, CIP 110688

Special Collections

Section

Microbacterium aquimaris JS54-2 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from seawater.

Gram-positive
rod-shaped
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Microbacteriaceae*
	Genus	*Microbacterium*
	Species	**Microbacterium aquimaris**
	Full Scientific Name (LPSN)	Microbacterium aquimaris Kim et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32605]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #116460]	Gram stain	positive

[Ref.: #32605]	Cell length	1.25 µm

[Ref.: #32605]	Cell width	0.7 µm

[Ref.: #32605]	Cell shape	rod-shaped
[Ref.: #116460]	Cell shape	rod-shaped

[Ref.: #32605]	Motility	no
[Ref.: #116460]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %95

[Ref.: #19786]	Colony color	Rapeseed yellow (1021)
[Ref.: #19786]	Incubation period	10-14 days
[Ref.: #19786]	Cultivation medium used	ISP 3

[Ref.: #19786]	Incubation period	10-14 days
[Ref.: #19786]	Cultivation medium used	ISP 4

[Ref.: #19786]	Incubation period	10-14 days
[Ref.: #19786]	Cultivation medium used	ISP 5

[Ref.: #19786]	Incubation period	10-14 days
[Ref.: #19786]	Cultivation medium used	ISP 6

[Ref.: #19786]	Incubation period	10-14 days
[Ref.: #19786]	Cultivation medium used	ISP 7

[Ref.: #32605]

Pigment production

yes

[Ref.: #19786]	Multicellular complex forming ability	no
[Ref.: #19786]	Medium Name (multicellularity)	ISP 3

[Ref.: #19786]	Multicellular complex forming ability	no
[Ref.: #19786]	Medium Name (multicellularity)	ISP 4

[Ref.: #19786]	Multicellular complex forming ability	no
[Ref.: #19786]	Medium Name (multicellularity)	ISP 5

[Ref.: #19786]	Multicellular complex forming ability	no
[Ref.: #19786]	Medium Name (multicellularity)	ISP 6

[Ref.: #19786]	Multicellular complex forming ability	no
[Ref.: #19786]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8042]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #8042]

Culture medium growth

[Ref.: #8042]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8042]

Culture medium composition

expand / minimize

[Ref.: #19786]

Culture medium

ISP 3

[Ref.: #19786]

Culture medium growth

[Ref.: #19786]

Culture medium composition

expand / minimize

[Ref.: #19786]

Culture medium

ISP 4

[Ref.: #19786]

Culture medium growth

[Ref.: #19786]

Culture medium composition

expand / minimize

[Ref.: #19786]

Culture medium

ISP 5

[Ref.: #19786]

Culture medium growth

[Ref.: #19786]

Culture medium composition

expand / minimize

[Ref.: #19786]

Culture medium

ISP 6

[Ref.: #19786]

Culture medium growth

[Ref.: #19786]

Culture medium composition

expand / minimize

[Ref.: #19786]

Culture medium

ISP 7

[Ref.: #19786]

Culture medium growth

[Ref.: #19786]

Culture medium composition

expand / minimize

[Ref.: #33591]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #33591]

Culture medium growth

[Ref.: #33591]

Culture medium composition

expand / minimize

[Ref.: #116460]

Culture medium

CIP Medium 566

[Ref.: #116460]

Culture medium growth

[Ref.: #116460]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #8042]	growth	28 °C
[Ref.: #19786]	optimum	28 °C
[Ref.: #32605]	growth	15-37 °C
[Ref.: #32605]	optimum	27.5 °C
[Ref.: #33591]	growth	30 °C
[Ref.: #67770]	growth	28 °C
[Ref.: #67771]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #32605]			optimum	7.5
[Ref.: #32605]			growth	06-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #67771]

Oxygen tolerance

aerobe

[Ref.: #32605]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %94

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32605]		NaCl		growth	10	%

[Ref.: #8042]	Murein short key	B06
[Ref.: #8042]	Murein types	B2ß {Gly} [L-Hsr] D-Glu(Hyg)-Gly-D-Orn

[Ref.: #67770]

Observation

quinones: MK-11, MK-12, MK-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32605]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #68379]	D-glucose ChEBI	+	fermentation	* from API Coryne
[Ref.: #68379]	D-mannitol ChEBI	+	fermentation	* from API Coryne
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #32605]	esculin ChEBI	+	hydrolysis
[Ref.: #68379]	esculin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #68379]	gelatin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	nitrate ChEBI	+	reduction	* from API Coryne
[Ref.: #68379]	sucrose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	urea ChEBI	-	hydrolysis	* from API Coryne
	Only first 10 entries are displayed. Click here to see all.

	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, API Coryne
[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, API Coryne
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68379]	beta-galactosidase	+	3.2.1.23	* from API Coryne
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym, API Coryne
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym, API Coryne
[Ref.: #32605]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #32605]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68379]	gelatinase	-		* from API Coryne
[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, API Coryne
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68379]	pyrazinamidase	+	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	+	3.4.19.3	* from API Coryne
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68379]	urease	-	3.5.1.5	* from API Coryne
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® Coryne:

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

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #19786]	323	+	+	+	-	-	+	+	+	+	-	-	not determinedn.d.	+	+/-	-	+	-	-	-	-	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.: #19786]	610	not determinedn.d.	-	+	+	-	+	+	-	-	-	-	+	+	-	-	+	+	+	-	+

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

[Ref.: #8042]	Sample type/isolated from	seawater
[Ref.: #8042]	Geographic location (country and/or sea, region)	Jeju
[Ref.: #8042]	Country	Republic of Korea
[Ref.: #8042]	Country ISO 3 Code	KOR
[Ref.: #8042]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Seawater
[Ref.: #67770]	Geographic location (country and/or sea, region)	Jeju
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From seawater
[Ref.: #67771]	Geographic location (country and/or sea, region)	Jeju
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia

[Ref.: #116460]	Sample type/isolated from	Environment, Seawater
[Ref.: #116460]	Geographic location (country and/or sea, region)	Jeju Island
[Ref.: #116460]	Country	Republic of Korea
[Ref.: #116460]	Country ISO 3 Code	KOR
[Ref.: #116460]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

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

[Ref.: #8042]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #19786]	Biosafety level	1	Risk group (German classification)
[Ref.: #116460]	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.: #8042]	Microbacterium aquimaris partial 16S rRNA gene, type strain JS54-2T	AM778449	1431	GenBank ENA	459816 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Microbacterium aquimaris JCM 15625	GCA_015278225	scaffold	GenBank ENA	459816 tax ID	*
[Ref.: #66792]	Microbacterium aquimaris strain JCM 15625	459816.3	wgs	PATRIC	459816 tax ID	*

[Ref.: #8042]	GC-content	69.3 mol%
[Ref.: #67770]	GC-content	69.3 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Microbacterium aquimaris JCM 15625 NCBI: GCA_015278225.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	94	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Microbacterium aquimaris JCM 15625 NCBI: GCA_015278225.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	88.132	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.607	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	83.336	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	68.862	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.429	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	95	no

Availability in culture collections External links

[Ref.: #8042]

Culture collection no.

DSM 19713, CIP 110688, KCTC 19124, JCM 15625

[Ref.: #76887]

SI-ID 399256

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of Microbacterium luteum sp. nov., Microbacterium cremeum sp. nov., and Microbacterium atlanticum sp. nov., three novel C50 carotenoid producing bacteria.	Xie F, Niu S, Lin X, Pei S, Jiang L, Tian Y, Zhang G	J Microbiol	10.1007/s12275-021-1186-5	2021	*
Phylogeny	Microbacterium aquimaris sp. nov., isolated from seawater.	Kim KK, Lee KC, Oh HM, Lee JS	Int J Syst Evol Microbiol	10.1099/ijs.0.65763-0	2008	*

References

#8042

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19713

#19786

Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#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 )

#32605

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 #28818 (see below)

#33591 ; 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;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68379

Automatically annotated from API Coryne .

#68382

Automatically annotated from API zym .

#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 )

#76887

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-ID399256.1 )

#116460 Collection of Institut Pasteur ; Curators of the CIP; CIP 110688

#28818

IJSEM 1616 2008 ( DOI 10.1099/ijs.0.65763-0 , PubMed 18599704 )

* These data were automatically processed and therefore are not curated

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Microbacterium aquimaris JCM 15625

Microbacterium aquimaris JCM 15625

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