Nocardioides aequoreus (DSM 21547, CIP 109645, JCM 13812)

Name: Nocardioides aequoreus (DSM 21547, CIP 109645, JCM 13812)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11086

Type strain

Strain Designation SST-45

Culture col. no. DSM 21547 CIP 109645 JCM 13812 NRRL B-24464 SST-45

NCBI tax ID(s) 397278

Special Collections DSMZ JCM CIP Literature strains

History <- JCM <- S. D. Lee; SST-45 S. D. Lee SST-45. CIP <- 2007, JCM <- S.D. Lee, Cheju Unvi., Jeju, Korea: strain SST-45

Links

Nocardioides aequoreus SST-45 is an aerobe, Gram-positive, coccus-shaped bacterium that was isolated from sandy sediment.

Gram-positive coccus-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 309460

JCM 13812,NRRL B-24464,CIP 109645,DSM 21547

@ref 20215

Last LPSN update 2026-02-09 11:20:26

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Nocardioidaceae

Genus Nocardioides

Species Nocardioides aequoreus

Full scientific name Nocardioides aequoreus (Lee 2007) Wang et al. 2023

Synonyms (1)

Marmoricola aequoreus

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell shape	Motility
31947	positive	0.6 µm	coccus-shaped
116056	positive		coccus-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
15786	R2A MEDIUM (DSMZ Medium 830)	Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
15786	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
37803	MEDIUM 112 - for Janibacter		Distilled water make up to (1000.000 ml);Magnesium sulphate heptahydrate (1.000 g);Agar (20.000 g);Yeast extract (5.000 g);Peptone (10.000 g);Tween 80 (50.000 mg);Glycerol (2.000 g);Malt extract (5.000 g);Beef extract (2.000 g);Casamino acids (5.000 g);Ca
116056	CIP Medium 112	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
15786	positive	growth	28
31947	positive	growth	10-37
31947	positive	optimum	23.5
37803	positive	growth	30
67770	positive	growth	28

Culture pH

@ref	Ability	Type	PH	PH range
31947	positive	optimum	7.1
31947	positive	growth	5.1-12.1	alkaliphile

Physiology and metabolism

Oxygen tolerance

31947

Oxygen toleranceaerobe

Spore formation

31947

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31947	NaCl	positive	growth	0.0-7.0 %
31947	NaCl	positive	optimum	5 %

Observation

@ref	Observation
31947	aggregates in clumps
67770	quinones: MK-8(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31947	30089 ChEBI	acetate	+	carbon source
31947	17057 ChEBI	cellobiose	+	carbon source
31947	16947 ChEBI	citrate	+	carbon source
31947	4853 ChEBI	esculin	+	hydrolysis
31947	28757 ChEBI	fructose	+	carbon source
31947	28260 ChEBI	galactose	+	carbon source
31947	17234 ChEBI	glucose	+	carbon source
31947	17754 ChEBI	glycerol	+	carbon source
31947	17716 ChEBI	lactose	+	carbon source
31947	25115 ChEBI	malate	+	carbon source
31947	17306 ChEBI	maltose	+	carbon source
31947	29864 ChEBI	mannitol	+	carbon source
31947	37684 ChEBI	mannose	+	carbon source
31947	37657 ChEBI	methyl D-glucoside	+	carbon source
31947	17632 ChEBI	nitrate	+	reduction
116056	17632 ChEBI	nitrate	+	reduction
116056	16301 ChEBI	nitrite	-	reduction
31947	33942 ChEBI	ribose	+	carbon source
31947	17814 ChEBI	salicin	+	carbon source
31947	30911 ChEBI	sorbitol	+	carbon source
31947	30031 ChEBI	succinate	+	carbon source
31947	17992 ChEBI	sucrose	+	carbon source
31947	27082 ChEBI	trehalose	+	carbon source
31947	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
31947	16136 ChEBI	hydrogen sulfide
116056	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
31947	alkaline phosphatase	+	3.1.3.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
116056	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
31947	gelatinase	+
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
116056	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
116056	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
116056	-	+	+	+	-	+	-	-	-	-	-	-	-	+	-	+	+	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Sandy
#Environmental	#Terrestrial	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
15786	sandy sediment	Jeju Island, Samyang beach	Republic of Korea	KOR	Asia
67770	Sandy sediment of Samyang Beach	Jeju Island	Republic of Korea	KOR	Asia
116056	Environment, Sandy sediment	Samyang beach, Jeju Island	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence AM295338 (>99% sequence identity) for Marmoricola aequoreus from Microbeatlas

Aquatic Samples	53
Soil Samples	193
Animal Samples	393
Plant Samples	64
Total Samples	703

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
15786	1	Risk group (German classification) According to TRBA 466
116056	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM72033v1 assembly for Nocardioides aequoreus NRRL B-24464	contig	GCA_000720335	397278.5	2751185729	397278	68.43

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
15786	Marmoricola aequoreus partial 16S rRNA gene, type strain SST-45T	AM295338	1398		397278

GC content

@ref	GC-content (mol%)	Method
15786	72.4
67770	72.4	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Marmoricola aequoreus NRRL B-24464
NCBI: GCA_000720335.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	86.17	yes
125438	anaerobic	anaerobicⓘ	no	95.44	no
125438	aerobic	aerobicⓘ	yes	89.65	yes
125438	spore-forming	spore-formingⓘ	no	61.96	yes
125438	thermophilic	thermophileⓘ	no	96.49	yes
125438	flagellated	motile2+ⓘ	no	63.37	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Marmoricola aquaticus sp. nov., an actinomycete isolated from a marine sponge.	de Menezes CBA, Tonin MF, Silva LJ, de Souza WR, Parma M, de Melo IS, Zucchi TD, Destefano SAL, Fantinatti-Garboggini F	Int J Syst Evol Microbiol	10.1099/ijs.0.000254	2015
Phylogeny	Marmoricola solisilvae sp. nov. and Marmoricola terrae sp. nov., isolated from soil and emended description of the genus Marmoricola.	Kim SJ, Lim JM, Hamada M, Ahn JH, Weon HY, Suzuki KI, Ahn TY, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.000184	2015
Phylogeny	Marmoricola korecus sp. nov.	Lee SD, Lee DW, Ko YH	Int J Syst Evol Microbiol	10.1099/ijs.0.025460-0	2010
Phylogeny	Marmoricola bigeumensis sp. nov., a member of the family Nocardioidaceae.	Dastager SG, Lee JC, Ju YJ, Park DJ, Kim CJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65576-0	2008
Phylogeny	Marmoricola aequoreus sp. nov., a novel actinobacterium isolated from marine sediment.	Lee SD	Int J Syst Evol Microbiol	10.1099/ijs.0.64696-0	2007

References

#15786	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21547
#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 )
#28203	IJSEM 1391 2007 ( DOI 10.1099/ijs.0.64696-0 , PubMed 17625163 )
#31947	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 #28203
#37803	; Curators of the CIP;
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#116056	Collection of Institut Pasteur ; Curators of the CIP; CIP 109645
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Nocardioides aequoreus (DSM 21547, CIP 109645, JCM 13812)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000720335

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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