Marinomonas aquimarina (CIP 108405, CECT 5080, CCUG 49439)

Name: Marinomonas aquimarina (CIP 108405, CECT 5080, CCUG 49439)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 137366

Type strain

Strain Designation 11SM4

Culture col. no. CIP 108405 CECT 5080 CCUG 49439 11SM4

NCBI tax ID(s) 295068

Special Collections CCUG CIP

History CIP <- 2004, M.J. Pujalte, Burjassot, Spain: strain 11SM4 CIP <- 2004, M.J. Pujalte, Burjassot, Spain: strain 11SM4

Links

Marinomonas aquimarina 11SM4 is a Gram-negative, rod-shaped bacterium of the family Oceanospirillaceae.

Gram-negative rod-shaped genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 138988

CECT 5080,CIP 108405,LMG 25236,CCUG 49439

@ref 20215

Last LPSN update 2026-05-29 08:39:01

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Oceanospirillales

Family Oceanospirillaceae

Genus Marinomonas

Species Marinomonas aquimarina

Full scientific name Marinomonas aquimarina corrig. Macián et al. 2005

Synonyms (1)

Marinomonas aquamarina

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
37430	negative	rod-shaped
125438	negative		99.481
125439	negative		94.92

Culture and growth conditions

Culture medium

@ref	Name	Growth	Composition	Medium link
37430	Marine agar (MA)		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)
37430	CIP Medium 13			Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
37430	positive	growth	25
37430	positive	growth	15-37
37430	negative	growth	5

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	94.369

Spore formation

@ref	Spore formation	Confidence
125438		91.496
125439		99.769

Halophily

@ref	Salt	Growth	Tested relation	Concentration
37430	NaCl	positive	growth	2-10 %
37430	NaCl		growth	0 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
37430	16947 ChEBI	citrate	-	carbon source
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	+	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
37430	4853 ChEBI	esculin	-	hydrolysis
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
37430	17234 ChEBI	glucose	-	fermentation
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
37430	17716 ChEBI	lactose	-	fermentation
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
37430	17632 ChEBI	nitrate	-	reduction
37430	17632 ChEBI	nitrate	+	respiration
37430	16301 ChEBI	nitrite	-	reduction
68371	0 ChEBI	Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371	0 ChEBI	Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
37430	132112 ChEBI	sodium thiosulfate	-	builds gas from
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite	Production
37430	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
37430	15688 ChEBI	acetoin	-
37430	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
37430	alcohol dehydrogenase	-	1.1.1.1
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
37430	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
37430	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
37430	caseinase	-	3.4.21.50
37430	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
37430	gamma-glutamyltransferase	-	2.3.2.2
37430	gelatinase	+/-
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
37430	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
37430	ornithine decarboxylase	-	4.1.1.17
37430	oxidase	+
37430	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	-	3.4.21.4	from API zym
37430	tryptophan deaminase	-
37430	tween esterase	-
37430	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	formaldehyde oxidation	100	3 of 3
66794	gallate degradation	100	5 of 5
66794	gluconeogenesis	100	8 of 8
66794	teichoic acid biosynthesis	100	1 of 1
66794	ppGpp biosynthesis	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	valine metabolism	100	9 of 9
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	adipate degradation	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	L-lactaldehyde degradation	100	3 of 3
66794	biotin biosynthesis	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	vitamin B1 metabolism	92.31	12 of 13
66794	threonine metabolism	90	9 of 10
66794	Entner Doudoroff pathway	90	9 of 10
66794	glutamate and glutamine metabolism	89.29	25 of 28
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	propanol degradation	85.71	6 of 7
66794	photosynthesis	85.71	12 of 14
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	purine metabolism	82.98	78 of 94
66794	vitamin B12 metabolism	82.35	28 of 34
66794	pentose phosphate pathway	81.82	9 of 11
66794	vitamin B6 metabolism	81.82	9 of 11
66794	lipoate biosynthesis	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	heme metabolism	78.57	11 of 14
66794	citric acid cycle	78.57	11 of 14
66794	serine metabolism	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	allantoin degradation	77.78	7 of 9
66794	lipid metabolism	77.42	24 of 31
66794	lactate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	pyrimidine metabolism	73.33	33 of 45
66794	flavin biosynthesis	73.33	11 of 15
66794	histidine metabolism	72.41	21 of 29
66794	alanine metabolism	72.41	21 of 29
66794	cysteine metabolism	72.22	13 of 18
66794	NAD metabolism	72.22	13 of 18
66794	propionate fermentation	70	7 of 10
66794	non-pathway related	68.42	26 of 38
66794	acetoin degradation	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	methane metabolism	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	arginine metabolism	66.67	16 of 24
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	tryptophan metabolism	65.79	25 of 38
66794	oxidative phosphorylation	64.84	59 of 91
66794	glutathione metabolism	64.29	9 of 14
66794	proline metabolism	63.64	7 of 11
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	leucine metabolism	61.54	8 of 13
66794	glycolysis	58.82	10 of 17
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	lysine metabolism	57.14	24 of 42
66794	tyrosine metabolism	57.14	8 of 14
66794	reductive acetyl coenzyme A pathway	57.14	4 of 7
66794	sulfate reduction	53.85	7 of 13
66794	urea cycle	53.85	7 of 13
66794	methionine metabolism	53.85	14 of 26
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	sulfopterin metabolism	50	2 of 4
66794	myo-inositol biosynthesis	50	5 of 10
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	quinate degradation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	cardiolipin biosynthesis	42.86	3 of 7
66794	phenylacetate degradation (aerobic)	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	polyamine pathway	39.13	9 of 23
66794	arachidonic acid metabolism	38.89	7 of 18
66794	metabolism of disaccharids	36.36	4 of 11
66794	ascorbate metabolism	36.36	8 of 22
66794	degradation of pentoses	35.71	10 of 28
66794	phenol degradation	35	7 of 20
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	enterobactin biosynthesis	33.33	1 of 3
66794	nitrate assimilation	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	cyanate degradation	33.33	1 of 3
66794	degradation of sugar alcohols	31.25	5 of 16
66794	androgen and estrogen metabolism	31.25	5 of 16
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	coenzyme M biosynthesis	30	3 of 10
66794	starch degradation	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	d-xylose degradation	27.27	3 of 11
66794	carotenoid biosynthesis	27.27	6 of 22
66794	alginate biosynthesis	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	degradation of sugar acids	24	6 of 25
66794	degradation of hexoses	22.22	4 of 18

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
37430	-	+	+	-	-	+	-	-	-	-	-	-	-	-	-	+	-	-	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
37430	not determinedn.d.	-	-	-	-	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
37430		Valencia	Spain	ESP	Europe
37430	Environment, Sea water	Valencia	Spain	ESP	Europe	1989

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
37430	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	MaquimarinaCECT5080_SPAdes_Prokka assembly for Marinomonas aquimarina CECT 5080	contig	GCA_900089755	295068.7	8067964978	295068	62.78

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
124043	Marinomonas aquimarina 16S rRNA gene, type strain 11SM4T	AJ843077	1535		295068

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: MaquimarinaCECT5080_SPAdes_Prokka assembly for Marinomonas aquimarina CECT 5080
BV-BRC: 295068.7

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	94.37	no
125439	motility	BacteriaNetⓘ	yes	73.29	no
125439	gram_stain	BacteriaNetⓘ	negative	94.92	no
125439	spore_formation	BacteriaNetⓘ	no	99.77	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Marinomonas aquimarina strain CECT 5080
PATRIC: 295068.7

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.48	no
125438	anaerobic	anaerobicⓘ	no	93.69	no
125438	spore-forming	spore-formingⓘ	no	91.50	no
125438	aerobic	aerobicⓘ	yes	79.91	no
125438	thermophilic	thermophileⓘ	no	97.92	yes
125438	flagellated	motile2+ⓘ	yes	86.39	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Marinomonas basaltis sp. nov., a marine bacterium isolated from black sand.	Chang HW, Roh SW, Kim KH, Nam YD, Yoon JH, Oh HM, Bae JW	Int J Syst Evol Microbiol	10.1099/ijs.0.65724-0	2008
Phylogeny	Marinomonas gallaica sp. nov. and Marinomonas atlantica sp. nov., isolated from reared clams (Ruditapes decussatus).	Lasa A, Pichon P, Dieguez AL, Romalde JL	Int J Syst Evol Microbiol	10.1099/ijsem.0.001170	2016
Phylogeny	Marinomonas aquamarina sp. nov., isolated from oysters and seawater.	Macian MC, Arahal DR, Garay E, Pujalte MJ	Syst Appl Microbiol	10.1016/j.syapm.2004.12.003	2005

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 )
#37430	Collection of Institut Pasteur ; Curators of the CIP; CIP 108405
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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 )

Content

About us

Marinomonas aquimarina (CIP 108405, CECT 5080, CCUG 49439)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API zym

API 50CHac

Isolation, sampling and environmental information

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900089755

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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