Lewinella marina (DSM 104084, NBRC 102633, NCIMB 14312)

Name: Lewinella marina (DSM 104084, NBRC 102633, NCIMB 14312)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132093

Type strain

Strain Designation MKG-38

Culture col. no. DSM 104084 NBRC 102633 NCIMB 14312 MKG-38

NCBI tax ID(s) 438751

Special Collections DSMZ Literature strains

Links

Lewinella marina MKG-38 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from marine sediment.

Gram-negative rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 406345

NBRC 102633,NCIMB 14312,DSM 104084

@ref 20215

Last LPSN update 2025-12-16 10:01:25

Domain Pseudomonadati

Phylum Bacteroidota

Class Saprospiria

Order Saprospirales

Family Lewinellaceae

Genus Lewinella

Species Lewinella marina

Full scientific name Lewinella marina Khan et al. 2007

Synonyms (1)

Neolewinella marina

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
32322	negative	0.8 µm	0.45 µm	rod-shaped
125438	negative				96.184

Pigmentation

32322

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23883	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
23883	positive	growth	28	mesophilic
32322	positive	growth	4-42
32322	positive	optimum	27.5	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
32322	positive	optimum	7.5
32322	positive	growth	05-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

32322

Oxygen toleranceaerobe

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32322	NaCl	positive	growth	01-07 %
32322	NaCl	positive	optimum	3 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68368	27613 ChEBI	amygdalin	-	fermentation	from API 20E
32322	22599 ChEBI	arabinose	+	carbon source
68368	29016 ChEBI	arginine	-	hydrolysis	from API 20E
32322	17057 ChEBI	cellobiose	+	carbon source
68368	16947 ChEBI	citrate	-	assimilation	from API 20E
68368	17634 ChEBI	D-glucose	-	fermentation	from API 20E
68368	16899 ChEBI	D-mannitol	-	fermentation	from API 20E
32322	4853 ChEBI	esculin	+	hydrolysis
32322	28757 ChEBI	fructose	+	carbon source
32322	33984 ChEBI	fucose	+	carbon source
32322	28260 ChEBI	galactose	+	carbon source
68368	5291 ChEBI	gelatin	+	hydrolysis	from API 20E
32322	17234 ChEBI	glucose	+	carbon source
68368	30849 ChEBI	L-arabinose	-	fermentation	from API 20E
68368	62345 ChEBI	L-rhamnose	-	fermentation	from API 20E
32322	17716 ChEBI	lactose	+	carbon source
68368	25094 ChEBI	lysine	-	degradation	from API 20E
32322	17306 ChEBI	maltose	+	carbon source
32322	37684 ChEBI	mannose	+	carbon source
32322	28053 ChEBI	melibiose	+	carbon source
68368	28053 ChEBI	melibiose	-	fermentation	from API 20E
68368	17268 ChEBI	myo-inositol	-	fermentation	from API 20E
32322	506227 ChEBI	N-acetylglucosamine	+	carbon source
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
32322	16634 ChEBI	raffinose	+	carbon source
32322	26546 ChEBI	rhamnose	+	carbon source
32322	33942 ChEBI	ribose	+	carbon source
32322	17814 ChEBI	salicin	+	carbon source
68368	30911 ChEBI	sorbitol	-	fermentation	from API 20E
32322	17992 ChEBI	sucrose	+	carbon source
68368	17992 ChEBI	sucrose	-	fermentation	from API 20E
32322	27082 ChEBI	trehalose	+	carbon source
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
32322	53424 ChEBI	tween 20	+	carbon source
32322	53423 ChEBI	tween 40	+	carbon source
32322	53426 ChEBI	tween 80	+	carbon source
68368	16199 ChEBI	urea	-	hydrolysis	from API 20E
32322	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Indole test
68368	15688 ChEBI	acetoin	+		from API 20E
68368	35581 ChEBI	indole		-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68368	arginine dihydrolase	-	3.5.3.6	from API 20E
68368	beta-galactosidase	+	3.2.1.23	from API 20E
32322	catalase	+	1.11.1.6
32322	cytochrome oxidase	+	1.9.3.1
68368	cytochrome oxidase	+	1.9.3.1	from API 20E
32322	gelatinase	+
68368	gelatinase	+		from API 20E
68368	lysine decarboxylase	-	4.1.1.18	from API 20E
68368	ornithine decarboxylase	-	4.1.1.17	from API 20E
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68368	urease	-	3.5.1.5	from API 20E

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	adipate degradation	100	2 of 2
66794	gluconeogenesis	100	8 of 8
66794	vitamin E metabolism	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	formaldehyde oxidation	100	3 of 3
66794	glycine betaine biosynthesis	100	5 of 5
66794	starch degradation	100	10 of 10
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	ppGpp biosynthesis	100	4 of 4
66794	folate polyglutamylation	100	1 of 1
66794	methylglyoxal degradation	100	5 of 5
66794	ceramide biosynthesis	100	1 of 1
66794	denitrification	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	quinate degradation	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	Entner Doudoroff pathway	90	9 of 10
66794	threonine metabolism	90	9 of 10
66794	serine metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	chorismate metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	leucine metabolism	84.62	11 of 13
66794	pentose phosphate pathway	81.82	9 of 11
66794	metabolism of disaccharids	81.82	9 of 11
66794	lipid metabolism	80.65	25 of 31
66794	cellulose degradation	80	4 of 5
66794	pyrimidine metabolism	80	36 of 45
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	purine metabolism	78.72	74 of 94
66794	photosynthesis	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	lipid A biosynthesis	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	glycogen biosynthesis	75	3 of 4
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	CMP-KDO biosynthesis	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	ketogluconate metabolism	75	6 of 8
66794	proline metabolism	72.73	8 of 11
66794	glycolysis	70.59	12 of 17
66794	propionate fermentation	70	7 of 10
66794	methionine metabolism	69.23	18 of 26
66794	histidine metabolism	68.97	20 of 29
66794	degradation of sugar acids	68	17 of 25
66794	glutamate and glutamine metabolism	67.86	19 of 28
66794	degradation of hexoses	66.67	12 of 18
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	flavin biosynthesis	66.67	10 of 15
66794	octane oxidation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	acetoin degradation	66.67	2 of 3
66794	non-pathway related	65.79	25 of 38
66794	alanine metabolism	65.52	19 of 29
66794	glutathione metabolism	64.29	9 of 14
66794	tyrosine metabolism	64.29	9 of 14
66794	lysine metabolism	64.29	27 of 42
66794	citric acid cycle	64.29	9 of 14
66794	degradation of pentoses	64.29	18 of 28
66794	d-xylose degradation	63.64	7 of 11
66794	tryptophan metabolism	63.16	24 of 38
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	urea cycle	61.54	8 of 13
66794	cysteine metabolism	61.11	11 of 18
66794	factor 420 biosynthesis	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	propanol degradation	57.14	4 of 7
66794	polyamine pathway	56.52	13 of 23
66794	aspartate and asparagine metabolism	55.56	5 of 9
66794	phenol degradation	55	11 of 20
66794	carotenoid biosynthesis	54.55	12 of 22
66794	kanosamine biosynthesis II	50	1 of 2
66794	myo-inositol biosynthesis	50	5 of 10
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	arachidonic acid metabolism	50	9 of 18
66794	phenylmercury acetate degradation	50	1 of 2
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	acetate fermentation	50	2 of 4
66794	isoprenoid biosynthesis	50	13 of 26
66794	vitamin B1 metabolism	46.15	6 of 13
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	nitrate assimilation	44.44	4 of 9
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	cardiolipin biosynthesis	42.86	3 of 7
66794	ascorbate metabolism	40.91	9 of 22
66794	lipoate biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	gallate degradation	40	2 of 5
66794	sulfate reduction	38.46	5 of 13
66794	oxidative phosphorylation	38.46	35 of 91
66794	degradation of sugar alcohols	37.5	6 of 16
66794	carnitine metabolism	37.5	3 of 8
66794	sphingosine metabolism	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	coenzyme M biosynthesis	30	3 of 10
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	mevalonate metabolism	28.57	2 of 7
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cholesterol biosynthesis	27.27	3 of 11
66794	androgen and estrogen metabolism	25	4 of 16
66794	catecholamine biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	butanoate fermentation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	chlorophyll metabolism	22.22	4 of 18

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
23883	+	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
23883	marine sediment	Kamogawa	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB301495 (>99% sequence identity) for Lewinella from Microbeatlas

Aquatic Samples	556
Soil Samples	69
Animal Samples	71
Plant Samples	1
Total Samples	697

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
23883	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1192770v1 assembly for Neolewinella marina DSM 104084	scaffold	GCA_011927705	438751.4	2830012823	438751	74.72
66792	ASM263120v1 assembly for Neolewinella marina MKG-38	contig	GCA_002631205	438751.3	2891513237	438751	73.04

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
23883	Lewinella marina gene for 16S rRNA, partial sequence, strain: MKG-38	AB301495	1446		438751
124043	Lewinella marina gene for 16S rRNA, partial sequence, strain: NBRC 102633.	AB681891	1449		438751

GC content

32322

GC-content (mol%)61

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Neolewinella marina DSM 104084
NCBI: GCA_011927705

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	89.20	no
125439	motility	BacteriaNetⓘ	no	66.20	no
125439	gram_stain	BacteriaNetⓘ	positive	67.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	72.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lewinella marina DSM 104084
NCBI: GCA_011927705.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.18	yes
125438	anaerobic	anaerobicⓘ	no	96.99	no
125438	aerobic	aerobicⓘ	yes	86.52	yes
125438	spore-forming	spore-formingⓘ	no	86.30	no
125438	thermophilic	thermophileⓘ	no	92.01	yes
125438	flagellated	motile2+ⓘ	no	81.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lewinella maritima sp. nov., and Lewinella lacunae sp. nov., novel bacteria from marine environments.	Kang H, Kim H, Joung Y, Joh K	Int J Syst Evol Microbiol	10.1099/ijsem.0.002176	2017
Phylogeny	Emended descriptions of the genus Lewinella and of Lewinella cohaerens, Lewinella nigricans and Lewinella persica, and description of Lewinella lutea sp. nov. and Lewinella marina sp. nov.	Khan ST, Fukunaga Y, Nakagawa Y, Harayama S	Int J Syst Evol Microbiol	10.1099/ijs.0.65308-0	2007
Phylogeny	Rubidimonas crustatorum gen. nov., sp. nov., a novel member of the family Saprospiraceae isolated from a marine crustacean.	Yoon J, Katsuta A, Kasai H	Antonie Van Leeuwenhoek	10.1007/s10482-011-9653-3	2011

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 )
#23883	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 104084
#32322	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 #28558 (see below)
#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 )
#68368	Automatically annotated from API 20E .
#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 .
#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 )

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Lewinella marina (DSM 104084, NBRC 102633, NCIMB 14312)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API 20E

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_011927705

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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