Modestobacter marinus (DSM 45201, CGMCC 4.5581, 42H12-1)

Name: Modestobacter marinus (DSM 45201, CGMCC 4.5581, 42H12-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5832

Type strain

Strain Designation 42H12-1

Culture col. no. DSM 45201 CGMCC 4.5581 42H12-1 JCM 18320

NCBI tax ID(s) 477641

Special Collections DSMZ JCM Wink compendium

Links

Modestobacter marinus 42H12-1 is a mesophilic prokaryote that was isolated from deep-sea sediment.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 398505

DSM 45201

@ref 20215

Last LPSN update 2025-12-16 09:48:10

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Geodermatophilales

Family Geodermatophilaceae

Genus Modestobacter

Species Modestobacter marinus

Full scientific name Modestobacter marinus Xiao et al. 2011

BacDive ID	Other strains from **Modestobacter marinus** (1)	Type strain
176927	M. marinus G 6, DSM 44206

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	98.7

Colony morphology

@ref	Colony color	Medium used
69378	Green brown (8000)	suter without tyrosine
69378	Black brown (8022)	ISP 2
69378	Black brown (8022)	ISP 6
69378	Jet black (9005)	ISP 3
69378	Khaki grey (7008)	ISP 5
69378	Khaki grey (7008)	ISP 7
69378	Olive brown (8008)	ISP 4
69378	Olive brown (8008)	suter with tyrosine

Multicellular morphology

@ref	Complex name	Medium name
69378	Aerial mycelium	ISP 2
69378	Aerial mycelium	ISP 3
69378	Aerial mycelium	ISP 4
69378	Aerial mycelium	ISP 5
69378	Aerial mycelium	ISP 6
69378	Aerial mycelium	ISP 7
69378	Aerial mycelium	suter with tyrosine
69378	Aerial mycelium	suter without tyrosine

Pigmentation

@ref	Production	Name
69378		Melanin
69378		soluble pigment

Multimedia

@ref:	15799
multimedia content:	DSM_45201.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_45201.jpg
caption:	Medium 65 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
15799	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
15799	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

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
15799	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	90.04
125439	obligate aerobe	99.9

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69378	NaCl	positive	growth	0-10 %

Observation

67770

Observationquinones: MK-9(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69378	22599 ChEBI	arabinose	+	growth
69378	62968 ChEBI	cellulose	-	growth
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68379	4853 ChEBI	esculin	+	hydrolysis	from API Coryne
69378	28757 ChEBI	fructose	+/-	growth
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
69378	17234 ChEBI	glucose	+	growth
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
69378	17268 ChEBI	inositol	-	growth
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
69378	37684 ChEBI	mannose	+/-	growth
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
69378	16634 ChEBI	raffinose	-	growth
69378	26546 ChEBI	rhamnose	+/-	growth
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
69378	17992 ChEBI	sucrose	+	growth
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
69378	18222 ChEBI	xylose	+	growth

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68379	alkaline phosphatase	+	3.1.3.1	from API Coryne
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
68379	alpha-glucosidase	+	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68382	beta-glucosidase	+	3.2.1.21	from API zym
68379	beta-glucosidase	+	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
68379	gelatinase	-		from API Coryne
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68382	trypsin	-	3.4.21.4	from API zym
68379	urease	-	3.5.1.5	from API Coryne
68382	valine arylamidase	+		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	suberin monomers biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	valine metabolism	100	9 of 9
66794	ethanol fermentation	100	2 of 2
66794	lactate fermentation	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	phenylmercury acetate degradation	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	teichoic acid biosynthesis	100	1 of 1
66794	glycogen metabolism	100	5 of 5
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	methylglyoxal degradation	100	5 of 5
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	vitamin K metabolism	100	5 of 5
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	creatinine degradation	100	5 of 5
66794	acetate fermentation	100	4 of 4
66794	degradation of aromatic, nitrogen containing compounds	100	12 of 12
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	taurine degradation	100	1 of 1
66794	cardiolipin biosynthesis	100	7 of 7
66794	glycine betaine biosynthesis	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	isoleucine metabolism	100	8 of 8
66794	starch degradation	100	10 of 10
66794	3-chlorocatechol degradation	100	5 of 5
66794	ceramide biosynthesis	100	1 of 1
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	adipate degradation	100	2 of 2
66794	flavin biosynthesis	93.33	14 of 15
66794	glutamate and glutamine metabolism	92.86	26 of 28
66794	leucine metabolism	92.31	12 of 13
66794	phenylalanine metabolism	92.31	12 of 13
66794	pentose phosphate pathway	90.91	10 of 11
66794	threonine metabolism	90	9 of 10
66794	4-hydroxymandelate degradation	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	gluconeogenesis	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	purine metabolism	86.17	81 of 94
66794	heme metabolism	85.71	12 of 14
66794	citric acid cycle	85.71	12 of 14
66794	glutathione metabolism	85.71	12 of 14
66794	photosynthesis	85.71	12 of 14
66794	pyrimidine metabolism	84.44	38 of 45
66794	NAD metabolism	83.33	15 of 18
66794	vitamin B12 metabolism	82.35	28 of 34
66794	glycolysis	82.35	14 of 17
66794	cellulose degradation	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	tryptophan metabolism	78.95	30 of 38
66794	allantoin degradation	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	urea cycle	76.92	10 of 13
66794	phosphatidylethanolamine bioynthesis	76.92	10 of 13
66794	histidine metabolism	75.86	22 of 29
66794	alanine metabolism	75.86	22 of 29
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	ketogluconate metabolism	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	lipid metabolism	74.19	23 of 31
66794	non-pathway related	73.68	28 of 38
66794	metabolism of disaccharids	72.73	8 of 11
66794	d-xylose degradation	72.73	8 of 11
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	tyrosine metabolism	71.43	10 of 14
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	propanol degradation	71.43	5 of 7
66794	bile acid biosynthesis, neutral pathway	70.59	12 of 17
66794	Entner Doudoroff pathway	70	7 of 10
66794	oxidative phosphorylation	69.23	63 of 91
66794	vitamin B1 metabolism	69.23	9 of 13
66794	enterobactin biosynthesis	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	cyanate degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	IAA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	phenol degradation	65	13 of 20
66794	lysine metabolism	64.29	27 of 42
66794	proline metabolism	63.64	7 of 11
66794	arginine metabolism	62.5	15 of 24
66794	degradation of sugar alcohols	62.5	10 of 16
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	methionine metabolism	61.54	16 of 26
66794	degradation of hexoses	61.11	11 of 18
66794	degradation of pentoses	60.71	17 of 28
66794	arachidonate biosynthesis	60	3 of 5
66794	3-phenylpropionate degradation	60	9 of 15
66794	gallate degradation	60	3 of 5
66794	myo-inositol biosynthesis	60	6 of 10
66794	D-cycloserine biosynthesis	60	3 of 5
66794	androgen and estrogen metabolism	56.25	9 of 16
66794	degradation of sugar acids	56	14 of 25
66794	nitrate assimilation	55.56	5 of 9
66794	carotenoid biosynthesis	54.55	12 of 22
66794	vitamin B6 metabolism	54.55	6 of 11
66794	sulfate reduction	53.85	7 of 13
66794	ribulose monophosphate pathway	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	toluene degradation	50	2 of 4
66794	sphingosine metabolism	50	3 of 6
66794	pantothenate biosynthesis	50	3 of 6
66794	glycine metabolism	50	5 of 10
66794	resorcinol degradation	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	dolichyl-diphosphooligosaccharide biosynthesis	45.45	5 of 11
66794	arachidonic acid metabolism	44.44	8 of 18
66794	lipid A biosynthesis	44.44	4 of 9
66794	ascorbate metabolism	40.91	9 of 22
66794	lipoate biosynthesis	40	2 of 5
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	chlorophyll metabolism	33.33	6 of 18
66794	sulfoquinovose degradation	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	polyamine pathway	26.09	6 of 23
66794	vitamin E metabolism	25	1 of 4
66794	biotin biosynthesis	25	1 of 4
66794	CMP-KDO biosynthesis	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	alginate biosynthesis	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	daunorubicin biosynthesis	22.22	2 of 9

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
69378	-	-	-	+	-	-	+	-	+	-	-	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

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
69378	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
15799	deep-sea sediment	14.7518° N 44.9782° W at a depth of 2983 m
67770	Deep-sea sediment from the Atlantic Ocean

Taxonmaps

69479

Global distribution of 16S sequence EU181225 (>99% sequence identity) for Modestobacter from Microbeatlas

Aquatic Samples	2890
Soil Samples	18491
Animal Samples	5702
Plant Samples	4609
Total Samples	31692

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
15799	1	Risk group (German 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	ASM1175865v1 assembly for Modestobacter marinus DSM 45201	contig	GCA_011758655	477641.12	2820994125	477641	72.67
66792	ASM1464575v1 assembly for Modestobacter marinus CGMCC 4.5581	scaffold	GCA_014645755	477641.13	8075687571	477641	65.83
124043	ASM3954346v1 assembly for Modestobacter marinus JCM 18320	scaffold	GCA_039543465			477641	56.96
66792	ASM2338359v1 assembly for Modestobacter marinus DSM 45201	contig	GCA_023383595	477641.23	8002251497	477641	20.5

Genome browser: GCA_011758655

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
15799	Modestobacter marinus strain 42H12-1 16S ribosomal RNA gene, partial sequence	EU181225	1483		477641

GC content

@ref	GC-content (mol%)
15799	72.3
67770	71.3-73.3

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Modestobacter marinus CGMCC 4.5581
NCBI: GCA_014645755

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	58.40	no
125439	motility	BacteriaNetⓘ	no	67.20	no
125439	gram_stain	BacteriaNetⓘ	positive	98.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Modestobacter marinus CGMCC 4.5581
NCBI: GCA_014645755.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	88.49	no
125438	anaerobic	anaerobicⓘ	no	97.07	no
125438	aerobic	aerobicⓘ	yes	90.04	no
125438	spore-forming	spore-formingⓘ	yes	60.78	no
125438	thermophilic	thermophileⓘ	no	97.00	no
125438	flagellated	motile2+ⓘ	no	61.83	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Modestobacter lacusdianchii sp. nov., a Phosphate-Solubilizing Actinobacterium with Ability to Promote Microcystis Growth.	Zhang BH, Salam N, Cheng J, Li HQ, Yang JY, Zha DM, Zhang YQ, Ai MJ, Hozzein WN, Li WJ	PLoS One	10.1371/journal.pone.0161069	2016
Phylogeny	Modestobacter caceresii sp. nov., novel actinobacteria with an insight into their adaptive mechanisms for survival in extreme hyper-arid Atacama Desert soils.	Busarakam K, Bull AT, Trujillo ME, Riesco R, Sangal V, van Wezel GP, Goodfellow M	Syst Appl Microbiol	10.1016/j.syapm.2016.03.007	2016
Phylogeny	Modestobacter roseus sp. nov., an endophytic actinomycete isolated from the coastal halophyte Salicornia europaea Linn., and emended description of the genus Modestobacter.	Qin S, Bian GK, Zhang YJ, Xing K, Cao CL, Liu CH, Dai CC, Li WJ, Jiang JH	Int J Syst Evol Microbiol	10.1099/ijs.0.044412-0	2012
Phylogeny	Modestobacter marinus sp. nov., a psychrotolerant actinobacterium from deep-sea sediment, and emended description of the genus Modestobacter.	Xiao J, Luo Y, Xu J, Xie S, Xu J	Int J Syst Evol Microbiol	10.1099/ijs.0.023085-0	2010

References

#15799	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45201
#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 )
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69378	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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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Modestobacter marinus (DSM 45201, CGMCC 4.5581, 42H12-1)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Enzymes

Pathway annotation

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_011758655

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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