Devosia epidermidihirudinis (DSM 25750, CCM 8398, CIP 110375)

Name: Devosia epidermidihirudinis (DSM 25750, CCM 8398, CIP 110375)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24104

Type strain

Strain Designation E84

Culture col. no. DSM 25750 CCM 8398 CIP 110375 LMG 26909 E84

NCBI tax ID(s) 1293439

Special Collections DSMZ CIP

History DSMZ <- P. Kämpfer, Justus-Liebig-Universität, Inst. f. Angew. Mikrobiology, Giessen, Germany; E84 <- L. Kaiser CIP <- 2012, P. Kämpfer, Giessen Univ., Giessen, Germany: strain E84 <- 2009, L. Kaiser

Links

Devosia epidermidihirudinis E84 is an obligate aerobe, Gram-negative, rod-shaped bacterium that was isolated from skin of a juvenile medical leech .

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

Name and taxonomic classification

SI-ID 396867

LMG 26909,DSM 25750,CIP 110375

@ref 20215

Last LPSN update 2026-05-29 08:30:33

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Devosiaceae

Genus Devosia

Species Devosia epidermidihirudinis

Full scientific name Devosia epidermidihirudinis Galatis et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
119089	negative	rod-shaped

Colony morphology

20528

Incubation period2-3 days

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
41954	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
20528	TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)	Medium recipe at MediaDive	Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
119089	CIP Medium 566	Medium recipe at CIP
119089	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
20528	positive	growth	28
41954	positive	growth	25

Physiology and metabolism

Oxygen tolerance

119089

Oxygen toleranceobligate aerobe

Spore formation

@ref	Spore formation	Confidence
125439		91.428

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
119089	17632 ChEBI	nitrate	-	reduction
119089	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
119089	35581 ChEBI	indole

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
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
119089	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
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
119089	oxidase	+
68382	trypsin	+	3.4.21.4	from API zym
119089	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	glycogen metabolism	100	5 of 5
66794	Entner Doudoroff pathway	100	10 of 10
66794	allantoin degradation	100	9 of 9
66794	adipate degradation	100	2 of 2
66794	pentose phosphate pathway	100	11 of 11
66794	gluconeogenesis	100	8 of 8
66794	ppGpp biosynthesis	100	4 of 4
66794	ribulose monophosphate pathway	100	2 of 2
66794	formaldehyde oxidation	100	3 of 3
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	methylglyoxal degradation	100	5 of 5
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	palmitate biosynthesis	95.45	21 of 22
66794	chorismate metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	d-mannose degradation	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	ketogluconate metabolism	87.5	7 of 8
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	pyrimidine metabolism	84.44	38 of 45
66794	purine metabolism	84.04	79 of 94
66794	proline metabolism	81.82	9 of 11
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	gallate degradation	80	4 of 5
66794	3-chlorocatechol degradation	80	4 of 5
66794	vitamin B12 metabolism	79.41	27 of 34
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	photosynthesis	78.57	11 of 14
66794	NAD metabolism	77.78	14 of 18
66794	valine metabolism	77.78	7 of 9
66794	degradation of hexoses	77.78	14 of 18
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	acetate fermentation	75	3 of 4
66794	lactate fermentation	75	3 of 4
66794	biotin biosynthesis	75	3 of 4
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	isoleucine metabolism	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	peptidoglycan biosynthesis	73.33	11 of 15
66794	vitamin B6 metabolism	72.73	8 of 11
66794	histidine metabolism	72.41	21 of 29
66794	alanine metabolism	72.41	21 of 29
66794	degradation of sugar acids	72	18 of 25
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	heme metabolism	71.43	10 of 14
66794	degradation of pentoses	71.43	20 of 28
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	starch degradation	70	7 of 10
66794	urea cycle	69.23	9 of 13
66794	non-pathway related	68.42	26 of 38
66794	acetoin degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	methionine metabolism	65.38	17 of 26
66794	oxidative phosphorylation	64.84	59 of 91
66794	glycolysis	64.71	11 of 17
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	leucine metabolism	61.54	8 of 13
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	cysteine metabolism	61.11	11 of 18
66794	flavin biosynthesis	60	9 of 15
66794	phenylacetate degradation (aerobic)	60	3 of 5
66794	myo-inositol biosynthesis	60	6 of 10
66794	propionate fermentation	60	6 of 10
66794	lipid metabolism	58.06	18 of 31
66794	tryptophan metabolism	57.89	22 of 38
66794	citric acid cycle	57.14	8 of 14
66794	lysine metabolism	57.14	24 of 42
66794	tyrosine metabolism	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	glutathione metabolism	57.14	8 of 14
66794	daunorubicin biosynthesis	55.56	5 of 9
66794	metabolism of disaccharids	54.55	6 of 11
66794	arginine metabolism	54.17	13 of 24
66794	vitamin B1 metabolism	53.85	7 of 13
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	sulfopterin metabolism	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	coenzyme A metabolism	50	2 of 4
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	glycine metabolism	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	3-phenylpropionate degradation	46.67	7 of 15
66794	d-xylose degradation	45.45	5 of 11
66794	nitrate assimilation	44.44	4 of 9
66794	ascorbate metabolism	40.91	9 of 22
66794	vitamin K metabolism	40	2 of 5
66794	cellulose degradation	40	2 of 5
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	phenol degradation	40	8 of 20
66794	lipoate biosynthesis	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	cyanate degradation	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	IAA biosynthesis	33.33	1 of 3
66794	octane oxidation	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	androgen and estrogen metabolism	31.25	5 of 16
66794	sulfate reduction	30.77	4 of 13
66794	coenzyme M biosynthesis	30	3 of 10
66794	bile acid biosynthesis, neutral pathway	29.41	5 of 17
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	polyamine pathway	26.09	6 of 23
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	butanoate fermentation	25	1 of 4
66794	4-hydroxymandelate degradation	22.22	2 of 9

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
119089	-	+	+	-	-	+	-	-	+	-	+	+	-	+	-	+	+	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Invertebrates (Other)	#Annelida
#Host Body-Site	#Organ	#Skin, Nail, Hair

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
20528	skin of a juvenile medical leech ( Hirudo verbana )	Hirudo verbana	Hessen, Biebertal	Germany	DEU	Europe
119089	Animal, From the surface of a juvenile leech		Biebertal, Hessen	Germany	DEU	Europe	2009

Taxonmaps

69479

Global distribution of 16S sequence KC254735 (>99% sequence identity) for Devosia epidermidihirudinis from Microbeatlas

Aquatic Samples	45
Soil Samples	46
Animal Samples	65
Plant Samples	11
Total Samples	167

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
20528	1	Risk group (German classification)
119089	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	IMG accession	NCBI tax ID	Score
66792	ASM97129v1 assembly for Devosia epidermidihirudinis E84	contig	GCA_000971295	2639762899	1293439	66.72

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20528	Devosia epidermidihirudinis strain E84T 16S ribosomal RNA gene, partial sequence	KC254735	1351		1293439

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM97129v1 assembly for Devosia epidermidihirudinis E84
NCBI: GCA_000971295

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	82.56	no
125439	gram_stain	BacteriaNetⓘ	negative	60.48	no
125439	motility	BacteriaNetⓘ	no	60.33	no
125439	spore_formation	BacteriaNetⓘ	no	91.43	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	The Identification of DepB: An Enzyme Responsible for the Final Detoxification Step in the Deoxynivalenol Epimerization Pathway in Devosia mutans 17-2-E-8.	Carere J, Hassan YI, Lepp D, Zhou T.	Front Microbiol	10.3389/fmicb.2018.01573	2018
Genetics	Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria.	Hordt A, Lopez MG, Meier-Kolthoff JP, Schleuning M, Weinhold LM, Tindall BJ, Gronow S, Kyrpides NC, Woyke T, Goker M.	Front Microbiol	10.3389/fmicb.2020.00468	2020
Phylogeny	Devosia beringensis sp. nov., isolated from surface sediment of the Bering Sea.	Zhang YX, Yu Y, Luo W, Zeng YX, Du ZJ, Li HR.	Int J Syst Evol Microbiol	10.1099/ijsem.0.004995	2021
Phylogeny	Devosia ginsengisoli sp. nov., isolated from ginseng cultivation soil.	Quan XT, Siddiqi MZ, Liu QZ, Lee SM, Im WT.	Int J Syst Evol Microbiol	10.1099/ijsem.0.003843	2020
Phylogeny	Devosia epidermidihirudinis sp. nov. isolated from the surface of a medical leech.	Galatis H, Martin K, Kampfer P, Glaeser SP	Antonie Van Leeuwenhoek	10.1007/s10482-013-9895-3	2013

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 )
#20528	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25750
#41954	; 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) .
#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 )
#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 .
#119089	Collection of Institut Pasteur ; Curators of the CIP; CIP 110375
#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

Devosia epidermidihirudinis (DSM 25750, CCM 8398, CIP 110375)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Metabolite production

Enzymes

Pathway annotation

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000971295

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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