Arcobacter defluvii (DSM 25359, CECT 7697, LMG 25694)

Name: Arcobacter defluvii (DSM 25359, CECT 7697, LMG 25694)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 22945

Type strain

Strain Designation SW28-11

Culture col. no. DSM 25359 CECT 7697 LMG 25694 SW28-11 JCM 33356

NCBI tax ID(s) 873191

Special Collections DSMZ JCM

History DSMZ <- M. J. Figueras, Rovira i Virgili University, Reus, Spain; SW28-11 <- L. Collado JCM <-- LMG 25694 <-- M. J. Figueras; Univ. Rovira i Virgili, Spain; SW28-11.

Links

Arcobacter defluvii SW28-11 is a microaerophile bacterium that was isolated from raw sewage, waste water plant.

microaerophile genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 369524

JCM 33356,LMG 25694,CECT 7697,DSM 25359

@ref 20215

Last LPSN update 2026-05-29 08:30:20

Domain Bacteria

Phylum Pseudomonadota

Class Epsilonproteobacteria

Order Campylobacterales

Family Arcobacteraceae

Genus Arcobacter

Species Arcobacter defluvii

Full scientific name Arcobacter defluvii Collado et al. 2011

Synonyms (2)

Pseudarcobacter defluvii
Pseudoarcobacter defluvii

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	97.684
125438	negative	96.871

Colony morphology

@ref	Type of hemolysis	Hemolysis ability	Incubation period
19121	gamma	0	1-2 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
19121	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)		Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

Culture temp

@ref	Growth	Type	Temperature (°C)
19121	positive	growth	37
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
19121	microaerophile
125439	facultative anaerobe	95.322

Spore formation

@ref	Spore formation	Confidence
125438		91.72
125439		98.566

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68373	30089 ChEBI	acetate	-	assimilation	from API CAM
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68373	16947 ChEBI	citrate	-	assimilation	from API CAM
68373	17634 ChEBI	D-glucose	-	assimilation	from API CAM
68369	17634 ChEBI	D-glucose	-	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
68373	606565 ChEBI	hippurate	-	hydrolysis	from API CAM
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
68373	25115 ChEBI	malate	-	assimilation	from API CAM
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
68373	17632 ChEBI	nitrate	+	reduction	from API CAM
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
68373	17272 ChEBI	propionate	-	assimilation	from API CAM
68373	30031 ChEBI	succinate	-	assimilation	from API CAM
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68373	16199 ChEBI	urea	-	hydrolysis	from API CAM
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Antibiotic resistance

@ref	ChEBI	Metabolite	Sensitivity conc.
68373	474053	cefazolin	224 µg	from API CAM
68373	48923	erythromycin	14 µg	from API CAM
68373	100147	nalidixic acid	84 µg	from API CAM

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68373	16136 ChEBI	hydrogen sulfide		from API CAM
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
68373	alkaline phosphatase	-	3.1.3.1	from API CAM
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
19121	catalase	-	1.11.1.6
68373	catalase	-	1.11.1.6	from API CAM
19121	cytochrome-c oxidase	+	1.9.3.1
68373	esterase	+		from API CAM
68373	gamma-glutamyltransferase	-	2.3.2.2	from API CAM
68369	gelatinase	-		from API 20NE
68373	L-arginine arylamidase	-		from API CAM
68373	L-aspartate arylamidase	-	3.4.11.21	from API CAM
68373	pyrrolidonyl arylamidase	-	3.4.19.3	from API CAM
68373	urease	-	3.5.1.5	from API CAM
68369	urease	-	3.5.1.5	from API 20NE

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
19121	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.

API CAM

@ref	URE	Reduction of nitrateNIT	EsteraseEST	HIP	GGT	TTC	PYRA	L-arginine arylamidaseArgA	L-aspartic acid arylamidaseAspA	PAL	H2S productionH2S	GLU	SUT	NAL	CFZ	ACE	PROP	MLT	CIT	Erythromycin resistance (+) sensitivity (-)ERO	CAT
19121	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.
19121	-	+	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Wastewater
#Engineered	#Waste	#Water treatment plant

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
19121	raw sewage, waste water plant	Reus	Spain	ESP	Europe
67770	Raw sewage from the wastewater treatment plant in the town of Reus		Spain	ESP	Europe

Taxonmaps

69479

Global distribution of 16S sequence HQ115595 (>99% sequence identity) for Arcobacter from Microbeatlas

Aquatic Samples	9375
Soil Samples	408
Animal Samples	847
Plant Samples	137
Total Samples	10767

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
19121	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
66792	ASM1320172v1 assembly for Arcobacter defluvii LMG 25694	complete	GCA_013201725	873191.9		873191	95.7
67770	ASM411577v1 assembly for Arcobacter defluvii CECT 7697	contig	GCA_004115775	873191.8	2854854714	873191	60.8

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
19121	Arcobacter defluvii strain SW28-11 16S ribosomal RNA gene, partial sequence	HQ115595	1402	873191
124043	Arcobacter defluvii strain SW28-7 16S ribosomal RNA gene, partial sequence.	HQ115596	1402	873191
124043	Arcobacter defluvii strain SW28-7 16S ribosomal RNA gene, partial sequence.	HQ115597	1402	873191

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1320172v1 assembly for Arcobacter defluvii LMG 25694
BV-BRC: 873191.9

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	95.32	no
125439	motility	BacteriaNetⓘ	yes	43.09	no
125439	gram_stain	BacteriaNetⓘ	negative	97.68	no
125439	spore_formation	BacteriaNetⓘ	no	98.57	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Arcobacter defluvii LMG 25694
NCBI: GCA_013201725.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.87	no
125438	anaerobic	anaerobicⓘ	no	64.09	yes
125438	aerobic	aerobicⓘ	no	61.60	yes
125438	spore-forming	spore-formingⓘ	no	91.72	no
125438	thermophilic	thermophileⓘ	no	86.48	yes
125438	flagellated	motile2+ⓘ	yes	76.25	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Chemical Composition and Antibacterial Effect of Clove and Thyme Essential Oils on Growth Inhibition and Biofilm Formation of Arcobacter spp. and Other Bacteria.	Hofmeisterova L, Bajer T, Walczak M, Silha D.	Antibiotics (Basel)	10.3390/antibiotics13121232	2024
Enzymology	Real-time quantitative PCR assay development and application for assessment of agricultural surface water and various fecal matter for prevalence of Aliarcobacter faecis and Aliarcobacter lanthieri.	Miltenburg MG, Cloutier M, Craiovan E, Lapen DR, Wilkes G, Topp E, Khan IUH.	BMC Microbiol	10.1186/s12866-020-01826-3	2020
Phylogeny	The Effect of Antibiotics on Planktonic Cells and Biofilm Formation Ability of Collected Arcobacter-like Strains and Strains Isolated within the Czech Republic.	Svarcova K, Pejchalova M, Silha D	Antibiotics (Basel)	10.3390/antibiotics11010087	2022
Phylogeny	Arcobacter bivalviorum sp. nov. and Arcobacter venerupis sp. nov., new species isolated from shellfish.	Levican A, Collado L, Aguilar C, Yustes C, Dieguez AL, Romalde JL, Figueras MJ	Syst Appl Microbiol	10.1016/j.syapm.2012.01.002	2012
Phylogeny	Arcobacter defluvii sp. nov., isolated from sewage samples.	Collado L, Levican A, Perez J, Figueras MJ	Int J Syst Evol Microbiol	10.1099/ijs.0.025668-0	2010

References

#19121	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25359
#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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68369	Automatically annotated from API 20NE .
#68373	Automatically annotated from API CAM .
#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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Arcobacter defluvii (DSM 25359, CECT 7697, LMG 25694)

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

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API 20NE

API CAM

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_013201725

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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