Ancylobacter polymorphus (DSM 2457, CIP 109301, NCIB 10516)

Name: Ancylobacter polymorphus (DSM 2457, CIP 109301, NCIB 10516)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17403

Type strain

Strain Designation Pla5

Culture col. no. DSM 2457 CIP 109301 NCIB 10516 CCUG 30553 Pla5 1 more

NCBI tax ID(s) 223390

Special Collections DSMZ CCUG CIP Literature strains

History <- NCIB (Microcyclus polymorphus) <- ICI, Pla5 CIP <- 2006, DSMZ <- NCIMB "Microcyclus polymoprhus" <- ICI, Beijing, China: strain Pla5

Links

Ancylobacter polymorphus Pla5 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from river mud.

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

Name and taxonomic classification

SI-ID 47617

CCUG 30553,DSM 2457,NCIB 10516,NCIMB 10516,AS 1.2800,CIP 109301,CGMCC 1.2800

@ref 20215

Last LPSN update 2026-02-09 11:22:12

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Xanthobacteraceae

Genus Ancylobacter

Species Ancylobacter polymorphus

Full scientific name Ancylobacter polymorphus Xin et al. 2006

BacDive ID	Other strains from **Ancylobacter polymorphus** (11)	Type strain
17383	A. polymorphus M6, DSM 2453
17389	A. polymorphus 407, DSM 1108
17392	A. polymorphus C-37, DSM 2667
17395	A. polymorphus DSM 3903, CCUG 30556
17396	A. polymorphus DSM 3910
17397	A. polymorphus DSM 3911
17398	A. polymorphus DSM 3912
17399	A. polymorphus DSM 3913
17400	A. polymorphus DSM 3914
17404	A. polymorphus NS03, DSM 18745, NEU 1210
17405	A. polymorphus NS04, DSM 19551

Morphology

Cell morphology

@ref	Gram stain	Cell width	Cell shape	Confidence
31720	negative	0.8-1 µm	rod-shaped
125439	negative			97.7
121930	negative		rod-shaped

Pigmentation

31720

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
1085	HETEROTROPHIC MEDIUM H3P (DSMZ Medium 428)	Medium recipe at MediaDive	Name: HETEROTROPHIC MEDIUM H3P (DSMZ Medium 428) Composition: Agar 19.802 g/l Na2HPO4 x 2 H2O 2.87129 g/l KH2PO4 2.27723 g/l D-Glucose 1.9802 g/l Na-lactate 0.990099 g/l Na-pyruvate 0.990099 g/l D-Mannitol 0.990099 g/l DL-Malate 0.990098 g/l Na-acetate 0.990098 g/l Yeast extract 0.990098 g/l NH4Cl 0.990098 g/l Disodium succinate 0.990098 g/l MgSO4 x 7 H2O 0.495049 g/l Ferric ammonium citrate 0.049505 g/l CaCl2 x 2 H2O 0.00990098 g/l NaVO3 x H2O 0.00495049 g/l Thiamine-HCl x 2 H2O 0.00247525 g/l Nicotinic acid 0.00247525 g/l Pyridoxine hydrochloride 0.00247525 g/l Calcium pantothenate 0.00247525 g/l H3BO3 0.00148515 g/l CoCl2 x 6 H2O 0.000990099 g/l Riboflavin 0.00049505 g/l ZnSO4 x 7 H2O 0.00049505 g/l MnCl2 x 4 H2O 0.000148515 g/l Na2MoO4 x 2 H2O 0.000148515 g/l NiCl2 x 6 H2O 9.90099e-05 g/l CuCl2 x 2 H2O 4.95049e-05 g/l Vitamin B12 4.95049e-05 g/l Folic acid 9.90099e-06 g/l Biotin 4.9505e-06 g/l Distilled water
1085	MINERAL MEDIUM FOR CHEMOLITHOTROPHIC GROWTH (H-3) (DSMZ Medium 81)	Medium recipe at MediaDive	Name: MINERAL MEDIUM FOR CHEMOLITHOTROPHIC GROWTH (H-3) (DSMZ Medium 81) Composition: Agar 20.1005 g/l Na2HPO4 x 2 H2O 2.91457 g/l KH2PO4 2.31156 g/l NH4Cl 1.00503 g/l MgSO4 x 7 H2O 0.502512 g/l Ferric ammonium citrate 0.0502513 g/l CaCl2 x 2 H2O 0.0100503 g/l NaVO3 x H2O 0.00502512 g/l Calcium pantothenate 0.00251256 g/l Pyridoxine hydrochloride 0.00251256 g/l Nicotinic acid 0.00251256 g/l Thiamine-HCl x 2 H2O 0.00251256 g/l H3BO3 0.00150754 g/l CoCl2 x 6 H2O 0.00100503 g/l Riboflavin 0.000502513 g/l ZnSO4 x 7 H2O 0.000502513 g/l MnCl2 x 4 H2O 0.000150754 g/l Na2MoO4 x 2 H2O 0.000150754 g/l NiCl2 x 6 H2O 0.000100503 g/l CuCl2 x 2 H2O 5.02513e-05 g/l Vitamin B12 5.02513e-05 g/l Folic acid 1.00503e-05 g/l Biotin 5.02513e-06 g/l Distilled water
1085	ANCYLOBACTER - SPIROSOMA MEDIUM (DSMZ Medium 7)	Medium recipe at MediaDive	Name: ANCYLOBACTER - SPIROSOMA MEDIUM (DSMZ Medium 7) Composition: Agar 15.0 g/l Yeast extract 1.0 g/l Peptone 1.0 g/l Glucose 1.0 g/l Distilled water
36073	MEDIUM 364 - for Spirosoma		Distilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (1.000g);Yeast extract (1.000 g);Peptone (1.000 g)
121930	CIP Medium 364	Medium recipe at CIP
1085	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)
1085	positive	growth	26
31720	positive	growth	05-45
31720	positive	optimum	28-30
36073	positive	growth	30
50144	positive	growth	26

Culture pH

@ref	Ability	Type	PH	PH range
31720	positive	optimum	7
31720	positive	growth	07-11	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31720	aerobe
121930	obligate aerobe
125439	aerobe	91.7

Spore formation

@ref	Spore formation	Confidence
31720
125439		96.5

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31720	NaCl	positive	growth	0-3 %
31720	NaCl	positive	optimum	0-3 %

Observation

31720

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31720	16449 ChEBI	alanine	+	carbon source
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
31720	22599 ChEBI	arabinose	+	carbon source
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
31720	29016 ChEBI	arginine	+	carbon source
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
31720	16947 ChEBI	citrate	+	carbon source
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	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	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
31720	23652 ChEBI	dextrin	+	carbon source
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
31720	4853 ChEBI	esculin	+	hydrolysis
31720	28757 ChEBI	fructose	+	carbon source
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
31720	28260 ChEBI	galactose	+	carbon source
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
31720	17234 ChEBI	glucose	+	carbon source
31720	17754 ChEBI	glycerol	+	carbon source
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	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
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
31720	17306 ChEBI	maltose	+	carbon source
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
31720	29864 ChEBI	mannitol	+	carbon source
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
31720	17632 ChEBI	nitrate	+	reduction
121930	17632 ChEBI	nitrate	-	reduction
121930	16301 ChEBI	nitrite	-	reduction
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
31720	26271 ChEBI	proline	+	carbon source
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
31720	15963 ChEBI	ribitol	+	carbon source
31720	33942 ChEBI	ribose	+	carbon source
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
31720	30911 ChEBI	sorbitol	+	carbon source
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
31720	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
121930	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
31720	catalase	+	1.11.1.6
121930	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
31720	cytochrome oxidase	+	1.9.3.1
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
121930	oxidase	+
68382	trypsin	+	3.4.21.4	from API zym
31720	urease	+	3.5.1.5
121930	urease	+	3.5.1.5
68382	valine arylamidase	+		from API zym

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
121930	-	+	+	+	-	+	+	-	+	-	+	+	-	-	-	-	+	-	-	-

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
121930	not determinedn.d.	-	-	-	+/-	-	+/-	-	+/-	-	+/-	+/-	+/-	-	-	-	-	-	+/-	+/-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	+/-	-	+/-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Mud (Sludge)
#Environmental	#Aquatic	#River (Creek)

Isolation

@ref	Sample type
31720	river mud
121930	Environment, River mud

Taxonmaps

69479

Global distribution of 16S sequence AY211516 (>99% sequence identity) for Ancylobacter from Microbeatlas

Aquatic Samples	2318
Soil Samples	1085
Animal Samples	1936
Plant Samples	762
Total Samples	6101

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1085	1	Risk group (German classification) According to TRBA 466
121930	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM3081349v1 assembly for Ancylobacter polymorphus DSM 2457	contig	GCA_030813495	223390.5	2926570559	223390	72.66

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
31720	Ancylobacter polymorphus strain DSM 2457 16S ribosomal RNA gene, partial sequence	AY211516	1388		223390

GC content

31720

GC-content (mol%)65.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Ancylobacter polymorphus DSM 2457
IMG: 2926570559

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	96.50	no
125439	motility	BacteriaNetⓘ	yes	62.50	no
125439	gram_stain	BacteriaNetⓘ	negative	97.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	91.70	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Isolation and identification of sodium fluoroacetate degrading bacteria from caprine rumen in Brazil.	Camboim EK, Almeida AP, Tadra-Sfeir MZ, Junior FG, Andrade PP, McSweeney CS, Melo MA, Riet-Correa F.	ScientificWorldJournal	10.1100/2012/178254	2012
	Prerequisites for amplicon pyrosequencing of microbial methanol utilizers in the environment.	Kolb S, Stacheter A.	Front Microbiol	10.3389/fmicb.2013.00268	2013
Phylogeny	Ancylobacter polymorphus sp. nov. and Ancylobacter vacuolatus sp. nov.	Xin YH, Zhou YG, Chen WX	Int J Syst Evol Microbiol	10.1099/ijs.0.64118-0	2006

References

#1085	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 2457
#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 )
#27996	IJSEM 1185 2006 ( DOI 10.1099/ijs.0.64118-0 , PubMed 16738088 )
#31720	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 #27996
#36073	; Curators of the CIP;
#50144	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30553
#68371	Automatically annotated from API 50CH acid .
#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 .
#121930	Collection of Institut Pasteur ; Curators of the CIP; CIP 109301
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Ancylobacter polymorphus (DSM 2457, CIP 109301, NCIB 10516)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Enzymes

API zym

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_030813495

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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