Delftia acidovorans (DSM 39, ATCC 15668, DSM 50251)

Name: Delftia acidovorans (DSM 39, ATCC 15668, DSM 50251)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2941

Type strain

Strain Designation 2167, 7

Culture col. no. DSM 39 ATCC 15668 DSM 50251 2167 7 20 more

NCBI tax ID(s) 1218107 80866

Special Collections DSMZ CCUG JCM CIP JMRC

History DSMZ <- ATCC <- R. Hugh, 2167 <- Lab. Microbiol. Delft <- den Dooren de Jong, 7 JCM <-- Y. Kosako 85014 <-- Nissui Pharm. Co., Ltd. <-- ATCC 15668 <-- R. Hugh 2167 <-- Tech. Hogesch., Delft. CIP <- 1988, NCIMB <- T. Wiken, Pseudomonas acidovorans

Links

Delftia acidovorans 2167 is a bacterium that was isolated from soil enriched with acetamide.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 87460

LMG 1226,ATCC 15668,CCUG 12692,CCUG 14481,CECT 311,DSM 39,DSM 50251,IMET 10620,JCM 5833,LMG 6031,LMG 8910,LMG 8911,NCIB 9681,NCTC 10683,NCTC 10859,NCIMB 9681,ACM 489,IAM 12409,CIP 103021,IFO 14950,JCM 6203,CCRC 14819,LMD 26.37,LMD 84.19,CFBP 2444,NCTC 1085,VTT E-86250,KCTC 2991,NBRC 14950,NCCB 26037,NCCB 84019,BCRC 14819,CBMAI 692,CBMAI 693,NCIM 2861,CDBB 583,CGMCC 1.3363

@ref 20215

Last LPSN update 2026-05-29 08:25:35

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Comamonadaceae

Genus Delftia

Species Delftia acidovorans

Full scientific name Delftia acidovorans (den Dooren de Jong 1926) Wen et al. 1999

Synonyms (2)

Comamonas acidovorans
Pseudomonas acidovorans

BacDive ID	Other strains from **Delftia acidovorans** (46)	Type strain
2940	D. acidovorans D, DSM 1621
2944	D. acidovorans SPB1, DSM 12586
2945	D. acidovorans SPH-1, DSM 14801
2946	D. acidovorans NAT, DSM 17854
2947	D. acidovorans 4B, DSM 50053, ATCC 17406, ICPB 2701-24, ...
2948	D. acidovorans RYS-4, DSM 50057, ICPB 2785-105
134419	D. acidovorans CIP 103685, ATCC 43868
134786	D. acidovorans CIP 64.36, ATCC 9355, CCM 283, LMG 1801, ...
134909	D. acidovorans CIP 102740
136064	D. acidovorans 211-86, CIP 102239
138467	D. acidovorans CIP 60.79, ATCC 17438, LMG 5931, NCTC 9991, ...
138496	D. acidovorans CIP 60.78, ATCC 17439, NBIMCC 508
138679	D. acidovorans CIP 101917
141204	D. acidovorans CCUG 178 B, LMG 7097
141230	D. acidovorans CCUG 274 B, LMG 7098
141422	D. acidovorans CCUG 1686
141508	D. acidovorans CCUG 2485, LMG 1795
141519	D. acidovorans CCUG 2523, NRRL B-979, NCTC 2578
142852	D. acidovorans CCUG 15338, NCPPB 1968, ATCC 15005, JCM 6207, ...
144259	D. acidovorans CCUG 24015, LMG 2842
145983	D. acidovorans CCUG 30088
146359	D. acidovorans CCUG 31021
146866	D. acidovorans CCUG 32317
147311	D. acidovorans CCUG 33351
147452	D. acidovorans CCUG 33603
148063	D. acidovorans CCUG 34751
149688	D. acidovorans CCUG 38188 B
150058	D. acidovorans CCUG 38929
152266	D. acidovorans CCUG 46253
152274	D. acidovorans CCUG 46300
154626	D. acidovorans CCUG 54618
154717	D. acidovorans CCUG 54958
155020	D. acidovorans CCUG 56121
156752	D. acidovorans CCUG 64810
157329	D. acidovorans IMI 366616
160893	D. acidovorans JCM 10181
163415	D. acidovorans JCM 2784
165362	D. acidovorans JCM 6208, IAM 14412
165365	D. acidovorans JCM 6211, IAM 14413
165366	D. acidovorans JCM 6212, IAM 14414
165367	D. acidovorans JCM 6213, IAM 14415
165368	D. acidovorans JCM 6214, IAM 14416, IAM 1461
165369	D. acidovorans JCM 6215, IAM 14417, IAM 1482
165370	D. acidovorans JCM 6216, IAM 1492
165371	D. acidovorans JCM 6217, IAM 14418
165378	D. acidovorans JCM 6232

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	97

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
2038	REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)	Medium recipe at MediaDive	Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
40510	MEDIUM 3 - Columbia agar		Columbia agar (39.000 g);distilled water (1000.000 ml)
116024	CIP Medium 3	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
2038	positive	growth	30
40510	positive	growth	30
67770	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	facultative anaerobe	92.015

Spore formation

@ref	Spore formation	Confidence
125439		97.552

Observation

67770

Observationquinones: Q-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	+	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
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
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
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
68369	17632 ChEBI	nitrate	+	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
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
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
68369	gelatinase	-		from API 20NE
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
2038	+	-	-	-	-	-	-	-	-	-	-	+	-	-	+	-	+	+	-	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	-	-
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type
2038	soil enriched with acetamide
67770	Soil enriched with acetamide
116024	Environment, Soil enriched with acetamide

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
2038	yes, in single cases	1	Risk group (German classification) According to TRBA 466
116024		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	ASM1612741v1 assembly for Delftia acidovorans FDAARGOS_997	complete	GCA_016127415	80866.56		80866	94.59
66792	ASM74182v1 assembly for Delftia acidovorans 2167	scaffold	GCA_000741825		2609460141	80866	73.78
67770	ASM159879v1 assembly for Delftia acidovorans NBRC 14950	contig	GCA_001598795	1218107.6	2731957715	1218107	58.53

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Delftia acidovorans 16S ribosomal RNA gene, partial sequence	AF078774	1520	80866
20218	Delftia acidovorans strain BCRC 14819 16S-23S ribosomal RNA intergenic spacer, complete sequence	EU014532	668	80866
20218	C.acidovorans 16S rRNA	X59168	158	80866
20218	Delftia acidovorans gene for 16S rRNA, strain: IAM 12409	AB021417	1522	80866
20218	Delftia acidovorans strain LMG 1226 16S ribosomal RNA gene, partial sequence	EU024145	1318	80866
20218	Delftia acidovorans gene for 16S rRNA, partial sequence, strain: NBRC 14950	AB680719	1458	80866
124043	Delftia acidovorans JCM 5833 gene for 16S ribosomal RNA, partial sequence.	LC462156	1455	80866

GC content

@ref	GC-content (mol%)	Method
2038	66.6	thermal denaturation, midpoint method (Tm)
67770	67.1	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1612741v1 assembly for Delftia acidovorans FDAARGOS_997
NCBI: GCA_016127415

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	92.02	no
125439	gram_stain	BacteriaNetⓘ	negative	82.96	no
125439	motility	BacteriaNetⓘ	yes	72.51	no
125439	spore_formation	BacteriaNetⓘ	no	97.55	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Delftia acidovorans NBRC 14950
PATRIC: 1218107.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.00	no
125438	anaerobic	anaerobicⓘ	no	97.38	no
125438	spore-forming	spore-formingⓘ	no	86.86	no
125438	aerobic	aerobicⓘ	yes	87.94	no
125438	thermophilic	thermophileⓘ	no	96.94	yes
125438	flagellated	motile2+ⓘ	yes	81.86	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genomic analysis of siderophore beta-hydroxylases reveals divergent stereocontrol and expands the condensation domain family.	Reitz ZL, Hardy CD, Suk J, Bouvet J, Butler A.	Proc Natl Acad Sci U S A	10.1073/pnas.1903161116	2019
Phylogeny	Evaluation of matrix-assisted laser desorption ionization-time-of-flight mass spectrometry in comparison to 16S rRNA gene sequencing for species identification of nonfermenting bacteria.	Mellmann A, Cloud J, Maier T, Keckevoet U, Ramminger I, Iwen P, Dunn J, Hall G, Wilson D, Lasala P, Kostrzewa M, Harmsen D.	J Clin Microbiol	10.1128/jcm.00157-08	2008
Genetics	Complete genome sequence of the phenanthrene-degrading soil bacterium Delftia acidovorans Cs1-4.	Shetty AR, de Gannes V, Obi CC, Lucas S, Lapidus A, Cheng JF, Goodwin LA, Pitluck S, Peters L, Mikhailova N, Teshima H, Han C, Tapia R, Land M, Hauser LJ, Kyrpides N, Ivanova N, Pagani I, Chain PS, Denef VJ, Woyke T, Hickey WJ.	Stand Genomic Sci	10.1186/s40793-015-0041-x	2015
Metabolism	Role of IncP-1beta plasmids pWDL7::rfp and pNB8c in chloroaniline catabolism as determined by genomic and functional analyses.	Krol JE, Penrod JT, McCaslin H, Rogers LM, Yano H, Stancik AD, Dejonghe W, Brown CJ, Parales RE, Wuertz S, Top EM.	Appl Environ Microbiol	10.1128/aem.07480-11	2012
Pathogenicity	A biofilm model developed to investigate survival and disinfection of Mycobacterium mucogenicum in potable water.	Armbruster CR, Forster TS, Donlan RM, O'Connell HA, Shams AM, Williams MM.	Biofouling	10.1080/08927014.2012.735231	2012
Enzymology	Design and evaluation of 16S rRNA sequence based oligonucleotide probes for the detection and quantification of Comamonas testosteroni in mixed microbial communities.	Bathe S, Hausner M.	BMC Microbiol	10.1186/1471-2180-6-54	2006
	The Roman Houses of the Caelian Hill (Rome, Italy): Multitemporal Evaluation of Biodeterioration Patterns.	Isola D, Bartoli F, Morretta S, Caneva G.	Microorganisms	10.3390/microorganisms11071770	2023
	Paenibacillus larvae-Directed Bacteriophage HB10c2 and Its Application in American Foulbrood-Affected Honey Bee Larvae.	Beims H, Wittmann J, Bunk B, Sproer C, Rohde C, Gunther G, Rohde M, von der Ohe W, Steinert M.	Appl Environ Microbiol	10.1128/aem.00804-15	2015
Genetics	Characterization and Genomic Analysis of the Naphthalene-Degrading Delftia tsuruhatensis ULwDis3 Isolated from Seawater.	Sazonova OI, Ivanova AA, Delegan YA, Streletskii RA, Vershinina DD, Sokolov SL, Vetrova AA.	Microorganisms	10.3390/microorganisms11041092	2023
Metabolism	Delftia sp. LCW, a strain isolated from a constructed wetland shows novel properties for dimethylphenol isomers degradation.	Vasquez-Pineros MA, Martinez-Lavanchy PM, Jehmlich N, Pieper DH, Rincon CA, Harms H, Junca H, Heipieper HJ.	BMC Microbiol	10.1186/s12866-018-1255-z	2018
	Polyphasic characterization of Delftia acidovorans ESM-1, a facultative methylotrophic bacterium isolated from rhizosphere of Eruca sativa.	Khalifa AYZ, AlMalki M	Saudi J Biol Sci	10.1016/j.sjbs.2018.05.015	2018
Metabolism	Nuclease expression in efficient polyhydroxyalkanoates-producing bacteria could yield cost reduction during downstream processing.	Rodriguez Gamero JE, Favaro L, Pizzocchero V, Lomolino G, Basaglia M, Casella S	Bioresour Technol	10.1016/j.biortech.2018.04.021	2018
	Draft Genome Assembly of Delftia acidovorans Type Strain 2167.	Davenport KW, Daligault HE, Minogue TD, Bishop-Lilly KA, Bruce DC, Chain PS, Coyne SR, Frey KG, Jaissle J, Koroleva GI, Ladner JT, Palacios GF, Redden CL, Scholz MB, Teshima H, Johnson SL	Genome Announc	10.1128/genomeA.00917-14	2014
Metabolism	Engineering Delftia acidovorans DSM39 to produce polyhydroxyalkanoates from slaughterhouse waste.	Romanelli MG, Povolo S, Favaro L, Fontana F, Basaglia M, Casella S	Int J Biol Macromol	10.1016/j.ijbiomac.2014.03.049	2014
Phylogeny	Phylogenetic relationships among members of the Comamonadaceae, and description of Delftia acidovorans (den Dooren de Jong 1926 and Tamaoka et al. 1987) gen. nov., comb. nov.	Wen A, Fegan M, Hayward C, Chakraborty S, Sly LI	Int J Syst Bacteriol	10.1099/00207713-49-2-567	1999
Phylogeny	Phenylalanine hydroxylase and isozymes of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase in relationship to the phylogenetic position of Pseudomonas acidovorans (Ps. sp. ATCC 11299a).	Berry A, Johnson JL, Jensen RA	Arch Microbiol	10.1007/BF00446736	1985
Phylogeny	Delftia deserti sp. nov., isolated from a desert soil sample.	Li CT, Yan ZF, Chu X, Hussain F, Xian WD, Yunus Z, Hozzein WN, Abaydulla G, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-015-0440-4	2015
Phylogeny	Delftia litopenaei sp. nov., a poly-beta-hydroxybutyrate-accumulating bacterium isolated from a freshwater shrimp culture pond.	Chen WM, Lin YS, Sheu DS, Sheu SY	Int J Syst Evol Microbiol	10.1099/ijs.0.037507-0	2011
Phylogeny	Delftia tsuruhatensis sp. nov., a terephthalate-assimilating bacterium isolated from activated sludge.	Shigematsu T, Yumihara K, Ueda Y, Numaguchi M, Morimura S, Kida K	Int J Syst Evol Microbiol	10.1099/ijs.0.02285-0	2003

References

#2038	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 39
#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 )
#20216	Curators of the JMRC: Jena Microbial Resource Collection (JMRC):
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#40510	; 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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68369	Automatically annotated from API 20NE .
#116024	Collection of Institut Pasteur ; Curators of the CIP; CIP 103021
#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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Delftia acidovorans (DSM 39, ATCC 15668, DSM 50251)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_016127415

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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