Name: Achromobacter denitrificans 12
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 318

Type strain:

Species: Achromobacter denitrificans

Strain Designation: 12, 55B

Culture col. no.: DSM 30026, ATCC 15173, NCTC 8582, CCUG 407, LMG 1231, CIP 77.15, JCM 5490, LMG 3510, CECT 449, BCRC 12838, BCRC 14342, CCM 3427, CGMCC 1.1800, IAM 12370, IFO 15125, JCM 9657, NBRC 15125, NCIMB 11961, VTT E-991293

Strain history: Y. Kosako 85022 <-- Nissui Pharm. Co., Ltd. <-- ATCC 15173 <-- R. Hugh 12 <-- L. R. Fredrich 55B.

NCBI tax ID(s): 1255278 (strain), 32002 (species)

Other strains from Achromobacter denitrificans

Section

Achromobacter denitrificans 12 is a mesophilic bacterium that was isolated from soil.

mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Alcaligenaceae*
	Genus	*Achromobacter*
	Species	**Achromobacter denitrificans**
	Full Scientific Name (LPSN)	Achromobacter denitrificans (Rüger and Tan 1983) Coenye et al. 2003

	Synonym	Alcaligenes denitrificans
	Synonym	Alcaligenes xylosoxidans subsp. denitrificans
	Synonym	Achromobacter xylosoxidans subsp. denitrificans

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9090]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #9090]

Culture medium growth

[Ref.: #9090]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9090]

Culture medium composition

expand / minimize

[Ref.: #68368]

Culture medium

MacConkey medium * from API 20E

[Ref.: #68368]

Culture medium growth

* from API 20E

	Temperatures	Kind of temperature		Temperature
[Ref.: #9090]			growth	30 °C
[Ref.: #67770]			growth	24 °C

[Ref.: #9090]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	psychrophilic

Information on physiology and metabolism Physiology and metabolism

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	amygdalin ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	arginine ChEBI	-	hydrolysis	* from API ID32E
[Ref.: #68374]	cellobiose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #68374]	D-arabitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	D-galacturonic acid ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	D-glucose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	D-glucose ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	D-mannitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	D-mannitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68374]	L-arabinose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	L-arabinose ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	L-arabitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	L-rhamnose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	L-rhamnose ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	lysine ChEBI	-	degradation	* from API ID32E
[Ref.: #68374]	malonate ChEBI	-	assimilation	* from API ID32E
[Ref.: #68374]	maltose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	melibiose ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	myo-inositol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	myo-inositol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	nitrate ChEBI	+	reduction	* from API 20E
[Ref.: #68374]	ornithine ChEBI	-	degradation	* from API ID32E
[Ref.: #68374]	palatinose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	Potassium 5-ketogluconate ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	ribitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	sorbitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	sorbitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	sucrose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	sucrose ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	trehalose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	tryptophan ChEBI	-	energy source	* from API ID32E, API 20E
[Ref.: #68374]	urea ChEBI	-	hydrolysis	* from API ID32E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite
[Ref.: #68368]	acetoin ChEBI	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	* from API 20E
[Ref.: #68374]	indole ChEBI	* from API ID32E, API 20E
[Ref.: #68368]	nitrite ChEBI	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	+		* from API 20E
[Ref.: #68374]		indole ChEBI		-	* from API ID32E, API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68374]	alpha-galactosidase	-	3.2.1.22	* from API ID32E
[Ref.: #68374]	alpha-glucosidase	-	3.2.1.20	* from API ID32E
[Ref.: #68374]	alpha-maltosidase	-		* from API ID32E
[Ref.: #68374]	arginine dihydrolase	-	3.5.3.6	* from API ID32E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68374]	beta-galactosidase	-	3.2.1.23	* from API ID32E
[Ref.: #68374]	beta-glucosidase	-	3.2.1.21	* from API ID32E
[Ref.: #68374]	beta-glucuronidase	-	3.2.1.31	* from API ID32E
[Ref.: #68368]	cytochrome oxidase	+	1.9.3.1	* from API 20E
[Ref.: #68368]	gelatinase	-		* from API 20E
[Ref.: #68374]	L-aspartate arylamidase	+	3.4.11.21	* from API ID32E
[Ref.: #68374]	lipase	-		* from API ID32E
[Ref.: #68374]	lysine decarboxylase	-	4.1.1.18	* from API ID32E
[Ref.: #68374]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API ID32E
[Ref.: #68374]	ornithine decarboxylase	-	4.1.1.17	* from API ID32E
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68374]	urease	-	3.5.1.5	* from API ID32E
	Only first 10 entries are displayed. Click here to see all.

API® 20E:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #9090]	14258	+	+/-	+/-	+/-	+	-	+/-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	+	not determinedn.d.	not determinedn.d.	+	not determinedn.d.	not determinedn.d.

API® ID32E:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Ornithine decarboxylaseODC	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Urease/urea hydrolysisURE	Acid from L-arabitolLARL	Acid from D-galacturonic acidGAT	Acid from 5-Ketogluconate5KG	LipaseLIP	Phenol red (Acidification)RP	beta-Glucosidasebeta GLU	Acid from D-mannitolMAN	Acid from maltoseMAL	Acid from D-adonitolADO	Acid from palatinosePLE	beta-Glucuronidasebeta GUR	MalonateMNT	Indole productionIND	N-Acetyl-beta-Glucosaminidasebeta NAG	beta-Galactosidasebeta GAL	Acid from D-glucoseGLU	Acid from sucroseSAC	Acid from L-arabinoseLARA	Acid from D-arabitolDARL	alpha-Glucosidasealpha GLU	alpha-Galactosidasealpha GAL	Acid from trehaloseTRE	Acid from L-rhamnoseRHA	Acid from inositolINO	Acid from cellobioseCEL	Acid from sorbitolSOR	alpha-MaltosidasealphaMAL	L-aspartic acid arylamidaseAspA
[Ref.: #44188]	1500	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #9090]	Sample type/isolated from	soil

[Ref.: #44188]	Sample type/isolated from	Soil

[Ref.: #67770]	Sample type/isolated from	Soil
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #9090]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Citrus unshiu DNA, scaffold00817, cultivar: Miyagawa wase, whole genome shotgun sequence	M22467	75260	ENA	55188 tax ID
[Ref.: #20218]	A.xylosoxidans 16S ribosomal RNA, complete cds	M22509	1466	ENA	85698 tax ID	*
[Ref.: #20218]	Achromobacter denitrificans strain CCUG 407 16S ribosomal RNA gene, partial sequence	JQ746422	1309	ENA	32002 tax ID	*
[Ref.: #20218]	Achromobacter xylosoxidans subsp. denitrificans partial 16S rRNA gene, strain DSM 30026 (T)	AJ278451	1523	ENA	32002 tax ID	*
[Ref.: #20218]	Alcaligenes denitrificans 16S rRNA gene	Y14907	1489	ENA	32002 tax ID	*
[Ref.: #20218]	Achromobacter denitrificans gene for 16S rRNA, partial sequence, strain: NBRC 15125	AB680772	1456	ENA	32002 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Achromobacter denitrificans NBRC 15125 NBRC 15125	GCA_001571365	contig	GenBank	1255278 tax ID
[Ref.: #67770]	Achromobacter denitrificans LMG 1231	GCA_902859715	contig	GenBank	32002 tax ID
[Ref.: #66792]	Achromobacter denitrificans strain FDAARGOS_786 strain Not applicable	32002.39	complete	PATRIC	32002 tax ID	*
[Ref.: #66792]	Achromobacter denitrificans strain LMG 1231	32002.36	wgs	PATRIC	32002 tax ID	*
[Ref.: #66792]	Achromobacter denitrificans strain NCTC8582	32002.30	wgs	PATRIC	32002 tax ID	*
[Ref.: #66792]	Achromobacter denitrificans NBRC 15125	2731957627	draft	JGI IMG/M	1255278 tax ID	*

[Ref.: #67770]

GC-content

68.8-69.4 mol%

thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #9090]

Culture collection no.

DSM 30026, ATCC 15173, NCTC 8582, CCUG 407, LMG 1231, CIP 77.15, JCM 5490, LMG 3510, CECT 449, BCRC 12838, BCRC 14342, CCM 3427, CGMCC 1.1800, IAM 12370, IFO 15125, JCM 9657, NBRC 15125, NCIMB 11961, VTT E-991293

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Metabolism	A D-2-hydroxyglutarate biosensor based on specific transcriptional regulator DhdR.	Xiao D, Zhang W, Guo X, Liu Y, Hu C, Guo S, Kang Z, Xu X, Ma C, Gao C, Xu P	Nat Commun	10.1038/s41467-021-27357-7	2021	*
Phylogeny	Achromobacter veterisilvae sp. nov., from a mixed hydrogen-oxidizing bacteria enrichment reactor for microbial protein production.	Dumolin C, Peeters C, Ehsani E, Tahon G, De Canck E, Cnockaert M, Boon N, Vandamme P	Int J Syst Evol Microbiol	10.1099/ijsem.0.003786	2020	*
Phylogeny	Achromobacter sediminum sp. nov., isolated from deep subseafloor sediment of South Pacific Gyre.	Zhang Z, Fan X, Gao X, Zhang XH	Int J Syst Evol Microbiol	10.1099/ijs.0.062265-0	2014	*
Phylogeny	Pusillimonas ginsengisoli sp. nov., isolated from soil of a ginseng field.	Srinivasan S, Kim MK, Sathiyaraj G, Kim YJ, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.018358-0	2009	*
Phylogeny	Emendation of genus Achromobacter and Achromobacter xylosoxidans (Yabuuchi and Yano) and proposal of Achromobacter ruhlandii (Packer and Vishniac) comb. nov., Achromobacter piechaudii (Kiredjian et al.) comb. nov., and Achromobacter xylosoxidans subsp. denitrificans (Ruger and Tan) comb. nov.	Yabuuchi E, Kawamura Y, Kosako Y, Ezaki T	Microbiol Immunol	10.1111/j.1348-0421.1998.tb02306.x	1998	*
Enzymology	Evidence for two distinct azurins in Alcaligenes xylosoxidans (NCIMB 11015): potential electron donors to nitrite reductase.	Dodd FE, Hasnain SS, Hunter WN, Abraham ZH, Debenham M, Kanzler H, Eldridge M, Eady RR, Ambler RP, Smith BE	Biochemistry	10.1021/bi00032a011	1995	*
Enzymology	Structure of azurin from Achromobacter xylosoxidans NCIB11015 at 2.5 A resolution.	Inoue T, Shibata N, Nakanishi H, Koyama S, Ishii H, Kai Y, Harada S, Kasai N, Ohshiro Y, Suzuki S, et al.	J Biochem	10.1093/oxfordjournals.jbchem.a124661	1994	*
	Structure of a new azurin from the denitrifying bacterium Alcaligenes xylosoxidans at high resolution.	Dodd FE, Hasnain SS, Abraham ZH, Eady RR, Smith BE	Acta Crystallogr D Biol Crystallogr	10.1107/S0907444995007554	1995	*

References

#9090

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 30026

#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 )

#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 )

#44188 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 407

#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;

#68368

Automatically annotated from API 20E .

#68374

Automatically annotated from API ID32E .

* These data were automatically processed and therefore are not curated

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