Name: Dietzia cercidiphylli DSM 45140
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 4260

Type strain:

Species: Dietzia cercidiphylli

Culture col. no.: DSM 45140, CCTCC AA 207016, JCM 16002, YIM 65002

Strain history: DSM 45140 <-- S.-K. Tang YIM 65002 <-- J. Li.

NCBI tax ID(s): 498199 (species)

SI-ID 407580

DSM 45140

Section

Dietzia cercidiphylli DSM 45140 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from surface sterilized root sample of Cercidiphyllum japonicum.

Gram-positive
rod-shaped
aerobe
mesophilic
16S sequence
Bacteria

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Mycobacteriales*
	Family	*Dietziaceae*
	Genus	*Dietzia*
	Species	**Dietzia cercidiphylli**
	Full Scientific Name (LPSN)	Dietzia cercidiphylli Li et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #31198]	Gram stain	positive

[Ref.: #31198]	Cell shape	rod-shaped

[Ref.: #31198]	Motility	no

[Ref.: #19716]	Colony color	Pure orange
[Ref.: #19716]	Incubation period	10-14 days
[Ref.: #19716]	Cultivation medium used	ISP 2

[Ref.: #19716]	Colony color	Pure orange
[Ref.: #19716]	Incubation period	10-14 days
[Ref.: #19716]	Cultivation medium used	ISP 7

[Ref.: #19716]	Incubation period	10-14 days
[Ref.: #19716]	Cultivation medium used	ISP 3

[Ref.: #19716]	Incubation period	10-14 days
[Ref.: #19716]	Cultivation medium used	ISP 4

[Ref.: #19716]	Incubation period	10-14 days
[Ref.: #19716]	Cultivation medium used	ISP 5

[Ref.: #19716]	Incubation period	10-14 days
[Ref.: #19716]	Cultivation medium used	ISP 6

[Ref.: #31198]

Pigment production

yes

[Ref.: #19716]	Multicellular complex forming ability	no
[Ref.: #19716]	Medium Name (multicellularity)	ISP 2

[Ref.: #19716]	Multicellular complex forming ability	no
[Ref.: #19716]	Medium Name (multicellularity)	ISP 3

[Ref.: #19716]	Multicellular complex forming ability	no
[Ref.: #19716]	Medium Name (multicellularity)	ISP 4

[Ref.: #19716]	Multicellular complex forming ability	no
[Ref.: #19716]	Medium Name (multicellularity)	ISP 5

[Ref.: #19716]	Multicellular complex forming ability	no
[Ref.: #19716]	Medium Name (multicellularity)	ISP 6

[Ref.: #19716]	Multicellular complex forming ability	no
[Ref.: #19716]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #12384]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #12384]

Culture medium growth

[Ref.: #12384]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12384]

Culture medium composition

expand / minimize

[Ref.: #19716]

Culture medium

ISP 2

[Ref.: #19716]

Culture medium growth

[Ref.: #19716]

Culture medium composition

expand / minimize

[Ref.: #19716]

Culture medium

ISP 3

[Ref.: #19716]

Culture medium growth

[Ref.: #19716]

Culture medium composition

expand / minimize

[Ref.: #19716]

Culture medium

ISP 4

[Ref.: #19716]

Culture medium growth

[Ref.: #19716]

Culture medium composition

expand / minimize

[Ref.: #19716]

Culture medium

ISP 5

[Ref.: #19716]

Culture medium growth

[Ref.: #19716]

Culture medium composition

expand / minimize

[Ref.: #19716]

Culture medium

ISP 6

[Ref.: #19716]

Culture medium growth

[Ref.: #19716]

Culture medium composition

expand / minimize

[Ref.: #19716]

Culture medium

ISP 7

[Ref.: #19716]

Culture medium growth

[Ref.: #19716]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #12384]	growth	28 °C
[Ref.: #19716]	optimum	28 °C
[Ref.: #31198]	growth	10-37 °C
[Ref.: #31198]	optimum	28 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #12384]	Temperature range	mesophilic
[Ref.: #19716]	Temperature range	mesophilic
[Ref.: #31198]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31198]			optimum	7
[Ref.: #31198]			growth	06-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31198]

Oxygen tolerance

aerobe

[Ref.: #31198]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31198]		NaCl		growth	0-10	%
[Ref.: #31198]		NaCl		optimum	0-10	%

[Ref.: #31198]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-8(H₂)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31198]	arabinose ChEBI	+	carbon source
[Ref.: #68379]	D-glucose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	esculin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #31198]	fructose ChEBI	+	carbon source
[Ref.: #68379]	gelatin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #31198]	glucose ChEBI	+	carbon source
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #31198]	lactose ChEBI	+	carbon source
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #31198]	maltose ChEBI	+	carbon source
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #31198]	mannose ChEBI	+	carbon source
[Ref.: #68379]	nitrate ChEBI	-	reduction	* from API Coryne
[Ref.: #31198]	sucrose ChEBI	+	carbon source
[Ref.: #68379]	sucrose ChEBI	+	fermentation	* from API Coryne
[Ref.: #68379]	urea ChEBI	-	hydrolysis	* from API Coryne
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym, API Coryne
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym, API Coryne
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym, API Coryne
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68379]	beta-glucosidase	-	3.2.1.21	* from API Coryne
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym, API Coryne
[Ref.: #31198]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68379]	gelatinase	-		* from API Coryne
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym, API Coryne
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #68379]	pyrazinamidase	-	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API Coryne
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #31198]	urease	+	3.5.1.5
[Ref.: #68379]	urease	-	3.5.1.5	* from API Coryne
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® Coryne:

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

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #19716]	263	-	-	-	+	-	-	+	-	-	-	-	not determinedn.d.	-	-	-	-	-	-	+	-	not determinedn.d.

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #19716]	541	not determinedn.d.	+	+	+	-	+	-	-	-	-	+	-	-	-	-	+	+	-	-	-

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

[Ref.: #12384]	Sample type/isolated from	surface sterilized root sample of Cercidiphyllum japonicum
[Ref.: #12384]	Host species	Cercidiphyllum japonicum
[Ref.: #12384]	Geographic location (country and/or sea, region)	Yunnan Province
[Ref.: #12384]	Country	China
[Ref.: #12384]	Country ISO 3 Code	CHN
[Ref.: #12384]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Surface-sterilized root of Cercidiphyllum japonicum from Yunnan Province
[Ref.: #67770]	Host species	Cercidiphyllum japonicum
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Tree
#Host Body-Site	#Plant	#Root (Rhizome)
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HQ259255 (>99% sequence identity) for Dietzia from Microbeatlas

Aquatic Samples	1379
Soil Samples	321
Animal Samples	3158
Plant Samples	158
Total Samples	5016

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

[Ref.: #12384]

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:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #12384]	Dietzia cercidiphylli strain YIM 65002 16S ribosomal RNA gene, partial sequence	EU375846	1456	ENA	498199 tax ID
[Ref.: #20218]	Dietzia cercidiphylli culture-collection DSM:45140 16S ribosomal RNA gene, partial sequence	HQ259255	1439	ENA	498199 tax ID	*

[Ref.: #12384]	GC-content	72.6 mol%
[Ref.: #67770]	GC-content	72.6 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #12384]

Culture collection no.

DSM 45140, CCTCC AA 207016, JCM 16002, YIM 65002

[Ref.: #73755]

SI-ID 407580

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Dietzia schimae sp. nov. and Dietzia cercidiphylli sp. nov., from surface-sterilized plant tissues.	Li J, Zhao GZ, Zhang YQ, Klenk HP, Pukall R, Qin S, Xu LH, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.2008/000919-0	2008	*

References

#12384

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45140

#19716

Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#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 )

#31198

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 #27525 (see below)

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68379

Automatically annotated from API Coryne .

#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 .

#73755

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID407580.1 )

#27525

IJSEM 2549 2008 ( DOI 10.1099/ijs.0.2008/000919-0 , PubMed 18984691 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Dietzia cercidiphylli in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF