Name: Nocardiopsis listeri 203
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11175

Type strain:

Species: Nocardiopsis listeri

Strain Designation: 203

Culture col. no.: DSM 40297, ATCC 27442, CBS 661.72, CGMCC AS 4.1445, IFO 13360, ISP 5297, KCC S-0782, NBRC 13360, NCTC 434, PCM 2491, RIA 1321, JCM 4782, BCRC 15134, CGMCC 4.1445, CGMCC 4.2110, NRRL B-2782, VKM Ac-1881

Strain history: KCC S-0782 <-- IFO 13360 <-- SAJ <-- ISP 5297 <-- NCTC 434 <-- D. Erikson.

NCBI tax ID(s): 1348637 (strain), 53440 (species)

SI-ID 13392

LMG 19405, ATCC 27442, DSM 40297, IFO 13360, JCM 4782, NCTC 434, NRRL B-2782, VKM Ac-1881, CBS 661.72, NBRC 13360, AS 4.1445, BCRC 15134, CCRC 15134, CGMCC 4.2110, CGMCC 4.1445

Section

Nocardiopsis listeri 203 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from human clinical isolate.

Gram-positive
spore-forming
mesophilic
16S sequence
Bacteria
genome sequence

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	*Streptosporangiales*
	Family	*Nocardiopsidaceae*
	Genus	*Nocardiopsis*
	Species	**Nocardiopsis listeri**
	Full Scientific Name (LPSN)	Nocardiopsis listeri Grund and Kroppenstedt 1990

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #19434]	Colony color	Ivory
[Ref.: #19434]	Incubation period	10-14 days
[Ref.: #19434]	Cultivation medium used	ISP 2

[Ref.: #19434]	Colony color	Ivory
[Ref.: #19434]	Incubation period	10-14 days
[Ref.: #19434]	Cultivation medium used	ISP 3

[Ref.: #19434]	Colony color	Ivory
[Ref.: #19434]	Incubation period	10-14 days
[Ref.: #19434]	Cultivation medium used	ISP 4

[Ref.: #19434]	Colony color	Ivory
[Ref.: #19434]	Incubation period	10-14 days
[Ref.: #19434]	Cultivation medium used	ISP 5

[Ref.: #19434]	Colony color	Ivory
[Ref.: #19434]	Incubation period	10-14 days
[Ref.: #19434]	Cultivation medium used	ISP 6

[Ref.: #19434]	Colony color	Ivory
[Ref.: #19434]	Incubation period	10-14 days
[Ref.: #19434]	Cultivation medium used	ISP 7

[Ref.: #19434]	Multicellular complex forming ability	no
[Ref.: #19434]	Medium Name (multicellularity)	ISP 2

[Ref.: #19434]	Multicellular complex forming ability	no
[Ref.: #19434]	Medium Name (multicellularity)	ISP 3

[Ref.: #19434]	Multicellular complex forming ability	no
[Ref.: #19434]	Medium Name (multicellularity)	ISP 4

[Ref.: #19434]	Multicellular complex forming ability	no
[Ref.: #19434]	Medium Name (multicellularity)	ISP 5

[Ref.: #19434]	Multicellular complex forming ability	no
[Ref.: #19434]	Medium Name (multicellularity)	ISP 6

[Ref.: #19434]	Multicellular complex forming ability	no
[Ref.: #19434]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9441]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #9441]

Culture medium growth

[Ref.: #9441]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9441]

Culture medium composition

expand / minimize

[Ref.: #19434]

Culture medium

ISP 2

[Ref.: #19434]

Culture medium growth

[Ref.: #19434]

Culture medium composition

expand / minimize

[Ref.: #19434]

Culture medium

ISP 3

[Ref.: #19434]

Culture medium growth

[Ref.: #19434]

Culture medium composition

expand / minimize

[Ref.: #19434]

Culture medium

ISP 4

[Ref.: #19434]

Culture medium growth

[Ref.: #19434]

Culture medium composition

expand / minimize

[Ref.: #19434]

Culture medium

ISP 5

[Ref.: #19434]

Culture medium growth

[Ref.: #19434]

Culture medium composition

expand / minimize

[Ref.: #19434]

Culture medium

ISP 6

[Ref.: #19434]

Culture medium growth

[Ref.: #19434]

Culture medium composition

expand / minimize

[Ref.: #19434]

Culture medium

ISP 7

[Ref.: #19434]

Culture medium growth

[Ref.: #19434]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #9441]			growth	28 °C
[Ref.: #67770]			growth	28 °C

[Ref.: #9441]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Ability of spore formation

yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #19434]		NaCl		maximum	10	%

[Ref.: #67770]

Observation

quinones: MK-10, MK-10(H₂)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #68368]	gelatin ChEBI	+	hydrolysis	* from API 20E
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	-	hydrolysis	* from API 20E

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	yes	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	no	* from API 20E

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

	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
[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
[Ref.: #68382]	alpha-mannosidase	+	3.2.1.24	* from API zym
[Ref.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E, API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[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.: #68368]	gelatinase	+		* from API 20E
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68368]	urease	-	3.5.1.5	* from API 20E
[Ref.: #68382]	valine arylamidase	+		* from API zym
	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.: #19434]	297	+	-	-	-	-	-	-	-	-	+	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	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.: #19434]	357	not determinedn.d.	+	+	+	-	+	+	-	+	+	+	+	+	+	-	+	+	+	+	-

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

[Ref.: #9441]	Sample type/isolated from	human clinical isolate

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

Isolation sources categories

#Host	#Human	-
#Infection	#Patient	-
#Infection	#Medical environment	#Clinic
#Infection	#Patient	#Specimen

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence X97887 (>99% sequence identity) for Nocardiopsis listeri subclade from Microbeatlas

Aquatic Samples	41
Soil Samples	55
Animal Samples	365
Plant Samples	8
Total Samples	469

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

[Ref.: #9441]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #19434]	Biosafety level	1	Risk group (German classification)

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.: #20218]	N.listeri 16S rRNA gene	X97887	1463	ENA	53440 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Nocardiopsis listeri NBRC 13360	GCA_001570765	contig	GenBank	1348637 tax ID
[Ref.: #66792]	Nocardiopsis listeri NBRC 13360	1348637.3	wgs	PATRIC	1348637 tax ID	*
[Ref.: #66792]	Nocardiopsis listeri NBRC 13360	2731957603	draft	JGI IMG/M	1348637 tax ID	*

[Ref.: #67770]

GC-content

68.9 mol%

genome sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Nocardiopsis listeri NBRC 13360 PATRIC: 1348637.3
[Ref.: #69481]	spore-forming	yes	82	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nocardiopsis listeri NBRC 13360 PATRIC: 1348637.3
[Ref.: #69480]	motile	no	91.583	no
[Ref.: #69480]	gram-positive	yes	91.673	no
[Ref.: #69480]	anaerobic	no	99.257	no
[Ref.: #69480]	halophile	yes	75.437	no
[Ref.: #69480]	spore-forming	yes	92.651	no
[Ref.: #69480]	thermophile	no	97.631	no
[Ref.: #69480]	glucose-util	yes	88.996	no
[Ref.: #69480]	aerobic	yes	94.057	no
[Ref.: #69480]	flagellated	no	97.598	no
[Ref.: #69480]	glucose-ferment	no	90.356	no

Availability in culture collections External links

[Ref.: #9441]

Culture collection no.

DSM 40297, ATCC 27442, CBS 661.72, CGMCC AS 4.1445, IFO 13360, ISP 5297, KCC S-0782, NBRC 13360, NCTC 434, PCM 2491, RIA 1321, JCM 4782, BCRC 15134, CGMCC 4.1445, CGMCC 4.2110, NRRL B-2782, VKM Ac-1881

[Ref.: #80424]

SI-ID 13392

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Teichoic acids of the cell wall of Nocardiopsis listeri, Nocardiopsis lucentensis, and Nocardiopsis tregalosei.	Streshinskaya GM, Tul'skaya EM, Shashkov AS, Evtushenko LI, Taran VV, Naumova IB	Biochemistry (Mosc)		1998	*

References

#9441

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40297

#19434

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 )

#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 .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#80424

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-ID13392.1 )

* These data were automatically processed and therefore are not curated

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Nocardiopsis listeri NBRC 13360

Nocardiopsis listeri NBRC 13360

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