Name: Nocardioides perillae I10A-0142
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23164

Type strain:

Species: Nocardioides perillae

Strain Designation: I10A-0142, I10A-01402

Culture col. no.: DSM 24552, CPCC 203382, KCTC 29022

Strain history: <- YQ Zhang, IMB, CAMS & Peking Union Medical College, China

NCBI tax ID(s): 1119534 (species)

SI-ID 407428

DSM 24552

Section

Nocardioides perillae I10A-0142 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from From root of 'Perilla frutescens' Britt. var.' frutescens'.

Gram-positive
motile
rod-shaped
aerobe
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	*Propionibacteriales*
	Family	*Nocardioidaceae*
	Genus	*Nocardioides*
	Species	**Nocardioides perillae**
	Full Scientific Name (LPSN)	Nocardioides perillae Du et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30810]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %99.999

[Ref.: #30810]	Cell length	1.65 µm

[Ref.: #30810]	Cell width	0.75 µm

[Ref.: #30810]	Cell shape	rod-shaped

[Ref.: #30810]	Motility	yes

[Ref.: #30810]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #19254]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #19254]

Culture medium growth

[Ref.: #19254]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19254]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #19254]	growth	28 °C
[Ref.: #30810]	growth	20-37 °C
[Ref.: #30810]	optimum	32 °C
[Ref.: #67771]	growth	28 °C

[Ref.: #19254]	Temperature range	mesophilic
[Ref.: #30810]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30810]			optimum	8
[Ref.: #30810]			growth	06-11

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30810]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.924

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30810]		NaCl		growth	0-3	%

[Ref.: #67771]

Observation

quinones: MK-8(H4)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30810]	acetate ChEBI	+	carbon source
[Ref.: #30810]	alanine ChEBI	+	carbon source
[Ref.: #30810]	arginine ChEBI	+	carbon source
[Ref.: #30810]	aspartate ChEBI	+	carbon source
[Ref.: #30810]	cellobiose ChEBI	+	carbon source
[Ref.: #30810]	dextrin ChEBI	+	carbon source
[Ref.: #30810]	fructose ChEBI	+	carbon source
[Ref.: #30810]	galactose ChEBI	+	carbon source
[Ref.: #30810]	galacturonate ChEBI	+	carbon source
[Ref.: #30810]	gluconate ChEBI	+	carbon source
[Ref.: #30810]	glucose ChEBI	+	carbon source
[Ref.: #30810]	glucuronamide ChEBI	+	carbon source
[Ref.: #30810]	L-arabitol ChEBI	+	carbon source
[Ref.: #30810]	malate ChEBI	+	carbon source
[Ref.: #30810]	maltose ChEBI	+	carbon source
[Ref.: #30810]	mannose ChEBI	+	carbon source
[Ref.: #30810]	melibiose ChEBI	+	carbon source
[Ref.: #30810]	proline ChEBI	+	carbon source
[Ref.: #30810]	propionate ChEBI	+	carbon source
[Ref.: #30810]	quinate ChEBI	+	carbon source
[Ref.: #30810]	raffinose ChEBI	+	carbon source
[Ref.: #30810]	serine ChEBI	+	carbon source
[Ref.: #30810]	sucrose ChEBI	+	carbon source
[Ref.: #30810]	trehalose ChEBI	+	carbon source
[Ref.: #30810]	tween 40 ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #30810]	acid phosphatase	+	3.1.3.2
[Ref.: #30810]	alkaline phosphatase	+	3.1.3.1
[Ref.: #30810]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #67771]	Sample type/isolated from	From root of 'Perilla frutescens' (Linn.) Britt. var.' frutescens'
[Ref.: #67771]	Geographic location (country and/or sea, region)	Beijing
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia

[Ref.: #19254]	Sample type/isolated from	surface-sterilized roots of Perilla frutescens (L.) Britt. var. frutescens
[Ref.: #19254]	Host species	Perilla frutescens
[Ref.: #19254]	Geographic location (country and/or sea, region)	suburb of Beijing
[Ref.: #19254]	Country	China
[Ref.: #19254]	Country ISO 3 Code	CHN
[Ref.: #19254]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

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

[Ref.: #19254]

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.: #19254]	Nocardioides perillae strain I10A-01402 16S ribosomal RNA gene, partial sequence	JN869461	1454	ENA	1119534 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Nocardioides perillae DSM 24552	GCA_013409425	contig	GenBank	1119534 tax ID	*
[Ref.: #66792]	Nocardioides perillae strain DSM 24552	1119534.3	wgs	PATRIC	1119534 tax ID	*
[Ref.: #66792]	Nocardioides perillae DSM 24552	2844622285	draft	JGI IMG/M	1119534 tax ID	*

[Ref.: #19254]	GC-content	70.4 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #30810]	GC-content	70.4 mol%

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: Nocardioides perillae strain DSM 24552 PATRIC: 1119534.3
[Ref.: #69481]	spore-forming	no	68	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nocardioides perillae strain DSM 24552 PATRIC: 1119534.3
[Ref.: #69480]	motile	no	73.324	no
[Ref.: #69480]	flagellated	no	93.485	no
[Ref.: #69480]	gram-positive	yes	92.797	yes
[Ref.: #69480]	anaerobic	no	97.401	yes
[Ref.: #69480]	aerobic	yes	92.039	yes
[Ref.: #69480]	halophile	no	91.168	no
[Ref.: #69480]	spore-forming	no	90.977	no
[Ref.: #69480]	thermophile	no	97.77	no
[Ref.: #69480]	glucose-util	yes	87.043	no
[Ref.: #69480]	glucose-ferment	no	89.748	no

Availability in culture collections External links

[Ref.: #19254]

Culture collection no.

DSM 24552, CPCC 203382, KCTC 29022

[Ref.: #87398]

SI-ID 407428

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardioides perillae sp. nov., isolated from surface-sterilized roots of Perilla frutescens.	Du HJ, Wei YZ, Su J, Liu HY, Ma BP, Guo BL, Zhang YQ, Yu LY	Int J Syst Evol Microbiol	10.1099/ijs.0.044982-0	2012	*

References

#19254

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24552

#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 )

#30810

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 #27141 (see below)

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

#87398

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-ID407428.1 )

#27141

IJSEM 1068 2013 ( DOI 10.1099/ijs.0.044982-0 , PubMed 22707530 )

* These data were automatically processed and therefore are not curated

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Nocardioides perillae strain DSM 24552

Nocardioides perillae strain DSM 24552

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