Name: Yimella radicis py1292
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 132634

Type strain:

Species: Yimella radicis

Strain Designation: py1292

Culture col. no.: DSM 100721, KCTC 39612, LMG 29070, JCM 32439

Strain history: <- Shu-Kun Tang, Yunnan Univ.

NCBI tax ID(s): 1847819 (species)

SI-ID 407290

DSM 100721

Section

Yimella radicis py1292 is an aerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from surface-sterilized root of Paris polyphylla Smith var. yunnanensis.

colony-forming
Gram-positive
rod-shaped
aerobe
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	*Micrococcales*
	Family	*Dermacoccaceae*
	Genus	*Yimella*
	Species	**Yimella radicis**
	Full Scientific Name (LPSN)	Yimella radicis Yang et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #24900]	Gram stain	positive

[Ref.: #24900]	Cell shape	rod-shaped

[Ref.: #24900]	Colony size	0.5-1.5 mm
[Ref.: #24900]	Colony color	orange
[Ref.: #24900]	Colony shape	circular
[Ref.: #24900]	Incubation period	4 days
[Ref.: #24900]	Cultivation medium used	TSA

Information on culture and growth conditions Culture and growth conditions

[Ref.: #24900]

Culture medium

Trypticase Soy Agar (TSA)

[Ref.: #24900]

Culture medium growth

[Ref.: #24423]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #24423]

Culture medium growth

[Ref.: #24423]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24423]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #24423]	growth	28 °C
[Ref.: #24900]	growth	20-45 °C
[Ref.: #24900]	optimum	28 °C
[Ref.: #67770]	growth	28 °C
[Ref.: #67771]	growth	28 °C

[Ref.: #24423]	Temperature range	mesophilic
[Ref.: #24900]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #24900]			optimum	7
[Ref.: #24900]			growth	6.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #24900]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #24900]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #24900]		NaCl		growth	0-9.0	%
[Ref.: #24900]		NaCl		optimum	0-3.0	%

[Ref.: #67770]

Observation

quinones: MK-8(H₄)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #24900]	2-hydroxybutyrate ChEBI	+	respiration
[Ref.: #24900]	3-hydroxybutyrate ChEBI	+	respiration
[Ref.: #24900]	acetate ChEBI	+	respiration
[Ref.: #24900]	acetoacetate ChEBI	+	respiration
[Ref.: #24900]	cellulose ChEBI	-	hydrolysis
[Ref.: #24900]	D-galactonic acid lactone ChEBI	+	respiration
[Ref.: #24900]	dextrin ChEBI	+	respiration
[Ref.: #24900]	esculin ChEBI	+	hydrolysis
[Ref.: #24900]	esculin ChEBI	+	builds acid from
[Ref.: #24900]	formate ChEBI	+	respiration
[Ref.: #24900]	galactarate ChEBI	+	respiration
[Ref.: #24900]	gamma-aminobutyric acid ChEBI	+	respiration
[Ref.: #24900]	gelatin ChEBI	-	hydrolysis
[Ref.: #24900]	glucose ChEBI	-	fermentation
[Ref.: #24900]	L-glutamate ChEBI	+	respiration
[Ref.: #24900]	L-rhamnose ChEBI	+	respiration
[Ref.: #24900]	L-serine ChEBI	+	respiration
[Ref.: #24900]	maltose ChEBI	+	respiration
[Ref.: #24900]	melibiose ChEBI	+	respiration
[Ref.: #24900]	methyl (R)-lactate ChEBI	+	respiration
[Ref.: #24900]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from
[Ref.: #24900]	nitrate ChEBI	-	reduction
[Ref.: #24900]	propionate ChEBI	+	respiration
[Ref.: #24900]	raffinose ChEBI	+	builds acid from
[Ref.: #24900]	raffinose ChEBI	+	respiration
[Ref.: #24900]	starch ChEBI	+	hydrolysis
[Ref.: #24900]	sucrose ChEBI	+	respiration
[Ref.: #24900]	tryptophan ChEBI	-	energy source
[Ref.: #24900]	tween 20 ChEBI	-	hydrolysis
[Ref.: #24900]	tween 40 ChEBI	+	hydrolysis
[Ref.: #24900]	tween 60 ChEBI	+	hydrolysis
[Ref.: #24900]	tween 80 ChEBI	-	hydrolysis
[Ref.: #24900]	urea ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #24900]		indole ChEBI	no

	Physiological tests	Metabolite	Indole test
[Ref.: #24900]		indole ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #24900]	acid phosphatase	+	3.1.3.2
[Ref.: #24900]	alkaline phosphatase	+	3.1.3.1
[Ref.: #24900]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #24900]	alpha-fucosidase	-	3.2.1.51
[Ref.: #24900]	alpha-galactosidase	+	3.2.1.22
[Ref.: #24900]	alpha-glucosidase	+	3.2.1.20
[Ref.: #24900]	alpha-mannosidase	+	3.2.1.24
[Ref.: #24900]	beta-galactosidase	+	3.2.1.23
[Ref.: #24900]	beta-glucosidase	-	3.2.1.21
[Ref.: #24900]	beta-glucuronidase	-	3.2.1.31
[Ref.: #24900]	catalase	+	1.11.1.6
[Ref.: #24900]	cystine arylamidase	-	3.4.11.3
[Ref.: #24900]	cytochrome oxidase	+	1.9.3.1
[Ref.: #24900]	esterase (C 4)	+
[Ref.: #24900]	esterase lipase (C 8)	+
[Ref.: #24900]	leucine arylamidase	+	3.4.11.1
[Ref.: #24900]	lipase (C 14)	-
[Ref.: #24900]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #24900]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #24900]	trypsin	-	3.4.21.4
[Ref.: #24900]	tryptophan deaminase	-	4.1.99.1
[Ref.: #24900]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #24423]	Sample type/isolated from	surface-sterilized root of Paris polyphylla Smith var. yunnanensis
[Ref.: #24423]	Host species	Paris polyphylla Smith var. yunnanensis
[Ref.: #24423]	Geographic location (country and/or sea, region)	Yunnan Province, Zhongdian
[Ref.: #24423]	Country	China
[Ref.: #24423]	Country ISO 3 Code	CHN
[Ref.: #24423]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Surface-sterilized root of Paris polyphylla Smith var. yunnanensis
[Ref.: #67770]	Host species	Paris polyphylla
[Ref.: #67770]	Geographic location (country and/or sea, region)	Zhongdian, Yunnan Province, southwest China
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From the rhizome of `Paris polyphylla var.yunnanensis`
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	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.: #24423]

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.: #24423]	Yimella radicis strain py1292 16S ribosomal RNA gene, partial sequence	KU517232	1434	ENA	1847819 tax ID

[Ref.: #24900]	GC-content	65.5 mol%	high performance liquid chromatography (HPLC)
[Ref.: #24423]	GC-content	65.6 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #24423]

Culture collection no.

DSM 100721, KCTC 39612, LMG 29070, JCM 32439

[Ref.: #90948]

SI-ID 407290

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Yimella radicis sp. nov., an endophytic actinobacterium isolated from the root of Paris polyphylla Smith var. yunnanensis.	Yang LL, Jiang Z, Tang SK, Chu X, Xu LH, Zhi XY	Int J Syst Evol Microbiol	10.1099/ijsem.0.001334	2016	*

References

#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 )

#24423

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100721

#24900

L.-L. J. Yang, Zhao,Tang, Shu-Kun,Chu, Xiao,Xu, Li-Hua,Zhi, Xiao-Yang: Yimella radicis sp. nov., an endophytic actinobacterium isolated from the root of Paris polyphylla Smith var. yunnanensis. IJSEM 66: 4191 - 4196 2016 ( DOI 10.1099/ijsem.0.001334 , PubMed 27469463 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#90948

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-ID407290.1 )

* These data were automatically processed and therefore are not curated

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