Name: Aldersonia kunmingensis DSM 45001
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11043

Type strain:

Species: Aldersonia kunmingensis

Culture col. no.: DSM 45001, KCTC 19149, YIM 45607, JCM 15626

Strain history: KCTC 19149 <-- W.-J. Li YIM 45607.

NCBI tax ID(s): 408066 (species)

SI-ID 294141

DSM 45001, KCTC 19149, JCM 15626

Section

Aldersonia kunmingensis DSM 45001 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from rhizosphere soil.

coccus-shaped
Gram-positive
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	*Mycobacteriales*
	Family	*Nocardiaceae*
	Genus	*Aldersonia*
	Species	**Aldersonia kunmingensis**
	Full Scientific Name (LPSN)	Aldersonia kunmingensis (Wang et al. 2008) Nouioui et al. 2018

Synonym

Rhodococcus kunmingensis

Information on morphological and physiological properties Morphology

[Ref.: #32550]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #32550]	Cell shape	coccus-shaped

[Ref.: #32550]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %93.741

[Ref.: #19901]	Colony color	Beige
[Ref.: #19901]	Incubation period	10-14 days
[Ref.: #19901]	Cultivation medium used	ISP 2

[Ref.: #19901]	Colony color	Traffic yellow
[Ref.: #19901]	Incubation period	10-14 days
[Ref.: #19901]	Cultivation medium used	ISP 3

[Ref.: #19901]	Colony color	Traffic yellow
[Ref.: #19901]	Incubation period	10-14 days
[Ref.: #19901]	Cultivation medium used	ISP 4

[Ref.: #19901]	Colony color	Traffic yellow
[Ref.: #19901]	Incubation period	10-14 days
[Ref.: #19901]	Cultivation medium used	ISP 5

[Ref.: #19901]	Colony color	Traffic yellow
[Ref.: #19901]	Incubation period	10-14 days
[Ref.: #19901]	Cultivation medium used	ISP 6

[Ref.: #19901]	Colony color	Traffic yellow
[Ref.: #19901]	Incubation period	10-14 days
[Ref.: #19901]	Cultivation medium used	ISP 7

[Ref.: #32550]

Pigment production

yes

[Ref.: #19901]	Multicellular complex forming ability	no
[Ref.: #19901]	Medium Name (multicellularity)	ISP 2

[Ref.: #19901]	Multicellular complex forming ability	no
[Ref.: #19901]	Medium Name (multicellularity)	ISP 3

[Ref.: #19901]	Multicellular complex forming ability	no
[Ref.: #19901]	Medium Name (multicellularity)	ISP 4

[Ref.: #19901]	Multicellular complex forming ability	no
[Ref.: #19901]	Medium Name (multicellularity)	ISP 5

[Ref.: #19901]	Multicellular complex forming ability	no
[Ref.: #19901]	Medium Name (multicellularity)	ISP 6

[Ref.: #19901]	Multicellular complex forming ability	no
[Ref.: #19901]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #12233]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #12233]

Culture medium growth

[Ref.: #12233]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12233]

Culture medium composition

expand / minimize

[Ref.: #19901]

Culture medium

ISP 2

[Ref.: #19901]

Culture medium growth

[Ref.: #19901]

Culture medium composition

expand / minimize

[Ref.: #19901]

Culture medium

ISP 3

[Ref.: #19901]

Culture medium growth

[Ref.: #19901]

Culture medium composition

expand / minimize

[Ref.: #19901]

Culture medium

ISP 4

[Ref.: #19901]

Culture medium growth

[Ref.: #19901]

Culture medium composition

expand / minimize

[Ref.: #19901]

Culture medium

ISP 5

[Ref.: #19901]

Culture medium growth

[Ref.: #19901]

Culture medium composition

expand / minimize

[Ref.: #19901]

Culture medium

ISP 6

[Ref.: #19901]

Culture medium growth

[Ref.: #19901]

Culture medium composition

expand / minimize

[Ref.: #19901]

Culture medium

ISP 7

[Ref.: #19901]

Culture medium growth

[Ref.: #19901]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #12233]	growth	28 °C
[Ref.: #19901]	optimum	28 °C
[Ref.: #32550]	growth	10-37 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #12233]	Temperature range	mesophilic
[Ref.: #19901]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32550]			growth	7-7.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32550]

Oxygen tolerance

aerobe

[Ref.: #32550]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %95
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.875

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32550]		NaCl		growth	<7	%

[Ref.: #67770]

Observation

quinones: MK-8(H₂)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32550]	arabinose ChEBI	+	carbon source
[Ref.: #68379]	D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #32550]	esculin ChEBI	+	hydrolysis
[Ref.: #32550]	fructose ChEBI	+	carbon source
[Ref.: #68379]	gelatin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #32550]	glucose ChEBI	+	carbon source
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #32550]	lactose ChEBI	+	carbon source
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #32550]	mannose ChEBI	+	carbon source
[Ref.: #32550]	melibiose ChEBI	+	carbon source
[Ref.: #32550]	nitrate ChEBI	+	reduction
[Ref.: #68379]	nitrate ChEBI	+	reduction	* from API Coryne
[Ref.: #32550]	raffinose ChEBI	+	carbon source
[Ref.: #32550]	trehalose ChEBI	+	carbon source
[Ref.: #32550]	xylitol ChEBI	+	carbon source
[Ref.: #32550]	xylose ChEBI	+	carbon source
	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]	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.: #68379]	alpha-glucosidase	+	3.2.1.20	* from API Coryne, API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68379]	beta-glucuronidase	-	3.2.1.31	* from API Coryne, API zym
[Ref.: #32550]	catalase	+	1.11.1.6
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #32550]	gelatinase	+
[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.: #68379]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API Coryne, API zym
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #32550]	urease	+	3.5.1.5
	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.: #19901]	368	+	+	+	+	-	+	+	-	+	+	-	not determinedn.d.	+	-	+	-	+	-	+	-	not determinedn.d.
[Ref.: #12233]	4259	+	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	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.: #19901]	713	not determinedn.d.	+	+	+	-	+	+	+	-	-	+	+	-	+	-	+	+	-	-	-
[Ref.: #12233]	14198	-	-	+/-	+	-	+	-	-	-	-	+	+/-	-	-	-	+	-	-	-	-

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

[Ref.: #12233]	Sample type/isolated from	rhizosphere soil
[Ref.: #12233]	Geographic location (country and/or sea, region)	Yunnan Province
[Ref.: #12233]	Country	China
[Ref.: #12233]	Country ISO 3 Code	CHN
[Ref.: #12233]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil from the rhizosphere of Taxus chinensis
[Ref.: #67770]	Host species	Taxus chinensis
[Ref.: #67770]	Geographic location (country and/or sea, region)	Kunming
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Host Body-Site	#Plant	#Rhizosphere
#Host	#Plants	-

What are isolation sources categories?

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

[Ref.: #12233]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #19901]	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.: #12233]	Rhodococcus kunmingensis strain YIM 45607 16S ribosomal RNA gene, partial sequence	DQ997045	1421	ENA	408066 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Aldersonia kunmingensis DSM 45001	GCA_001646865	contig	GenBank	408066 tax ID
[Ref.: #66792]	Rhodococcus kunmingensis strain DSM 45001	408066.4	wgs	PATRIC	408066 tax ID	*
[Ref.: #66792]	Rhodococcus kunmingensis DSM 45001	2744054611	draft	JGI IMG/M	408066 tax ID	*

[Ref.: #12233]	GC-content	64.9 mol%
[Ref.: #67770]	GC-content	66.2 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	64.9 mol%	high performance liquid chromatography (HPLC)

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: Rhodococcus kunmingensis strain DSM 45001 PATRIC: 408066.4
[Ref.: #69481]	spore-forming	no	95	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Rhodococcus kunmingensis strain DSM 45001 PATRIC: 408066.4
[Ref.: #69480]	gram-positive	yes	85.813	yes
[Ref.: #69480]	anaerobic	no	99.142	yes
[Ref.: #69480]	halophile	no	91.42	no
[Ref.: #69480]	spore-forming	no	80.746	yes
[Ref.: #69480]	glucose-util	yes	88.65	no
[Ref.: #69480]	aerobic	yes	88.492	yes
[Ref.: #69480]	flagellated	no	97.983	yes
[Ref.: #69480]	motile	no	94.007	yes
[Ref.: #69480]	thermophile	no	99.057	no
[Ref.: #69480]	glucose-ferment	no	91.981	no

Availability in culture collections External links

[Ref.: #12233]

Culture collection no.

DSM 45001, KCTC 19149, YIM 45607, JCM 15626

[Ref.: #80295]

SI-ID 294141

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rhodococcus agglutinans sp. nov., an actinobacterium isolated from a soil sample.	Guo QQ, Ming H, Meng XL, Duan YY, Gao R, Zhang JX, Huang JR, Li WJ, Nie GX	Antonie Van Leeuwenhoek	10.1007/s10482-015-0421-7	2015	*
Phylogeny	Rhodococcus soli sp. nov., an actinobacterium isolated from soil using a resuscitative technique.	Li SH, Yu XY, Park DJ, Hozzein WN, Kim CJ, Shu WS, Wadaan MA, Ding LX, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-014-0334-x	2014	*
Phylogeny	Rhodococcus kunmingensis sp. nov., an actinobacterium isolated from a rhizosphere soil.	Wang YX, Wang HB, Zhang YQ, Xu LH, Jiang CL, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65673-0	2008	*

References

#12233

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45001

#19901

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 )

#32550

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 #28768 (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) .

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

#68379

Automatically annotated from API Coryne .

#68382

Automatically annotated from API zym .

#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 )

#80295

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-ID294141.1 )

#28768

IJSEM 1467 2008 ( DOI 10.1099/ijs.0.65673-0 , PubMed 18523196 )

* These data were automatically processed and therefore are not curated

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Rhodococcus kunmingensis strain DSM 45001

Rhodococcus kunmingensis strain DSM 45001

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