Amycolatopsis panacis (DSM 105902, CCTCC AA 2017044, KCTC 49031)

Name: Amycolatopsis panacis (DSM 105902, CCTCC AA 2017044, KCTC 49031)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 159669

Type strain

Culture col. no. DSM 105902 CCTCC AA 2017044 KCTC 49031 YIM PH21725 JCM 33574

NCBI tax ID(s) 2340917

Special Collections DSMZ JCM KCTC Wink compendium Literature strains

History DSMZ <- L.-C. Li, Yunnan Institute of Microbiology, Yunnan University, P.R. China; YIM PH21725 KCTC <- Lin-Chao Li, Yunnan Institute of Microbiology JCM <-- CCTCC AA 2017044 <-- L.-X. Zhao; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM PH21725.

Links

Amycolatopsis panacis DSM 105902 is an aerobe, Gram-positive bacterium that was isolated from red clay.

Gram-positive aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 398881

KCTC 49031,DSM 105902

@ref 20215

Last LPSN update 2026-05-29 08:44:15

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Amycolatopsis

Species Amycolatopsis panacis

Full scientific name Amycolatopsis panacis Peng et al. 2019

Morphology

Cell morphology

67811

Gram stainpositive

Colony morphology

@ref	Colony color	Medium used
69293	Beige (1001)	ISP 2
69293	Light ivory (1015)	ISP 5
69293	Light ivory (1015)	ISP 7
69293	Light ivory (1015)	suter with tyrosine
69293	Light ivory (1015)	suter without tyrosine
69293	Oyster white (1013)	ISP 3
69293	Oyster white (1013)	ISP 4
69293	Sand yellow (1002)	ISP 6

Multicellular morphology

@ref	Complex name	Complex color	Medium name	Further description
67811		yellowish-white, yellowish-pink or yellow		Cells form well-developed aerial and substrate mycelia. Substrate mycelia are fragmented into long, rod-like elements (0.4-1.5 to 0.6-2.5 µm in size). Aerial and substrate mycelia present as yellowish-white, yellowish-pink or yellow, depending on the medium tested.
69293	Aerial mycelium	Cream (9001)	ISP 2
69293	Aerial mycelium	Signal white (9003)	ISP 3
69293	Aerial mycelium		ISP 4
69293	Aerial mycelium	Signal white (9003)	ISP 5
69293	Aerial mycelium		ISP 6
69293	Aerial mycelium	Signal white (9003)	ISP 7
69293	Aerial mycelium		suter with tyrosine
69293	Aerial mycelium		suter without tyrosine

Pigmentation

@ref	Production	Name
69293		melanin pigment
69293		soluble pigment

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
66520	N-Z-AMINE-MEDIUM (DSMZ Medium 554)		Medium recipe at MediaDive	Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
66520	positive	growth	28
67770	positive	growth	28
67771	positive	growth	28
67811	positive	growth	15-40
67811	positive	optimum	28

Culture pH

@ref	Ability	Type	PH	PH range
67811	positive	optimum	8
67811	positive	growth	5-13	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
67771	aerobe
67811	aerobe
125438	aerobe	90.798

Halophily

@ref	Salt	Growth	Tested relation	Concentration
67811	NaCl	positive	growth	0-3.5 %(w/v)
67811	NaCl	positive	optimum	0.5 %(w/v)
69293	NaCl	positive	growth	0-7.5 %

Observation

67770

Observationquinones: MK-9 (H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
67811	17925 ChEBI	alpha-D-glucose	+	carbon source
67811	36219 ChEBI	alpha-lactose	+	carbon source
69293	22599 ChEBI	arabinose	-	growth
67811	35391 ChEBI	aspartate	+	nitrogen source
67811	17057 ChEBI	cellobiose	+	builds acid from
67811	17057 ChEBI	cellobiose	+	carbon source
69293	62968 ChEBI	cellulose	-	growth
67811	15824 ChEBI	D-fructose	+	builds acid from
67811	15824 ChEBI	D-fructose	+	carbon source
67811	12936 ChEBI	D-galactose	+	carbon source
67811	17634 ChEBI	D-glucose	+	builds acid from
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
67811	16899 ChEBI	D-mannitol	-	builds acid from
67811	16899 ChEBI	D-mannitol	+	carbon source
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
67811	16024 ChEBI	D-mannose	+	builds acid from
67811	16024 ChEBI	D-mannose	+	carbon source
67811	16988 ChEBI	D-ribose	-	builds acid from
67811	16988 ChEBI	D-ribose	-	carbon source
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
67811	17924 ChEBI	D-sorbitol	+	carbon source
67811	16551 ChEBI	D-trehalose	+	carbon source
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
67811	23652 ChEBI	dextrin	+	assimilation
67811	91260 ChEBI	disodium malate	+	carbon source
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
69293	28757 ChEBI	fructose	+	growth
67811	5291 ChEBI	gelatin	-	hydrolysis
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
69293	17234 ChEBI	glucose	+	growth
67811	28300 ChEBI	glutamine	+	nitrogen source
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
67811	17368 ChEBI	hypoxanthine	+	hydrolysis
67811	16977 ChEBI	L-alanine	+	nitrogen source
67811	16467 ChEBI	L-arginine	+	nitrogen source
67811	17561 ChEBI	L-cysteine	+	nitrogen source
67811	17191 ChEBI	L-isoleucine	+	nitrogen source
67811	16643 ChEBI	L-methionine	+	nitrogen source
67811	17295 ChEBI	L-phenylalanine	+	nitrogen source
67811	62345 ChEBI	L-rhamnose	+	builds acid from
67811	62345 ChEBI	L-rhamnose	+	carbon source
67811	16414 ChEBI	L-valine	+	nitrogen source
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
67811	17306 ChEBI	maltose	+	builds acid from
67811	17306 ChEBI	maltose	+	carbon source
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
69293	37684 ChEBI	mannose	+	growth
67811	28053 ChEBI	melibiose	+	carbon source
67811		milk	-	assimilation
67811	17268 ChEBI	myo-inositol	-	builds acid from
67811	17268 ChEBI	myo-inositol	+	carbon source
69293	17268 ChEBI	myo-inositol	-	growth
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
67811	16634 ChEBI	raffinose	+	carbon source
69293	16634 ChEBI	raffinose	-	growth
69293	26546 ChEBI	rhamnose	-	growth
67811	17814 ChEBI	salicin	+	carbon source
67811	53258 ChEBI	sodium citrate	+	carbon source
67811	84997 ChEBI	sodium gluconate	+	carbon source
67811	28017 ChEBI	starch	+	hydrolysis
67811	17992 ChEBI	sucrose	+	carbon source
69293	17992 ChEBI	sucrose	-	growth
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
67811	17347 ChEBI	testosterone	-	carbon source
67811	27897 ChEBI	tryptophan	+	nitrogen source
67811	18186 ChEBI	tyrosine	+	hydrolysis
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
67811	18222 ChEBI	xylose	+	carbon source
69293	18222 ChEBI	xylose	-	growth

Metabolite production

@ref	Chebi-ID	Metabolite	Production
67811	16136 ChEBI	hydrogen sulfide

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
67811	acid phosphatase	+	3.1.3.2
68382	alkaline phosphatase	+	3.1.3.1	from API zym
67811	alkaline phosphatase	+	3.1.3.1
68379	alkaline phosphatase	+	3.1.3.1	from API Coryne
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
67811	alpha-galactosidase	-	3.2.1.22
67811	alpha-glucosidase	+	3.2.1.20
68379	alpha-glucosidase	-	3.2.1.20	from API Coryne
67811	alpha-mannosidase	+	3.2.1.24
68382	beta-galactosidase	-	3.2.1.23	from API zym
67811	beta-galactosidase	-	3.2.1.23
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68382	beta-glucosidase	-	3.2.1.21	from API zym
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
67811	catalase	+	1.11.1.6
67811	chymotrypsin	-	3.4.4.5
67811	cystine arylamidase	+	3.4.11.3
67811	cytochrome oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
67811	esterase (C 4)	+
67811	esterase Lipase (C 8)	+
68379	gelatinase	-		from API Coryne
67811	leucine arylamidase	+	3.4.11.1
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	+		from API zym
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
67811	N-acetyl-beta-glucosaminidase	+	3.2.1.52
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
67811	naphthol-AS-BI-phosphohydrolase	+
67811	proline-arylamidase	+	3.4.11.5
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68382	trypsin	-	3.4.21.4	from API zym
67811	trypsin	-	3.4.21.4
67811	urease	+	3.5.1.5
68379	urease	-	3.5.1.5	from API Coryne

Fatty acid profile

Metadata FA analysis

@ref

67811

Fatty acid	Percentage
C17:0	23.9
C15:0 iso	16.5
C16:0 iso	15.6
C16:0	11.7
C17:0 iso	7.3
Sum In Feature 3	5.8
Summed Feature 3	5.8
C17:0 anteiso	4.8
C17:1 w6c	3.2
C18:0	3.1
C14:0 iso	2.9
C15:0 anteiso	2.4

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
69293	-	-	-	+	-	-	-	-	-	-	-	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
69293	not determinedn.d.	+	+	+/-	+	+	+/-	+/-	-	-	+	+	-	-	-	+/-	-	+	+/-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature	Isolation procedure	Latitude	Longitude	Host species
66520	red clay	Xiaohouchong, Anning, Yunnan (24º 42' N, 102º 19' E)	China	CHN	Asia						24.7	102.317 24.7/102.317
67770	Rhizospheric soil from a Panax notoginseng plantation in Anning	Yunnan Province	China	CHN	Asia								Panax notoginseng
67771	From soil	Kumming city, Yunnan province	China	CHN	Asia
67811	notoginseng rhizospheric soil sample	Panax notoginseng plantation in Anning, Yunnan Province	China	CHN	Asia	Gauze's medium no. 1	supplemented with 25 mg l-1 nalidixic acid and 50 mg l-1 nystatin	15 days	28	The air-dried sample was serially diluted

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67811	ASM360024v1 assembly for Amycolatopsis panacis YIM PH21725	scaffold	GCA_003600245	2340917.3	2901931842	2340917	45.33

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
66520	Amycolatopsis sp. strain YIMPH21725 16S ribosomal RNA gene, partial sequence	MH266043	1336		37632
66520	Amycolatopsis panacis strain YIM PH21725 16S ribosomal RNA gene, partial sequence	MK032264	1510		2340917

GC content

@ref	GC-content (mol%)	Method
66520	69.43	sequence analysis
67811	69.43	genome sequence analysis

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Amycolatopsis panacis YIM PH21725
NCBI: GCA_003600245.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.24	yes
125438	anaerobic	anaerobicⓘ	no	97.58	yes
125438	aerobic	aerobicⓘ	yes	90.80	yes
125438	spore-forming	spore-formingⓘ	yes	76.60	no
125438	thermophilic	thermophileⓘ	no	95.50	yes
125438	flagellated	motile2+ⓘ	no	89.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Amycolatopsis panacis sp. nov., isolated from Panax notoginseng rhizospheric soil.	Peng G, Xiong DS, Li LC, Hu JY, Bao S, Chen YW, Li YQ, Xu LH, Miao CP, Zhao LX	Int J Syst Evol Microbiol	10.1099/ijsem.0.003202	2019

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 )
#66520	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105902
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#67811	Guang Peng, Deng-Sen Xiong, Lin-Chao Li, Jia-Yun Hu, Sheng Bao, You-Wei Chen, Yi-Qing Li, Li-Hua Xu, Cui-Ping Miao, Li-Xing Zhao: Amycolatopsis panacis sp. nov., isolated from Panax notoginseng rhizospheric soil. IJSEM 69: 567 - 571 2019 ( DOI 10.1099/ijsem.0.003202 )
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69293	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

Rate our new design

Content

About us

Amycolatopsis panacis (DSM 105902, CCTCC AA 2017044, KCTC 49031)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Metabolite production

Enzymes

Fatty acid profile

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_003600245

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media