Amycolatopsis plumensis (DSM 44776, CIP 108939, JCM 13852)

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

• @ref:	12081
  multimedia content:	DSM_44776.jpg
  multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_44776.jpg
  caption:	Medium 65 28°C
  intellectual property rights:	© Leibniz-Institut DSMZ
  manual_annotation:	1

Culture medium

@ref	Name	Growth	Medium link	Composition
12081	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
20114	ISP 2			Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
20114	ISP 3			Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
20114	ISP 4			Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
20114	ISP 5			Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
20114	ISP 6			Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
20114	ISP 7			Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes

Culture temp

Culture pH

Oxygen tolerance

Observation

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
20114	22599 ChEBI	arabinose	-
31468	22599 ChEBI	arabinose	+	carbon source
31468	17057 ChEBI	cellobiose	+	carbon source
20114	62968 ChEBI	cellulose	+
20114	28757 ChEBI	fructose	-
31468	28757 ChEBI	fructose	+	carbon source
20114	17234 ChEBI	glucose	-
31468	17306 ChEBI	maltose	+	carbon source
20114	29864 ChEBI	mannitol	-
31468	29864 ChEBI	mannitol	+	carbon source
20114	17268 ChEBI	myo-inositol	+
20114	16634 ChEBI	raffinose	+
20114	26546 ChEBI	rhamnose	-
20114	17992 ChEBI	sucrose	-
31468	27082 ChEBI	trehalose	+	carbon source
31468	53426 ChEBI	tween 80	+	carbon source
20114	18222 ChEBI	xylose	-

Metabolite production

@ref	Chebi-ID	Metabolite	Production
31468	16136 ChEBI	hydrogen sulfide

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
68382	alkaline phosphatase	+	3.1.3.1	from API zym
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
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	+	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	+	3.2.1.31	from API zym
31468	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
31468	gelatinase	+
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
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
68382	trypsin	+	3.4.21.4	from API zym
31468	urease	+	3.5.1.5
68382	valine arylamidase	+		from API zym

API zym

Isolation source categories

Isolation

Taxonmaps

69479

Global distribution of 16S sequence AY262825 (>99% sequence identity) for Amycolatopsis from Microbeatlas

Aquatic Samples	20
Soil Samples	1065
Animal Samples	41
Plant Samples	104
Total Samples	1230

Risk assessment

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM4265260v1 assembly for Amycolatopsis plumensis JCM 13852	contig	GCA_042652605	236508	75
124043	ASM4242902v1 assembly for Amycolatopsis plumensis JCM 13852	scaffold	GCA_042429025	236508	48.3

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
31468	Amycolatopsis plumensis strain SBHS Strp1 16S ribosomal RNA gene, partial sequence	AY262825	1488		236508

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Amycolatopsis rhabdoformis sp. nov., an actinomycete isolated from a tropical forest soil.	Souza WR, Silva RE, Goodfellow M, Busarakam K, Figueiro FS, Ferreira D, Rodrigues-Filho E, Moraes LAB, Zucchi TD	Int J Syst Evol Microbiol	10.1099/ijs.0.000176	2015
Phylogeny	Amycolatopsis plumensis sp. nov., a novel bioactive actinomycete isolated from a New-Caledonian brown hypermagnesian ultramafic soil.	Saintpierre-Bonaccio D, Amir H, Pineau R, Tan GYA, Goodfellow M	Int J Syst Evol Microbiol	10.1099/ijs.0.63630-0	2005