Streptomyces cocklensis (DSM 42063, KACC 20908, NCIMB 14704)

Name: Streptomyces cocklensis (DSM 42063, KACC 20908, NCIMB 14704)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16490

Type strain

Strain Designation BK 168

Culture col. no. DSM 42063 KACC 20908 NCIMB 14704 BK 168

NCBI tax ID(s) 887465

Special Collections DSMZ Wink compendium Literature strains

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Streptomyces cocklensis BK 168 is an aerobe, spore-forming, mesophilic prokaryote that was isolated from hay meadow plot 6 soil.

spore-forming Gram-positive aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 399392

NCIMB 14704,DSM 42063

@ref 20215

Last LPSN update 2025-12-16 09:50:51

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces cocklensis

Full scientific name Streptomyces cocklensis Kim et al. 2012

Synonyms (1)

Actinacidiphila cocklensis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Confidence
30149	positive	1.5-1.7 µm	0.9-1.0 µm
125439	positive			99.8
125438	positive			91.797

Colony morphology

@ref	Colony color	Medium used
69337	Grey beige (1019)	ISP 2
69337	Grey beige (1019)	ISP 3
69337	Fawn brown (8007)	ISP 7
69337	Colorless	ISP 6
69337	Light ivory (1015)	suter without tyrosine
69337	Pale brown (8025)	ISP 5
69337	Pale brown (8025)	suter with tyrosine

Multicellular morphology

@ref	Complex name	Medium name
69337	Aerial mycelium	ISP 2
69337	Aerial mycelium	ISP 3
69337	Aerial mycelium	ISP 4
69337	Aerial mycelium	ISP 5
69337	Aerial mycelium	ISP 6
69337	Aerial mycelium	ISP 7
69337	Aerial mycelium	suter with tyrosine
69337	Aerial mycelium	suter without tyrosine

Pigmentation

@ref	Production	Color	Name
69337			Melanin
69337		Sand yellow (1002), clay brown (8003), ochre brown (8001), brown beige (1011), beige (1001)	soluble pigment

Multimedia

@ref:	18070
multimedia content:	DSM_42063.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_42063.jpg
caption:	Medium 65 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

@ref:	69337
multimedia content:	DSM_42063_image3.jpeg
multimedia.multimedia content:	DSM_42063_image3.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

@ref:	69337
multimedia content:	DSM_42063_image4.jpeg
multimedia.multimedia content:	DSM_42063_image4.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
18070	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
18070	OAT FLAKES AGAR WITH YEAST EXTRACT (DSMZ Medium 248)		Medium recipe at MediaDive	Name: OAT FLAKES AGAR WITH YEAST EXTRACT (DSMZ Medium 248) Composition: Agar 20.0 g/l Oat flakes 20.0 g/l Yeast extract 2.0 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l ZnSO4 x 7 H2O 0.001 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
18070	positive	growth	28	mesophilic
30149	positive	growth	10-30

Culture pH

@ref	Ability	Type	PH	PH range
30149	positive	growth	4.0-10.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30149	aerobe
125439	obligate aerobe	98.8

Spore formation

@ref	Spore formation	Confidence
30149
125438		93.385

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69337	NaCl	positive	growth	0 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69337	22599 ChEBI	arabinose	+	growth
30149	17057 ChEBI	cellobiose	+	carbon source
69337	62968 ChEBI	cellulose	-	growth
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
30149	4853 ChEBI	esculin	+	hydrolysis
69337	28757 ChEBI	fructose	+	growth
68379	5291 ChEBI	gelatin	+	hydrolysis	from API Coryne
30149	17234 ChEBI	glucose	+	carbon source
69337	17234 ChEBI	glucose	+	growth
68379	28087 ChEBI	glycogen	+	fermentation	from API Coryne
69337	17268 ChEBI	inositol	-	growth
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
30149	17306 ChEBI	maltose	+	carbon source
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
69337	37684 ChEBI	mannose	-	growth
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
69337	16634 ChEBI	raffinose	+	growth
69337	26546 ChEBI	rhamnose	+/-	growth
69337	17992 ChEBI	sucrose	+	growth
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
69337	18222 ChEBI	xylose	+	growth

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
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
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68379	alpha-glucosidase	+	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68379	beta-galactosidase	+	3.2.1.23	from API Coryne
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
68382	cystine arylamidase	-	3.4.11.3	from API zym
68379	gelatinase	+		from API Coryne
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
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
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
68379	urease	-	3.5.1.5	from API Coryne

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
69337	-	+	-	+	-	+	+	-	+/-	-	+	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
69337	not determinedn.d.	+	+/-	+/-	-	+	+/-	-	-	-	+	+	+	+	-	+	+	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Meadow
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
18070	hay meadow plot 6 soil	Northumberland, Cockle Park Experimental Farm	United Kingdom	GBR	Europe

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
18070	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2865717v1 assembly for Actinacidiphila cocklensis DSM 42063	contig	GCA_028657175	887465.4	8118811198	887465	23.79

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
18070	Streptomyces sp. BK168 partial 16S rRNA gene, strain BK168	FR692107	1455		887465

GC content

18070

GC-content (mol%)73.2

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Actinacidiphila cocklensis DSM 42063
NCBI: GCA_028657175

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	84.30	no
125439	motility	BacteriaNetⓘ	no	88.60	no
125439	gram_stain	BacteriaNetⓘ	positive	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Streptomyces cocklensis DSM 42063
NCBI: GCA_028657175.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.80	yes
125438	anaerobic	anaerobicⓘ	no	96.54	yes
125438	aerobic	aerobicⓘ	yes	87.83	yes
125438	spore-forming	spore-formingⓘ	yes	93.39	yes
125438	thermophilic	thermophileⓘ	no	96.50	yes
125438	flagellated	motile2+ⓘ	no	88.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Streptomyces bryophytorum sp. nov., an endophytic actinomycete isolated from moss (Bryophyta).	Li C, Jin P, Liu C, Ma Z, Zhao J, Li J, Wang X, Xiang W	Antonie Van Leeuwenhoek	10.1007/s10482-016-0722-5	2016
Phylogeny	Streptomyces cocklensis sp. nov., a dioxamycin-producing actinomycete.	Kim BY, Zucchi TD, Fiedler HP, Goodfellow M	Int J Syst Evol Microbiol	10.1099/ijs.0.029983-0	2011

References

#18070	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 42063
#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 )
#30149	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 #26500 (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) .
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69337	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 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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 )

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Streptomyces cocklensis (DSM 42063, KACC 20908, NCIMB 14704)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_028657175

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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