Streptomyces turgidiscabies (DSM 41838, ATCC 700248, IFO 16080)

Name: Streptomyces turgidiscabies (DSM 41838, ATCC 700248, IFO 16080)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16387

Type strain

Strain Designation SY9113, Sy 9113

Culture col. no. DSM 41838 ATCC 700248 IFO 16080 JCM 10429 NBRC 16080 5 more

NCBI tax ID(s) 85558

Special Collections DSMZ JCM CIP

History DSMZ <- NBRC <- K. Miyajima; SY9113 JCM <-- IFO 16080 <-- K. Miyajima SY9113. CIP <- 1998, K. Miyajima, Tokachi Agricultural Experiment Station, Hokkaido, Japan: strain Sy 9113 <- F. Tanaka

Links

Streptomyces turgidiscabies SY9113 is an obligate aerobe, Gram-positive, rod-shaped plant pathogen that was isolated from potato.

Gram-positive rod-shaped obligate aerobe plant pathogen genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 43843

ATCC 700248,IFO 16080,CIP 105577,JCM 10429,IFO 16180,NBRC 16080,NRRL B-24078,DSM 41838,KACC 20121

@ref 20215

Last LPSN update 2026-05-29 08:28:46

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces turgidiscabies

Full scientific name Streptomyces turgidiscabies Miyajima et al. 1998

BacDive ID	Other strains from **Streptomyces turgidiscabies** (7)	Type strain
16388	S. turgidiscabies 32, DSM 41990
16389	S. turgidiscabies 255, DSM 41993
16390	S. turgidiscabies 261, DSM 41994
16391	S. turgidiscabies 304, DSM 41996
16392	S. turgidiscabies 323, DSM 41997
16393	S. turgidiscabies 342, DSM 41998
16394	S. turgidiscabies 368, DSM 42000

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
125439	positive		97.584
125439			93.863
123693	positive	rod-shaped

Colony morphology

123693

Hemolysis ability0

Multimedia

@ref:	10621
multimedia content:	DSM_41838.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_41838.jpg
caption:	Medium 65 28°C
intellectual property rights:	Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
10621	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
39320	MEDIUM 3 - Columbia agar		Columbia agar (39.000 g);distilled water (1000.000 ml)
10621	ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)	Medium recipe at MediaDive	Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water
10621	STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)	Medium recipe at MediaDive	Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) Composition: Agar 14.985 g/l Starch 9.99001 g/l (NH4)2SO4 1.998 g/l CaCO3 1.998 g/l K2HPO4 0.999001 g/l MgSO4 x 7 H2O 0.999001 g/l NaCl 0.999001 g/l FeSO4 x 7 H2O 0.000999001 g/l MnCl2 x 4 H2O 0.000999001 g/l ZnSO4 x 7 H2O 0.000999001 g/l Distilled water
10621	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
123693	CIP Medium 236	Medium recipe at CIP
123693	CIP Medium 57	Medium recipe at CIP
123693	CIP Medium 3	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
10621	positive	growth	28
39320	positive	growth	30
67770	positive	growth	28
123693	positive	growth	25-30
123693	negative	growth	10
123693	negative	growth	37
123693	negative	growth	41
123693	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
123693	obligate aerobe
125439	facultative anaerobe	94.475

Halophily

@ref	Salt	Growth	Tested relation	Concentration
123693	NaCl	positive	growth	0-2 %
123693	NaCl		growth	4 %
123693	NaCl		growth	6 %
123693	NaCl		growth	8 %
123693	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
123693	4853 ChEBI	esculin	-	hydrolysis
123693	606565 ChEBI	hippurate	+	hydrolysis
123693	17632 ChEBI	nitrate	-	reduction
123693	17632 ChEBI	nitrate	-	respiration
123693	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
123693	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
123693	15688 ChEBI	acetoin	-
123693	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
123693	alcohol dehydrogenase	-	1.1.1.1
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
123693	amylase	+
68382	beta-galactosidase	-	3.2.1.23	from API zym
123693	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
123693	caseinase	+	3.4.21.50
123693	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
123693	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	-		from API zym
123693	gamma-glutamyltransferase	+	2.3.2.2
123693	gelatinase	+/-
123693	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
123693	lipase	-
68382	lipase (C 14)	-		from API zym
123693	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
123693	ornithine decarboxylase	-	4.1.1.17
123693	oxidase	-
123693	phenylalanine ammonia-lyase	-	4.3.1.24
123693	protease	-
68382	trypsin	-	3.4.21.4	from API zym
123693	tryptophan deaminase	-
123693	tween esterase	+
123693	urease	+	3.5.1.5
68382	valine arylamidase	-		from API zym

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
123693	-	-	+	-	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
10621	potato	Hokkaido	Japan	JPN	Asia
67770	Potato tubers with erumpent scab lesions	Syari-cho, Hokkaido	Japan	JPN	Asia
123693	Potato tuber	Hokkaido	Japan	JPN	Asia	1991

Taxonmaps

69479

Global distribution of 16S sequence D63866 (>99% sequence identity) for Streptomyces turgidiscabies from Microbeatlas

Aquatic Samples	82
Soil Samples	1131
Animal Samples	69
Plant Samples	53
Total Samples	1335

Interaction and safety

Risk assessment

@ref	Pathogenicity plant	Biosafety level	Biosafety level comment
10621		1	Risk group (German classification) According to TRBA 466
123693		1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
124043	ASM5117189v1 assembly for Streptomyces turgidiscabies ATCC 700248	contig	GCA_051171895		85558	78.06
124043	ASM3379496v1 assembly for Streptomyces turgidiscabies ATCC 700248	scaffold	GCA_033794965	85558.12	85558	65.13
124043	ASM3952481v1 assembly for Streptomyces turgidiscabies JCM 10429	scaffold	GCA_039524815		85558	56.05

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Streptomyces sp. 16S ribosomal RNA, complete sequence	D63866	1530	1931
20218	Streptomyces turgidiscabies gene for 16S ribosomal RNA, 23S ribosomal RNA, complete and partial sequence, strain:ATCC 700248	AB026221	1865	85558
20218	Streptomyces turgidiscabies gene for 16S rRNA, partial sequence, strain: NBRC 16080	AB249924	1452	85558

GC content

@ref	GC-content (mol%)	Method
10621	70.9
67770	72.5	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM5117189v1 assembly for Streptomyces turgidiscabies ATCC 700248
NCBI: GCA_051171895

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	94.48	no
125439	motility	BacteriaNetⓘ	no	93.86	no
125439	gram_stain	BacteriaNetⓘ	positive	97.58	no
125439	spore_formation	BacteriaNetⓘ	yes	74.32	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	The Lysobacter capsici AZ78 Genome Has a Gene Pool Enabling it to Interact Successfully with Phytopathogenic Microorganisms and Environmental Factors.	Puopolo G, Tomada S, Sonego P, Moretto M, Engelen K, Perazzolli M, Pertot I.	Front Microbiol	10.3389/fmicb.2016.00096	2016
Phylogeny	Diversity of Culturable Bacteria Isolated from Highland Barley Cultivation Soil in Qamdo, Tibet Autonomous Region.	Pan HU, Zhou J, Dawa Z, Dai Y, Zhang Y, Yang H, Wang C, Liu H, Zhou H, Lu X, Tian Y.	Pol J Microbiol	10.33073/pjm-2021-008	2021
Enzymology	Species' identification and microarray-based comparative genome analysis of Streptomyces species isolated from potato scab lesions in Norway.	Dees MW, Somervuo P, Lysoe E, Aittamaa M, Valkonen JP.	Mol Plant Pathol	10.1111/j.1364-3703.2011.00741.x	2012
Enzymology	Structure and biosynthesis of scabichelin, a novel tris-hydroxamate siderophore produced by the plant pathogen Streptomyces scabies 87.22.	Kodani S, Bicz J, Song L, Deeth RJ, Ohnishi-Kameyama M, Yoshida M, Ochi K, Challis GL	Org Biomol Chem	10.1039/c3ob40536b	2013
	First Report of Potato Scab Caused by Streptomyces turgidiscabies in China.	Zhao WQ, Liu DQ, Yu XM	Plant Dis	10.1094/PDIS-92-11-1587C	2008
Phylogeny	Streptomyces lacrimifluminis sp. nov., a novel actinobacterium that produces antibacterial compounds, isolated from soil.	Zhang B, Tang S, Chen X, Zhang L, Zhang G, Zhang W, Liu G, Chen T, Li S, Dyson P	Int J Syst Evol Microbiol	10.1099/ijsem.0.001456	2016
Phylogeny	Streptomyces geranii sp. nov., a novel endophytic actinobacterium isolated from root of Geranium carolinianum L.	Li X, Lai X, Gan L, Long X, Hou Y, Zhang Y, Tian Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.002876	2018
Phylogeny	Streptomyces castaneus sp. nov., a novel actinomycete isolated from the rhizosphere of Peucedanum praeruptorum Dunn.	Zhou S, Li Z, Bai L, Yan K, Zhao J, Lu C, Liu C, Wang X, Xiang W	Arch Microbiol	10.1007/s00203-016-1274-9	2016
Phylogeny	Streptomyces graminilatus sp. nov., isolated from bamboo litter.	Lee HJ, Whang KS	Int J Syst Evol Microbiol	10.1099/ijs.0.049528-0	2013
Phylogeny	Streptomyces turgidiscabies sp. nov.	Miyajima K, Tanaka F, Takeuchi T, Kuninaga S	Int J Syst Bacteriol	10.1099/00207713-48-2-495	1998

References

#10621	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 41838
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#39320	; Curators of the CIP;
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68382	Automatically annotated from API zym .
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#123693	Collection of Institut Pasteur ; Curators of the CIP; CIP 105577
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 turgidiscabies (DSM 41838, ATCC 700248, IFO 16080)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_051171895

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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