Clavibacter michiganensis subsp. sepedonicus (DSM 1757, ATCC 9850, NCPPB 2136)

Name: Clavibacter michiganensis subsp. sepedonicus (DSM 1757, ATCC 9850, NCPPB 2136)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7293

Type strain

Strain Designation 5299, CS 5

Culture col. no. DSM 1757 ATCC 9850 NCPPB 2136 5299 CS 5 1 more

NCBI tax ID(s) 31964

Special Collections DSMZ JCM

History DSMZ <- NCPPB <- ICPB <- ATCC <- W.H. Burkholder, CS 5 <- L.C. Knorr, 5299 JCM <-- K. Suzuki CNF 191 <-- AJ 1406 <-- ATCC 9850 <-- W. H. Burkholder CS 5 <-- L. Knorr 5299.

Links

Clavibacter michiganensis subsp. sepedonicus 5299 is a plant pathogen that was isolated from Solanum tuberosum.

plant pathogen Bacteria

Name and taxonomic classification

SI-ID 1841

LMG 2901,ATCC 9850,DSM 1757,ICMP 2534,ICMP 2538,LMG 2897,NCPPB 2136,NCPPB 2144,PDDCC 2534,PDDCC 2538,ICMP 7116,JCM 1483,CFBP 3563

@ref 20215

Last LPSN update 2026-05-29 08:26:36

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Microbacteriaceae

Genus Clavibacter

Species Clavibacter michiganensis subsp. sepedonicus

Full scientific name Clavibacter michiganensis subsp. sepedonicus corrig. (Spieckermann and Kotthoff 1914) Davis et al. 1984

Synonyms (7)

Clavibacter michiganense subsp. sepedonicus
Clavibacter sepedonicus
Clavibacter michiganensis subsp. sepedonicum
Clavibacter michiganense subsp. sepedonicum
"Bacterium sepedonicum"
Corynebacterium sepedonicum
Corynebacterium michiganense subsp. sepedonicum

BacDive ID	Other strains from Clavibacter michiganensis subsp. sepedonicus (1)	Type strain
179143	C. michiganensis subsp. sepedonicus IMET 11009, STI11009

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
645	R2A MEDIUM (DSMZ Medium 830)		Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
645	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)		Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
645	positive	growth	25
67770	positive	growth	30

Physiology and metabolism

Observation

67770

Observationquinones: MK-9 (MK-7)

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	methylglyoxal degradation	100	5 of 5
66794	acetate fermentation	100	4 of 4
66794	glycogen metabolism	100	5 of 5
66794	threonine metabolism	100	10 of 10
66794	ribulose monophosphate pathway	100	2 of 2
66794	pentose phosphate pathway	100	11 of 11
66794	adipate degradation	100	2 of 2
66794	vitamin K metabolism	100	5 of 5
66794	coenzyme A metabolism	100	4 of 4
66794	teichoic acid biosynthesis	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	cellulose degradation	100	5 of 5
66794	aerobactin biosynthesis	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	ceramide biosynthesis	100	1 of 1
66794	metabolism of disaccharids	90.91	10 of 11
66794	d-mannose degradation	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	photosynthesis	85.71	12 of 14
66794	vitamin B1 metabolism	84.62	11 of 13
66794	glycolysis	82.35	14 of 17
66794	lipoate biosynthesis	80	4 of 5
66794	starch degradation	80	8 of 10
66794	flavin biosynthesis	80	12 of 15
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	pyrimidine metabolism	77.78	35 of 45
66794	serine metabolism	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	purine metabolism	77.66	73 of 94
66794	palmitate biosynthesis	77.27	17 of 22
66794	butanoate fermentation	75	3 of 4
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	ppGpp biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	gluconeogenesis	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	proline metabolism	72.73	8 of 11
66794	d-xylose degradation	72.73	8 of 11
66794	propanol degradation	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	leucine metabolism	69.23	9 of 13
66794	phenylalanine metabolism	69.23	9 of 13
66794	degradation of sugar alcohols	68.75	11 of 16
66794	octane oxidation	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	NAD metabolism	66.67	12 of 18
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	glutathione metabolism	64.29	9 of 14
66794	citric acid cycle	64.29	9 of 14
66794	tryptophan metabolism	63.16	24 of 38
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	alanine metabolism	62.07	18 of 29
66794	methionine metabolism	61.54	16 of 26
66794	urea cycle	61.54	8 of 13
66794	cysteine metabolism	61.11	11 of 18
66794	non-pathway related	60.53	23 of 38
66794	oxidative phosphorylation	60.44	55 of 91
66794	Entner Doudoroff pathway	60	6 of 10
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	3-chlorocatechol degradation	60	3 of 5
66794	lipid metabolism	58.06	18 of 31
66794	tetrahydrofolate metabolism	57.14	8 of 14
66794	degradation of pentoses	53.57	15 of 28
66794	histidine metabolism	51.72	15 of 29
66794	phenylmercury acetate degradation	50	1 of 2
66794	propionate fermentation	50	5 of 10
66794	kanosamine biosynthesis II	50	1 of 2
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	pantothenate biosynthesis	50	3 of 6
66794	ascorbate metabolism	50	11 of 22
66794	ethanol fermentation	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	carnitine metabolism	50	4 of 8
66794	lysine metabolism	47.62	20 of 42
66794	carotenoid biosynthesis	45.45	10 of 22
66794	arachidonic acid metabolism	44.44	8 of 18
66794	aclacinomycin biosynthesis	42.86	3 of 7
66794	glycine metabolism	40	4 of 10
66794	degradation of hexoses	38.89	7 of 18
66794	vitamin B6 metabolism	36.36	4 of 11
66794	tyrosine metabolism	35.71	5 of 14
66794	L-lactaldehyde degradation	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
66794	IAA biosynthesis	33.33	1 of 3
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	sphingosine metabolism	33.33	2 of 6
66794	lipid A biosynthesis	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	degradation of sugar acids	32	8 of 25
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	myo-inositol biosynthesis	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	heme metabolism	28.57	4 of 14
66794	reductive acetyl coenzyme A pathway	28.57	2 of 7
66794	CMP-KDO biosynthesis	25	1 of 4
66794	androgen and estrogen metabolism	25	4 of 16
66794	bile acid biosynthesis, neutral pathway	23.53	4 of 17
66794	sulfate reduction	23.08	3 of 13
66794	4-hydroxymandelate degradation	22.22	2 of 9
66794	nitrate assimilation	22.22	2 of 9
66794	polyamine pathway	21.74	5 of 23

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)

Isolation

@ref	Sample type	Host species	Country	Country ISO 3 Code	Continent
645	Solanum tuberosum	Solanum tuberosum	USA	USA	North America
67770	Potato (Solanum tuberosum)	Solanum tuberosum	USA	USA	North America

Interaction and safety

Risk assessment

@ref	Pathogenicity plant	Biosafety level	Biosafety level comment
645		1	Risk group (German classification) According to TRBA 466

Sequence information

GC content

@ref	GC-content (mol%)	Method
67770	69.8	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Literature

References

#645	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1757
#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 )
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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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