Thermostaphylospora chromogena (DSM 43794, ATCC 43196, CUB 580)

Name: Thermostaphylospora chromogena (DSM 43794, ATCC 43196, CUB 580)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16920

Type strain

Strain Designation no. 577

Culture col. no. DSM 43794 ATCC 43196 CUB 580 IFO 12465 IMRU N 2900 13 more

NCBI tax ID(s) 1123378 35622

Special Collections DSMZ JCM KCTC Wink compendium

Links

Thermostaphylospora chromogena no. 577 is a thermophilic prokaryote that was isolated from soil.

thermophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 41703

ATCC 43196,NCIB 10212,DSM 43794,IFO 12465,JCM 6244,IFO 16096,IMET 9529,NCIMB 10212,NRRL B-16983,KCTC 9242,NBRC 12465,NBRC 16096,KACC 20094,IMET 9829

@ref 20215

Last LPSN update 2025-12-16 09:50:58

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Streptosporangiales

Family Streptosporangiaceae

Genus Thermostaphylospora

Species Thermostaphylospora chromogena

Full scientific name Thermostaphylospora chromogena (McCarthy and Cross 1984 ex Krasil'nikov and Agre 1965) Wu et al. 2018

Synonyms (1)

Thermomonospora chromogena

BacDive ID	Other strains from **Thermostaphylospora chromogena** (2)	Type strain
16918	T. chromogena T-334, DSM 43367
16919	T. chromogena K 65, DSM 43772

Morphology

Cell morphology

@ref	Gram stain	Confidence	Motility
125439	positive	99.5
125439		90.2

Colony morphology

@ref	Colony color	Incubation period	Medium used
19955	Pastel yellow (1034)	10-14 days	ISP 2
19955	Colorless	10-14 days	ISP 3
19955	Colorless	10-14 days	ISP 4
19955	Colorless	10-14 days	ISP 5
19955	Pastel yellow (1034)	10-14 days	ISP 6
19955	Colorless	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19955		ISP 2
19955		ISP 3
19955		ISP 4
19955		ISP 5
19955		ISP 6
19955		ISP 7

Multimedia

@ref:	11196
multimedia content:	DSM_43794.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_43794.jpg
caption:	Medium 65 50°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11196	CZAPEK PEPTONE AGAR (DSMZ Medium 83)	Medium recipe at MediaDive	Name: CZAPEK PEPTONE AGAR (DSMZ Medium 83) Composition: Sucrose 30.0 g/l Agar 20.0 g/l Peptone 5.0 g/l NaNO3 3.0 g/l Yeast extract 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 0.5 g/l KCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water
19955	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
19955	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
19955	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
19955	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
19955	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
19955	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:
11196	GPHF-MEDIUM (DSMZ Medium 553)	Medium recipe at MediaDive	Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water
11196	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

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
11196	positive	growth	50	thermophilic
19955	positive	optimum	50	thermophilic
67770	positive	growth	50	thermophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	97.5

Halophily

@ref	Salt	Growth	Tested relation	Concentration
19955	NaCl	positive	maximum	7.5 %

Observation

67770

Observationquinones: MK-9(H₄), MK-9(H₂), MK-9(H₆)

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	starch degradation	100	10 of 10
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	Entner Doudoroff pathway	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	threonine metabolism	100	10 of 10
66794	glycogen metabolism	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	valine metabolism	100	9 of 9
66794	phenylmercury acetate degradation	100	2 of 2
66794	acetate fermentation	100	4 of 4
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	metabolism of amino sugars and derivatives	100	5 of 5
66794	myo-inositol biosynthesis	100	10 of 10
66794	vitamin K metabolism	100	5 of 5
66794	formaldehyde oxidation	100	3 of 3
66794	denitrification	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	ribulose monophosphate pathway	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	pentose phosphate pathway	100	11 of 11
66794	cellulose degradation	100	5 of 5
66794	coenzyme A metabolism	100	4 of 4
66794	chorismate metabolism	88.89	8 of 9
66794	d-mannose degradation	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	flavin biosynthesis	86.67	13 of 15
66794	photosynthesis	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	heme metabolism	85.71	12 of 14
66794	urea cycle	84.62	11 of 13
66794	degradation of sugar acids	84	21 of 25
66794	purine metabolism	82.98	78 of 94
66794	glycolysis	82.35	14 of 17
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	hydrogen production	80	4 of 5
66794	3-chlorocatechol degradation	80	4 of 5
66794	4-hydroxyphenylacetate degradation	80	8 of 10
66794	factor 420 biosynthesis	80	4 of 5
66794	histidine metabolism	79.31	23 of 29
66794	glutathione metabolism	78.57	11 of 14
66794	degradation of hexoses	77.78	14 of 18
66794	pyrimidine metabolism	77.78	35 of 45
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	allantoin degradation	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	phenylalanine metabolism	76.92	10 of 13
66794	leucine metabolism	76.92	10 of 13
66794	tryptophan metabolism	76.32	29 of 38
66794	sulfopterin metabolism	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	cyclohexanol degradation	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	metabolism of disaccharids	72.73	8 of 11
66794	alanine metabolism	72.41	21 of 29
66794	citric acid cycle	71.43	10 of 14
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	aclacinomycin biosynthesis	71.43	5 of 7
66794	propionate fermentation	70	7 of 10
66794	methionine metabolism	69.23	18 of 26
66794	oxidative phosphorylation	69.23	63 of 91
66794	non-pathway related	68.42	26 of 38
66794	degradation of pentoses	67.86	19 of 28
66794	lipid metabolism	67.74	21 of 31
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	enterobactin biosynthesis	66.67	2 of 3
66794	3-phenylpropionate degradation	66.67	10 of 15
66794	cyanate degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	lysine metabolism	66.67	28 of 42
66794	octane oxidation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	tyrosine metabolism	64.29	9 of 14
66794	d-xylose degradation	63.64	7 of 11
66794	proline metabolism	63.64	7 of 11
66794	ketogluconate metabolism	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	sulfate reduction	61.54	8 of 13
66794	gallate degradation	60	3 of 5
66794	arachidonate biosynthesis	60	3 of 5
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	arginine metabolism	58.33	14 of 24
66794	propanol degradation	57.14	4 of 7
66794	phenol degradation	55	11 of 20
66794	phosphatidylethanolamine bioynthesis	53.85	7 of 13
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	vitamin B12 metabolism	52.94	18 of 34
66794	polyamine pathway	52.17	12 of 23
66794	androgen and estrogen metabolism	50	8 of 16
66794	lactate fermentation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	vitamin E metabolism	50	2 of 4
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	CMP-KDO biosynthesis	50	2 of 4
66794	ascorbate metabolism	45.45	10 of 22
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	lipid A biosynthesis	44.44	4 of 9
66794	nitrate assimilation	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	bile acid biosynthesis, neutral pathway	41.18	7 of 17
66794	coenzyme M biosynthesis	40	4 of 10
66794	lipoate biosynthesis	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	carnitine metabolism	37.5	3 of 8
66794	carotenoid biosynthesis	36.36	8 of 22
66794	vitamin B6 metabolism	36.36	4 of 11
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	arachidonic acid metabolism	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	toluene degradation	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	daunorubicin biosynthesis	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type
11196	soil
67770	Soil

Taxonmaps

69479

Global distribution of 16S sequence AF028246 (>99% sequence identity) for Thermostaphylospora chromogena from Microbeatlas

Aquatic Samples	296
Soil Samples	3191
Animal Samples	498
Plant Samples	845
Total Samples	4830

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11196	1	Risk group (German classification) According to TRBA 466
19955	1	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
67770	IMG-taxon 2634166206 annotated assembly for Thermostaphylospora chromogena DSM 43794	contig	GCA_900099985	35622.5	2634166206	35622	73.39

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Thermomonospora chromogena 16S ribosomal RNA gene, partial sequence	AF028246	1497	35622
20218	Thermomonospora chromogena strain ATCC43196 rrnA operon 16S ribosomal RNA, complete sequence	AF116558	2347	35622
20218	Thermomonospora chromogena strain ATCC43196 rrnB operon 23S ribosomal RNA and 16S ribosomal RNA, complete sequence	AF116559	5634	35622
20218	Thermomonospora chromogena strain ATCC43196 rrnC operon 23S ribosomal RNA and 16S ribosomal RNA, complete sequence	AF116560	3725	35622
20218	Thermomonospora chromogena strain ATCC43196 rrnD operon 23S ribosomal RNA, 5S ribosomal RNA, and 16S ribosomal RNA, complete sequence	AF116561	6313	35622
20218	Thermomonospora chromogena strain ATCC43196 rrnE operon 23S ribosomal RNA, 5S ribosomal RNA, and 16S ribosomal RNA, complete sequence	AF116562	6672	35622
20218	Thermomonospora chromogena strain ATCC 43196 rrnF operon, 16S ribosomal RNA, 23S ribosomal RNA, and 5S ribosomal RNA genes, complete sequence	AF116563	6540	35622
20218	Thermomonospora chromogena 16S ribosomal RNA gene, partial sequence	AF002261	1479	35622
20218	Thermomonospora chromogena gene for 16S rRNA, partial sequence, strain: NBRC 16096	AB364593	1497	35622

GC content

@ref	GC-content (mol%)	Method
67770	74
67770	71	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Thermostaphylospora chromogena DSM 43794
NCBI: GCA_900099985

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	88.10	no
125439	motility	BacteriaNetⓘ	no	90.20	no
125439	gram_stain	BacteriaNetⓘ	positive	99.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Distinct types of rRNA operons exist in the genome of the actinomycete Thermomonospora chromogena and evidence for horizontal transfer of an entire rRNA operon.	Yap WH, Zhang Z, Wang Y.	J Bacteriol	10.1128/jb.181.17.5201-5209.1999	1999
Phylogeny	Thermostaphylospora grisealba gen. nov., sp. nov., isolated from mushroom compost and transfer of Thermomonospora chromogena Zhang et al. 1998 to Thermostaphylospora chromogena comb. nov.	Wu H, Liu B, Shao Y, Ou X, Huang F	Int J Syst Evol Microbiol	10.1099/ijsem.0.002551	2018

References

#11196	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43794
#19955	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#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;
#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 .
#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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Thermostaphylospora chromogena (DSM 43794, ATCC 43196, CUB 580)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900099985

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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