Thermogemmatispora carboxidivorans (DSM 45816, ATCC BAA-2534, PM5)

Name: Thermogemmatispora carboxidivorans (DSM 45816, ATCC BAA-2534, PM5)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24745

Type strain

Strain Designation PM5

Culture col. no. DSM 45816 ATCC BAA-2534 PM5

NCBI tax ID(s) 1382306

Special Collections DSMZ Literature strains

History DSMZ <- G. King, Louisiana State Univ., USA; PM5 <- C. King, Louisiana State Univ., USA

Links

Thermogemmatispora carboxidivorans PM5 is a microaerophile, spore-forming, Gram-positive bacterium that was isolated from geothermally heated microbial mat on a decayed dead tree stump acting as steam vent.

spore-forming Gram-positive filament-shaped microaerophile genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 408195

ATCC BAA-2534,DSM 45816

@ref 20215

Last LPSN update 2026-05-29 08:30:41

Domain Bacteria

Phylum Chloroflexota

Class Ktedonobacteria

Order Thermogemmatisporales

Family Thermogemmatisporaceae

Genus Thermogemmatispora

Species Thermogemmatispora carboxidivorans

Full scientific name Thermogemmatispora carboxidivorans King and King 2014

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
43391	positive	filament-shaped

Colony morphology

@ref	Colony color	Incubation period	Medium used
43391	orange	4 days	Thermomicrobium medium

Multimedia

@ref:	21218
multimedia content:	DSM_45816.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_45816.jpg
caption:	Medium 592 55°C pH6.5
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
43391	Thermomicrobium medium
21218	THERMOMICROBIUM ROSEUM MEDIUM (DSMZ Medium 592)	Medium recipe at MediaDive	Name: THERMOMICROBIUM ROSEUM MEDIUM (DSMZ Medium 592) Composition: Agar 20.0 g/l (NH4)2SO4 1.3 g/l Yeast extract 1.0 g/l Tryptone 1.0 g/l KH2PO4 0.28 g/l MgSO4 x 7 H2O 0.247 g/l CaCl2 x 2 H2O 0.074 g/l Na2B4O7 x 10 H2O 0.044 g/l FeCl3 x 6 H2O 0.019 g/l MnCl2 x 4 H2O 0.018 g/l ZnSO4 x 7 H2O 0.0022 g/l CuCl2 x H2O 0.0005 g/l VOSO4 x 2 H2O 0.0003 g/l Na2MoO4 x 2 H2O 0.0003 g/l Distilled water
21218	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

Culture temp

@ref	Growth	Type	Temperature (°C)
21218	positive	growth	55
43391	positive	optimum	55
43391	positive	growth	40-65

Culture pH

@ref	Ability	Type	PH
43391	positive	optimum	6
43391	positive	growth	4.1-8

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
43391	microaerophile
125439	facultative anaerobe	90.28

Spore formation

@ref	Type of spore	Spore formation
43391	exospore (microbial cyst)

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43391	NaCl	positive	growth	1 %
43391	NaCl		growth	2 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43391	30089 ChEBI	acetate	-	growth
43391	15347 ChEBI	acetone	+	growth
43391	16449 ChEBI	alanine	+	growth
43391	22599 ChEBI	arabinose	-	growth
43391	35391 ChEBI	aspartate	+	growth
43391	17750 ChEBI	betaine	-	growth
43391		casein	+	hydrolysis
43391	62968 ChEBI	cellulose	+	hydrolysis
43391	17029 ChEBI	chitin	+	hydrolysis
43391	16947 ChEBI	citrate	-	growth
43391	17170 ChEBI	dimethylamine	-	growth
43391	4853 ChEBI	esculin	+	hydrolysis
43391	16236 ChEBI	ethanol	+	growth
43391	28757 ChEBI	fructose	-	growth
43391	29806 ChEBI	fumarate	-	growth
43391	28260 ChEBI	galactose	-	growth
43391	24175 ChEBI	galacturonate	-	growth
43391	5291 ChEBI	gelatin	+	hydrolysis
43391	24265 ChEBI	gluconate	+	growth
43391	17234 ChEBI	glucose	+	growth
43391	24297 ChEBI	glucuronate	-	growth
43391	17754 ChEBI	glycerol	+	growth
43391	15428 ChEBI	glycine	-	growth
43391	29805 ChEBI	glycolate	-	growth
43391	29985 ChEBI	L-glutamate	+	growth
43391	24996 ChEBI	lactate	-	growth
43391	17716 ChEBI	lactose	+	growth
43391	25115 ChEBI	malate	-	growth
43391	15792 ChEBI	malonate	-	growth
43391	29864 ChEBI	mannitol	-	growth
43391	37684 ChEBI	mannose	+	growth
43391	17790 ChEBI	methanol	+	growth
43391	16830 ChEBI	methylamine	-	growth
43391	17268 ChEBI	myo-inositol	-	growth
43391	17632 ChEBI	nitrate	+	reduction
43391	26271 ChEBI	proline	-	growth
43391	28831 ChEBI	propanol	-	growth
43391	17272 ChEBI	propionate	-	growth
43391	15361 ChEBI	pyruvate	+	growth
43391	26546 ChEBI	rhamnose	-	growth
43391	33942 ChEBI	ribose	-	growth
43391	17822 ChEBI	serine	-	growth
43391	28017 ChEBI	starch	+	hydrolysis
43391	30031 ChEBI	succinate	-	growth
43391	17992 ChEBI	sucrose	+	growth
43391	30929 ChEBI	tartrate	-	growth
43391	18139 ChEBI	trimethylamine	-	growth
43391	27266 ChEBI	valine	-	growth
43391	37166 ChEBI	xylan	+	hydrolysis
43391	18222 ChEBI	xylose	-	growth

Metabolite production

@ref	Chebi-ID	Metabolite	Production
43391	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
43391	arginine dihydrolase	-	3.5.3.6
43391	beta-galactosidase	+	3.2.1.23
43391	catalase	+	1.11.1.6
43391	gelatinase	+
43391	urease	-	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Microbial community	#Microbial mat
#Host	#Plants	#Decomposing plant
#Host	#Plants	#Tree
#Host Body-Site	#Plant	-
#Environmental	#Terrestrial	#Volcanic

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
21218	geothermally heated microbial mat on a decayed dead tree stump acting as steam vent	Hawai National Volcanoes Park, Puhimau geothermal area (19° 23' 22.2'' N 155° 14' 56.6'' W)	USA	USA	North America	19.3895	-155.249 19.3895/-155.249
43391		East rif zone of Kilauea Volcano, Hawaii	USA	USA	North America	19	-155 19/-155

Taxonmaps

69479

Global distribution of 16S sequence KF193526 (>99% sequence identity) for Thermogemmatispora carboxidivorans subclade from Microbeatlas

Aquatic Samples	177
Soil Samples	843
Animal Samples	100
Plant Samples	51
Total Samples	1171

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21218	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM70250v1 assembly for Thermogemmatispora carboxidivorans PM5	contig	GCA_000702505	1382306.3	2561511072	1382306	72.3

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21218	Thermogemmatispora carboxidivorans strain PM5 from USA 16S ribosomal RNA gene, partial sequence	KF193526	1296		1382306

GC content

@ref	GC-content (mol%)	Method
43391	59	high performance liquid chromatography (HPLC)
21218	59.0	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: ASM70250v1 assembly for Thermogemmatispora carboxidivorans PM5
NCBI: GCA_000702505

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	90.28	no
125439	gram_stain	BacteriaNetⓘ	positive	54.43	no
125439	spore_formation	BacteriaNetⓘ	yes	51.55	no
125439	motility	BacteriaNetⓘ	no	85.55	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of Thermogemmatispora carboxidivorans sp. nov., a carbon-monoxide-oxidizing member of the class Ktedonobacteria isolated from a geothermally heated biofilm, and analysis of carbon monoxide oxidation by members of the class Ktedonobacteria.	King CE, King GM	Int J Syst Evol Microbiol	10.1099/ijs.0.059675-0	2014

References

#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 )
#21218	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45816
#43391	C. E. King, G. M. King: Description of Thermogemmatispora carboxidivorans sp. nov., a carbon-monoxide-oxidizing member of the class Ktedonobacteria isolated from a geothermally heated biofilm, and analysis of carbon monoxide oxidation by members of the class Ktedonobacteria. IJSEM 64: 1244 - 1251 2014 ( DOI 10.1099/ijs.0.059675-0 , PubMed 24425739 )
#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) .
#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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Thermogemmatispora carboxidivorans (DSM 45816, ATCC BAA-2534, PM5)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000702505

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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