Name: Thermodesulfatator indicus CIR 29812
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 16889

Type strain:

Species: Thermodesulfatator indicus

Strain Designation: CIR 29812

Culture col. no.: DSM 15286, JCM 11887

Strain history: H. Moussard CIR29812.

NCBI tax ID(s): 667014 (strain), 171695 (species)

SI-ID 130852

DSM 15286, JCM 11887

Section

Thermodesulfatator indicus CIR 29812 is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from active black smoker.

Gram-negative
motile
rod-shaped
anaerobe
thermophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Thermodesulfobacteriota*
	Class	*Thermodesulfobacteria*
	Order	*Thermodesulfobacteriales*
	Family	*Thermodesulfobacteriaceae*
	Genus	*Thermodesulfatator*
	Species	**Thermodesulfatator indicus**
	Full Scientific Name (LPSN)	Thermodesulfatator indicus Moussard et al. 2004

Information on morphological and physiological properties Morphology

[Ref.: #29920]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.988

[Ref.: #29920]	Cell length	0.8-1 µm

[Ref.: #29920]	Cell width	0.4-0.5 µm

[Ref.: #29920]	Cell shape	rod-shaped

[Ref.: #29920]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %95.915

Multimedia content

[Ref.: #66793]

Caption:

electron microscopic image

[Ref.: #66793]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5827]

Culture medium

DESULFONAUTICUS MEDIUM (DSMZ Medium 383b)

[Ref.: #5827]

Culture medium growth

[Ref.: #5827]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5827]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #5827]	growth	70 °C
[Ref.: #29920]	growth	55-80 °C
[Ref.: #29920]	optimum	70 °C
[Ref.: #67770]	growth	70 °C

[Ref.: #5827]	Temperature range	thermophilic
[Ref.: #29920]	Temperature range	hyperthermophilic
[Ref.: #29920]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	thermophilic
[Ref.: #69480]	Temperature range	thermophilic Confidence in %99.999

	pH	Kind of pH		pH
[Ref.: #29920]			optimum	6.25
[Ref.: #29920]			growth	6-6.7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #5827]	Oxygen tolerance	anaerobe
[Ref.: #29920]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %100

[Ref.: #29920]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.48

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29920]		NaCl		growth	1-3.5	%
[Ref.: #29920]		NaCl		optimum	2.5	%

[Ref.: #29920]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29920]	acetate ChEBI	+	carbon source
[Ref.: #29920]	ethanol ChEBI	+	carbon source
[Ref.: #29920]	glutamate ChEBI	+	carbon source

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	hydrogen production	100	5 of 5
[Ref.: #66794]	aspartate and asparagine metabolism	100	9 of 9
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	reductive acetyl coenzyme A pathway	100	7 of 7
[Ref.: #66794]	cyanate degradation	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	palmitate biosynthesis	86.36	19 of 22
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	vitamin B1 metabolism	84.62	11 of 13
[Ref.: #66794]	vitamin B12 metabolism	82.35	28 of 34
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	nitrate assimilation	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	pyrimidine metabolism	71.11	32 of 45
[Ref.: #66794]	threonine metabolism	70	7 of 10
[Ref.: #66794]	starch degradation	70	7 of 10
[Ref.: #66794]	glutamate and glutamine metabolism	67.86	19 of 28
[Ref.: #66794]	purine metabolism	67.02	63 of 94
[Ref.: #66794]	valine metabolism	66.67	6 of 9
[Ref.: #66794]	flavin biosynthesis	66.67	10 of 15
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	lipid A biosynthesis	66.67	6 of 9
[Ref.: #66794]	alanine metabolism	65.52	19 of 29
[Ref.: #66794]	myo-inositol biosynthesis	60	6 of 10
[Ref.: #66794]	oxidative phosphorylation	59.34	54 of 91
[Ref.: #66794]	glycolysis	58.82	10 of 17
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	citric acid cycle	57.14	8 of 14
[Ref.: #66794]	glutathione metabolism	57.14	8 of 14
[Ref.: #66794]	d-mannose degradation	55.56	5 of 9
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	vitamin B6 metabolism	54.55	6 of 11
[Ref.: #66794]	arginine metabolism	54.17	13 of 24
[Ref.: #66794]	phenylalanine metabolism	53.85	7 of 13
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	methionine metabolism	53.85	14 of 26
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	isoprenoid biosynthesis	53.85	14 of 26
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	denitrification	50	1 of 2
[Ref.: #66794]	gluconeogenesis	50	4 of 8
[Ref.: #66794]	coenzyme M biosynthesis	50	5 of 10
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	leucine metabolism	46.15	6 of 13
[Ref.: #66794]	lysine metabolism	45.24	19 of 42
[Ref.: #66794]	histidine metabolism	44.83	13 of 29
[Ref.: #66794]	degradation of hexoses	44.44	8 of 18
[Ref.: #66794]	cysteine metabolism	44.44	8 of 18
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	creatinine degradation	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	non-pathway related	39.47	15 of 38
[Ref.: #66794]	polyamine pathway	39.13	9 of 23
[Ref.: #66794]	pentose phosphate pathway	36.36	4 of 11
[Ref.: #66794]	proline metabolism	36.36	4 of 11
[Ref.: #66794]	lipid metabolism	35.48	11 of 31
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	CO2 fixation in Crenarchaeota	33.33	3 of 9
[Ref.: #66794]	formaldehyde oxidation	33.33	1 of 3
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	L-lactaldehyde degradation	33.33	1 of 3
[Ref.: #66794]	Entner Doudoroff pathway	30	3 of 10
[Ref.: #66794]	tryptophan metabolism	28.95	11 of 38
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	toluene degradation	25	1 of 4
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #5827]	Sample type/isolated from	active black smoker
[Ref.: #5827]	Geographic location (country and/or sea, region)	Indian Ocean, Kairei Vent Field
[Ref.: #5827]	Country	International waters
[Ref.: #5827]	Geographic location	-25.3167°/70.0333°

[Ref.: #67770]	Sample type/isolated from	Deep-sea hydrothermal vent site at the Kairei vent field on the Central Indian Ridge
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Hydrothermal vent
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF393376 (>99% sequence identity) for Thermodesulfatator indicus subclade from Microbeatlas

Aquatic Samples	85
Soil Samples	36
Animal Samples	1531
Plant Samples	17
Total Samples	1669

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #5827]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #5827]	Thermodesulfobacterium sp. CIR29812 16S ribosomal RNA gene, partial sequence	AF393376	1496	ENA	667014 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Thermodesulfatator indicus DSM 15286	GCA_000217795	complete	GenBank	667014 tax ID	*
[Ref.: #66792]	Thermodesulfatator indicus DSM 15286	667014.3	complete	PATRIC	667014 tax ID	*
[Ref.: #66792]	Thermodesulfatator indicus CIR29812, DSM 15286	2505119042	complete	JGI IMG/M	667014 tax ID	*

[Ref.: #5827]	GC-content	46.0 mol%
[Ref.: #29920]	GC-content	46 mol%
[Ref.: #67770]	GC-content	46 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Thermodesulfatator indicus DSM 15286 DSM 15286 NCBI: GCA_000217795.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Thermodesulfatator indicus DSM 15286 DSM 15286 NCBI: GCA_000217795.1
[Ref.: #69480]	motile	yes	91.734	yes
[Ref.: #69480]	flagellated	no	84.375	no
[Ref.: #69480]	gram-positive	no	99.547	yes
[Ref.: #69480]	anaerobic	yes	99.736	yes
[Ref.: #69480]	aerobic	no	99.407	yes
[Ref.: #69480]	halophile	no	76.83	no
[Ref.: #69480]	spore-forming	no	93.168	no
[Ref.: #69480]	thermophile	yes	99.356	no
[Ref.: #69480]	glucose-util	no	62.025	no
[Ref.: #69480]	glucose-ferment	no	82.133	no

Availability in culture collections External links

[Ref.: #5827]

Culture collection no.

DSM 15286, JCM 11887

[Ref.: #85895]

SI-ID 130852

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Thermodesulfatator autotrophicus sp. nov., a thermophilic sulfate-reducing bacterium from the Indian Ocean.	Lai Q, Cao J, Dupont S, Shao Z, Jebbar M, Alain K	Int J Syst Evol Microbiol	10.1099/ijsem.0.001297	2016	*
Phylogeny	Thermodesulfatator indicus gen. nov., sp. nov., a novel thermophilic chemolithoautotrophic sulfate-reducing bacterium isolated from the Central Indian Ridge.	Moussard H, L'Haridon S, Tindall BJ, Banta A, Schumann P, Stackebrandt E, Reysenbach AL, Jeanthon C	Int J Syst Evol Microbiol	10.1099/ijs.0.02669-0	2004	*

References

#5827

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15286

#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 )

#29920

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 #26291 (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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#85895

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID130852.1 )

#26291

IJSEM 227 2004 ( DOI 10.1099/ijs.0.02669-0 , PubMed 14742485 )

* These data were automatically processed and therefore are not curated

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Thermodesulfatator indicus DSM 15286 DSM 15286

Thermodesulfatator indicus DSM 15286 DSM 15286

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