Name: Thermodesulfobium acidiphilum 3127-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140262

Type strain:

Species: Thermodesulfobium acidiphilum

Strain Designation: 3127-1

Culture col. no.: DSM 102892, VKM B-3043

Strain history: <- E. Frolov, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; 3127-1

NCBI tax ID(s): 1794699 (species)

SI-ID 398408

DSM 102892

Section

Thermodesulfobium acidiphilum 3127-1 is an obligate anaerobe, chemolithoautotroph, thermophilic bacterium that was isolated from geothermally heated soil.

motile
rod-shaped
chemolithoautotroph
obligate 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	*Bacillota*
	Class	*Clostridia*
	Order	*Thermoanaerobacterales*
	Family	*Thermodesulfobiaceae*
	Genus	*Thermodesulfobium*
	Species	**Thermodesulfobium acidiphilum**
	Full Scientific Name (LPSN)	Thermodesulfobium acidiphilum Frolov et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.807

[Ref.: #43216]	Cell length	1-5 µm

[Ref.: #43216]	Cell width	0.5 µm

[Ref.: #43216]	Cell shape	rod-shaped

[Ref.: #43216]	Motility	yes
[Ref.: #43216]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #42869]

Culture medium

THERMODESULFOBIUM ACIDIPHILUM MEDIUM (DSMZ Medium 901a)

[Ref.: #42869]

Culture medium growth

[Ref.: #42869]

Culture medium link

Medium recipe at MediaDive

[Ref.: #42869]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #43216]			optimum	54 °C
[Ref.: #43216]			growth	37-65 °C

[Ref.: #43216]	Temperature range	thermophilic
[Ref.: #69480]	Temperature range	thermophilic Confidence in %99.431

	pH	Kind of pH		pH
[Ref.: #43216]			optimum	4.8-5.0
[Ref.: #43216]			growth	3.7-6.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43216]	Oxygen tolerance	obligate anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.035

[Ref.: #43216]

Nutrition type

chemolithoautotroph

[Ref.: #43216]	Type of spore	spore
[Ref.: #43216]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.964

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43216]		NaCl		maximum	1	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43216]	acetate ChEBI	-	growth
[Ref.: #43216]	butyrate ChEBI	-	growth
[Ref.: #43216]	carbon monoxide ChEBI	-	growth
[Ref.: #43216]	citrate ChEBI	-	growth
[Ref.: #43216]	dihydrogen ChEBI	+	electron donor
[Ref.: #43216]	dioxygen ChEBI	-	electron acceptor
[Ref.: #43216]	elemental sulfur ChEBI	-	electron acceptor
[Ref.: #43216]	ethanol ChEBI	-	growth
[Ref.: #43216]	formate ChEBI	+	electron donor
[Ref.: #43216]	fumarate ChEBI	-	electron acceptor
[Ref.: #43216]	fumarate ChEBI	-	growth
[Ref.: #43216]	glucose ChEBI	-	growth
[Ref.: #43216]	glycerol ChEBI	-	growth
[Ref.: #43216]	lactate ChEBI	-	growth
[Ref.: #43216]	lactose ChEBI	-	growth
[Ref.: #43216]	malate ChEBI	-	growth
[Ref.: #43216]	maltose ChEBI	-	growth
[Ref.: #43216]	methanol ChEBI	-	growth
[Ref.: #43216]	nitrate ChEBI	-	electron acceptor
[Ref.: #43216]	nitrite ChEBI	-	electron acceptor
[Ref.: #43216]	peptone	-	growth
[Ref.: #43216]	propanol ChEBI	-	growth
[Ref.: #43216]	propionate ChEBI	-	growth
[Ref.: #43216]	pyruvate ChEBI	-	growth
[Ref.: #43216]	succinamate ChEBI	-	growth
[Ref.: #43216]	sucrose ChEBI	-	growth
[Ref.: #43216]	sulfate ChEBI	+	electron acceptor
[Ref.: #43216]	sulfite ChEBI	-	electron acceptor
[Ref.: #43216]	thiosulfate ChEBI	+	electron acceptor
[Ref.: #43216]	yeast extract	-	growth
	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.: #42869]	Sample type/isolated from	geothermally heated soil
[Ref.: #42869]	Geographic location (country and/or sea, region)	Kamchatka, Kronotsky Nature Reserve, Uzon Caldera, Oil Site (elevation 654 m)
[Ref.: #42869]	Country	Russia
[Ref.: #42869]	Country ISO 3 Code	RUS
[Ref.: #42869]	Continent	Europe
[Ref.: #42869]	Geographic location	54.5004°/160.0010°

[Ref.: #43216]	Sample type/isolated from	geothermally heated soil sampled at the Oil Site
[Ref.: #43216]	Sampling date	2014-08
[Ref.: #43216]	Geographic location (country and/or sea, region)	Oil Site, Uzon Caldera, Kronotsky Nature Reserve, Kamchatka, Russia
[Ref.: #43216]	Country	Russia
[Ref.: #43216]	Country ISO 3 Code	RUS
[Ref.: #43216]	Continent	Asia
[Ref.: #43216]	Geographic location	54.0000°/160.0000°
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Condition	#Thermophilic (>45°C)	-
#Environmental	#Aquatic	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KU664659 (>99% sequence identity) for Thermodesulfobium acidiphilum from Microbeatlas

Aquatic Samples	100
Soil Samples
Animal Samples	8
Plant Samples	1
Total Samples	109

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

[Ref.: #42869]

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.: #42869]	Thermodesulfobium acidiphilum strain 3127-1 16S ribosomal RNA gene, partial sequence	KU664659	1544	ENA	1794699 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Thermodesulfobium acidiphilum 3127-1	GCA_003057965	complete	GenBank	1794699 tax ID	*
[Ref.: #66792]	Thermodesulfobium acidiphilum strain 3127-1	1794699.3	complete	PATRIC	1794699 tax ID	*

[Ref.: #43216]	GC-content	33.7 mol%
[Ref.: #42869]	GC-content	33.7 mol%	sequence analysis

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: Thermodesulfobium acidiphilum 3127-1 NCBI: GCA_003057965.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Thermodesulfobium acidiphilum 3127-1 NCBI: GCA_003057965.1
[Ref.: #69480]	flagellated	no	91.883	no
[Ref.: #69480]	gram-positive	no	97.577	no
[Ref.: #69480]	anaerobic	yes	99.231	yes
[Ref.: #69480]	halophile	no	93.062	yes
[Ref.: #69480]	spore-forming	no	94.561	no
[Ref.: #69480]	glucose-util	no	67.2	yes
[Ref.: #69480]	aerobic	no	98.6	no
[Ref.: #69480]	thermophile	yes	99.642	yes
[Ref.: #69480]	motile	yes	83.69	no
[Ref.: #69480]	glucose-ferment	no	71.983	no

Availability in culture collections External links

[Ref.: #42869]

Culture collection no.

DSM 102892, VKM B-3043

[Ref.: #96568]

SI-ID 398408

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Thermodesulfobium acidiphilum sp. nov., a thermoacidophilic, sulfate-reducing, chemoautotrophic bacterium from a thermal site.	Frolov EN, Kublanov IV, Toshchakov SV, Samarov NI, Novikov AA, Lebedinsky AV, Bonch-Osmolovskaya EA, Chernyh NA	Int J Syst Evol Microbiol	10.1099/ijsem.0.001745	2017	*

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 )

#42869

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102892

#43216

Evgenii N. Frolov, Ilya V. Kublanov, Stepan V. Toshchakov, Nazar I. Samarov, Andrei A. Novikov, Alexander V. Lebedinsky, Elizaveta A. Bonch-Osmolovskaya and Nikolai A. Chernyh: Thermodesulfobium acidiphilum sp. nov., a thermoacidophilic, sulfate-reducing, chemoautotrophic bacterium from a thermal site. IJSEM 67: 1482 - 1485 2017 ( DOI 10.1099/ijsem.0.001745 , PubMed 27995866 )

#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 .

#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 )

#96568

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-ID398408.1 )

* These data were automatically processed and therefore are not curated

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