Alkalithermobacter paradoxus (DSM 7308, ATCC 51510, CIP 105527)

Name: Alkalithermobacter paradoxus (DSM 7308, ATCC 51510, CIP 105527)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2770

Type strain

Strain Designation JW-YL-7

Culture col. no. DSM 7308 ATCC 51510 CIP 105527 JW-YL-7

NCBI tax ID(s) 29349

Special Collections DSMZ CIP

Links

Alkalithermobacter paradoxus JW-YL-7 is an anaerobe, thermophilic prokaryote that was isolated from aeration pool, sewage plant.

anaerobe thermophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 43026

ATCC 51510,DSM 7308,CIP 105527

@ref 20215

Last LPSN update 2025-12-16 09:47:23

Domain Bacillati

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Tepidibacteraceae

Genus Alkalithermobacter

Species Alkalithermobacter paradoxus

Full scientific name Alkalithermobacter paradoxus (Li et al. 1993) Bello et al. 2024

Synonyms (1)

Clostridium paradoxum

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
3110	ALKALITHERMOBACTER MEDIUM (DSMZ Medium 616)		Medium recipe at MediaDive	Name: ALKALITHERMOBACTER MEDIUM (DSMZ Medium 616) Composition: Tryptone 10.0 g/l Na2CO3 5.3 g/l Yeast extract 5.0 g/l D-Glucose 3.0 g/l Na2HPO4 x 2 H2O 0.36 g/l Na2S x 9 H2O 0.2 g/l L-Cysteine HCl x H2O 0.2 g/l KCl 0.08 g/l Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
3110	positive	growth	55	thermophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
3110	anaerobe
125438	anaerobe	94.68
125439	anaerobe	97.3

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Wastewater
#Engineered	#Waste	#Water treatment plant

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
3110	aeration pool, sewage plant	Georgia, Athens	USA	USA	North America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
3110	1	Risk group (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
66792	ASM158456v1 assembly for Alkalithermobacter thermoalcaliphilus JW-YL-7 = DSM 7308	contig	GCA_001584565	1121328.3	2690315891	1121328	74.03
66792	IMG-taxon 2599185174 annotated assembly for Alkalithermobacter thermoalcaliphilus JW-YL-7 = DSM 7308	scaffold	GCA_900142555	1121328.12	2599185174	1121328	70

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	C.paradoxum 16S rRNA gene	Z69942	1410	29346
20218	Clostridium paradoxum small subunit ribosomal RNA	L06838	1467	29346
3110	C.paradoxum 16S rRNA gene (clone para24)	Z69929	1553	1121328

GC content

3110

GC-content (mol%)30.0

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: [Clostridium] paradoxum JW-YL-7 = DSM 7308
NCBI: GCA_900142555

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	97.30	no
125439	gram_stain	BacteriaNetⓘ	negative	63.80	no
125439	motility	BacteriaNetⓘ	yes	65.50	no
125439	spore_formation	BacteriaNetⓘ	no	64.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: [Clostridium] paradoxum JW-YL-7 = DSM 7308 DSM 7308
NCBI: GCA_900142555.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	66.70	no
125438	anaerobic	anaerobicⓘ	yes	94.68	yes
125438	aerobic	aerobicⓘ	no	98.12	no
125438	spore-forming	spore-formingⓘ	yes	71.21	no
125438	thermophilic	thermophileⓘ	yes	67.00	yes
125438	flagellated	motile2+ⓘ	yes	74.03	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	The Polyextremophilic Bacterium Clostridium paradoxum Attains Piezophilic Traits by Modulating Its Energy Metabolism and Cell Membrane Composition.	Scoma A, Garrido-Amador P, Nielsen SD, Roy H, Kjeldsen KU.	Appl Environ Microbiol	10.1128/aem.00802-19	2019
	Microbial membrane lipid adaptations to high hydrostatic pressure in the marine environment.	Tamby A, Sinninghe Damste JS, Villanueva L.	Front Mol Biosci	10.3389/fmolb.2022.1058381	2022
Enzymology	Structural investigations of the membrane-embedded rotor ring of the F-ATPase from Clostridium paradoxum.	Meier T, Ferguson SA, Cook GM, Dimroth P, Vonck J.	J Bacteriol	10.1128/jb.00934-06	2006
Metabolism	Biochemical and molecular characterization of a Na+-translocating F1Fo-ATPase from the thermoalkaliphilic bacterium Clostridium paradoxum.	Ferguson SA, Keis S, Cook GM.	J Bacteriol	10.1128/jb.00128-06	2006
Genetics	Hyperbolic rules of the cooperative organization of eukaryotic and prokaryotic genomes.	Petoukhov SV.	Biosystems	10.1016/j.biosystems.2020.104273	2020
Metabolism	An rRNA approach for assessing the role of obligate amino acid-fermenting bacteria in ruminal amino acid deamination.	Krause DO, Russell JB.	Appl Environ Microbiol	10.1128/aem.62.3.815-821.1996	1996
Genetics	Near-Complete Genome Sequence of Clostridium paradoxum Strain JW-YL-7.	Lancaster WA, Utturkar SM, Poole FL, Klingeman DM, Elias DA, Adams MW, Brown SD	Genome Announc	10.1128/genomeA.00229-16	2016
Phylogeny	Clostridium paradoxum DSM 7308T contains multiple 16S rRNA genes with heterogeneous intervening sequences.	Rainey FA, Ward-Rainey NL, Janssen PH, Hippe H, Stackebrandt E	Microbiology (Reading)	10.1099/13500872-142-8-2087	1996

References

#3110	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 7308
#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 )
#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) .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#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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Alkalithermobacter paradoxus (DSM 7308, ATCC 51510, CIP 105527)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001584565

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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