Archive BacDiveID:10.13145/bacdive11833.20250331.9.3

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BacDive ID 11833

Type strain

Strain Designation SI

Variant Co-culture with BacDive ID 11834

Culture col. no. DSM 13744 JCM 10971 SI

NCBI tax ID(s) 110500

Links

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For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 5142

BacDive-ID: 11833

DSM-Number: 13744

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic

description: Pelotomaculum thermopropionicum SI is an anaerobe, thermophilic bacterium that was isolated from granular sludge in a thermophilic upflow anaerobic sludge blanket reactor.

NCBI tax id

NCBI tax id: 110500
Matching level: species

strain history

@ref	history
5142	<- H. Imachi, Nagaoka Univ. Technology, Japan; SI <- H. Imachi {1999}
67770	H. Imachi SI.

doi: 10.13145/bacdive11833.20250331.9.3

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/bacillota
domain: Bacteria
phylum: Bacillota
class: Clostridia
order: Eubacteriales
family: Peptococcaceae
genus: Pelotomaculum
species: Pelotomaculum thermopropionicum
full scientific name: Pelotomaculum thermopropionicum Imachi et al. 2002

@ref: 5142

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Peptococcaceae

genus: Pelotomaculum

species: Pelotomaculum thermopropionicum

full scientific name: Pelotomaculum thermopropionicum Imachi et al. 2002

strain designation: SI

variant: Co-culture with BacDive ID 11834

type strain: yes

Culture and growth conditions

culture medium

@ref: 5142
name: PELOTOMACULUM MEDIUM (DSMZ Medium 960)
growth: yes
link: https://mediadive.dsmz.de/medium/960
composition: Name: PELOTOMACULUM MEDIUM (DSMZ Medium 960) Composition: Na-pyruvate 2.19561 g/l Na2CO3 1.49701 g/l NH4Cl 0.538922 g/l Na2S x 9 H2O 0.299401 g/l L-Cysteine HCl x H2O 0.299401 g/l MgCl2 x 6 H2O 0.199601 g/l KH2PO4 0.139721 g/l Yeast extract 0.0998004 g/l Nitrilotriacetic acid 0.0127745 g/l NaCl 0.000998004 g/l FeCl2 x 4 H2O 0.000998004 g/l Sodium resazurin 0.000499002 g/l ZnCl2 9.98004e-05 g/l Pyridoxine hydrochloride 9.98004e-05 g/l CaCl2 x 2 H2O 9.98004e-05 g/l NiCl2 x 6 H2O 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l Thiamine HCl 4.99002e-05 g/l Na2WO4 x 2 H2O 3.99202e-05 g/l CoCl2 x 6 H2O 2.99401e-05 g/l Na2SeO3 x 5 H2O 2.99401e-05 g/l Na2MoO4 x 2 H2O 2.99401e-05 g/l CuCl2 1.99601e-05 g/l Biotin 1.99601e-05 g/l Folic acid 1.99601e-05 g/l H3BO3 9.98004e-06 g/l Vitamin B12 9.98004e-07 g/l Distilled water

culture temp

@ref	growth	type	temperature
5142	positive	growth	55
67770	positive	growth	55

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
5142	anaerobe
125439	anaerobe	99.7

observation

@ref: 67770
observation: quinones: MK-7, MK-7(H₄)

Isolation, sampling and environmental information

isolation

@ref	sample type	country	origin.country	continent
5142	granular sludge in a thermophilic upflow anaerobic sludge blanket reactor	Japan	JPN	Asia
67770	Methanogenic granular sludge in a thermophilic upflow anaerobic sludge blanket reactor

isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Bioreactor
#Engineered	#Waste	#Activated sludge
#Condition	#Anoxic (anaerobic)

Safety information

risk assessment

@ref: 5142
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 5142
description: Pelotomaculum thermopropionicum SI gene for 16S rRNA
accession: AB035723
length: 1532
database: nuccore
NCBI tax ID: 370438

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Pelotomaculum thermopropionicum SI	GCA_000010565	complete	ncbi	370438
66792	Pelotomaculum thermopropionicum SI	370438.4	complete	patric	370438
66792	Pelotomaculum thermopropionicum SI	640427128	complete	img	370438

GC content

@ref	GC-content	method
5142	52.8
67770	52.8	high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@ref	model	trait	description	prediction	confidence	training_data
125438	gram-positive	gram-positive	Positive reaction to Gram-staining	yes	57.312	no
125438	anaerobic	anaerobic	Ability to grow under anoxygenic conditions (including facultative anaerobes)	yes	86.146	yes
125438	aerobic	aerobic	Ability to grow under oxygenic conditions (including facultative aerobes)	no	92.321	no
125438	spore-forming	spore-forming	Ability to form endo- or exospores	yes	77.408	no
125438	thermophile	thermophilic	Ability to grow at temperatures above or equal to 45°C	yes	56.613	no
125438	motile2+	flagellated	Ability to perform flagellated movement	yes	65.407	no
125439	BacteriaNet	spore_formation	Ability to form endo- or exospores	yes	82.2
125439	BacteriaNet	motility	Ability to perform movement	yes	63.3
125439	BacteriaNet	gram_stain	Reaction to gram-staining	positive	62.2
125439	BacteriaNet	oxygen_tolerance	Oxygenic conditions needed for growth	anaerobe	99.7

External links

@ref: 5142

culture collection no.: DSM 13744, JCM 10971

straininfo link

@ref: 81052
straininfo: 100857

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	12361280	Pelotomaculum thermopropionicum gen. nov., sp. nov., an anaerobic, thermophilic, syntrophic propionate-oxidizing bacterium.	Imachi H, Sekiguchi Y, Kamagata Y, Hanada S, Ohashi A, Harada H	Int J Syst Evol Microbiol	10.1099/00207713-52-5-1729	2002	Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Fermentation, Hot Temperature, Microscopy, Electron, Molecular Sequence Data, Peptococcaceae/*classification/genetics/isolation & purification/metabolism, Phenotype, Phylogeny, Propionates/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Terminology as Topic	Stress
Metabolism	27342638	In vitro synthesis of polyhydroxyalkanoates using thermostable acetyl-CoA synthetase, CoA transferase, and PHA synthase from thermotorelant bacteria.	Tajima K, Han X, Hashimoto Y, Satoh Y, Satoh T, Taguchi S	J Biosci Bioeng	10.1016/j.jbiosc.2016.06.001	2016	3-Hydroxybutyric Acid/metabolism, Acetate-CoA Ligase/isolation & purification/metabolism, Acetyl Coenzyme A/metabolism, Acyltransferases/isolation & purification/metabolism, Coenzyme A-Transferases/isolation & purification/metabolism, Enzyme Stability, Hydroxybutyrates/metabolism, Lactic Acid/metabolism, Peptococcaceae/enzymology/metabolism, Polyesters/metabolism, Polyhydroxyalkanoates/biosynthesis, Temperature, Thermus thermophilus/enzymology/metabolism	Enzymology

Reference

@id	authors	catalogue	doi/url	title
5142	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13744)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-13744
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770	Curators of the JCM		https://jcm.brc.riken.jp/en/
81052	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID100857.1	StrainInfo: A central database for resolving microbial strain identifiers
125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann		10.1101/2024.08.12.607695	Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy		https://github.com/GenomeNet/deepG	deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1

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Content

About us

Archive

General

NCBI tax id

strain history

Name and taxonomic classification

LPSN

Culture and growth conditions

culture medium

culture temp

Physiology and metabolism

oxygen tolerance

observation

Isolation, sampling and environmental information

isolation

isolation source categories

Safety information

risk assessment

Sequence information

16S sequences

Genome sequences

GC content

Genome-based predictions

predictions

External links

straininfo link

literature

Reference

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