Archive BacDiveID:10.13145/bacdive23328.20230509.8.1

Strain identifier

BacDive ID: 23328

Type strain:

Species: Thermacetogenium phaeum

Strain Designation: PB

Strain history: <- S. Spring, Leibniz-Institut DSMZ GmbH, Braunschweig, Germany; PB {2012}

NCBI tax ID(s): 1089553 (strain), 85874 (species)

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

General

@ref: 18937

BacDive-ID: 23328

DSM-Number: 26808

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, motile

description: Thermacetogenium phaeum PB is an anaerobe, spore-forming, thermophilic bacterium that was isolated from a co-culture of strain PB with Methanothermobacter thermautotrophicus .

NCBI tax id

NCBI tax id	Matching level
85874	species
1089553	strain

strain history

@ref: 18937
history: <- S. Spring, Leibniz-Institut DSMZ GmbH, Braunschweig, Germany; PB {2012}

doi: 10.13145/bacdive23328.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/bacillota
domain: Bacteria
phylum: Bacillota
class: Clostridia
order: Thermoanaerobacterales
family: Thermoanaerobacteraceae
genus: Thermacetogenium
species: Thermacetogenium phaeum
full scientific name: Thermacetogenium phaeum Hattori et al. 2000

@ref: 18937

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Thermoanaerobacterales

family: Thermoanaerobacteraceae

genus: Thermacetogenium

species: Thermacetogenium phaeum

full scientific name: Thermacetogenium phaeum Hattori et al. 2000

strain designation: PB

type strain: yes

Morphology

cell morphology

@ref	motility	confidence	gram stain
69480	yes	93.901
69480		100	positive

colony morphology

@ref: 18937
incubation period: 8-14 days

Culture and growth conditions

culture medium

@ref: 18937
name: THERMOACETOGENIUM MEDIUM (DSMZ Medium 880)
growth: yes
link: https://mediadive.dsmz.de/medium/880
composition: Name: THERMOACETOGENIUM MEDIUM (DSMZ Medium 880) Composition: Methanol 4.71429 g/l KHCO3 3.47222 g/l NH4Cl 0.992063 g/l NaCl 0.595238 g/l L-Cysteine HCl x H2O 0.595238 g/l Na2S x 9 H2O 0.297619 g/l KH2PO4 0.297619 g/l MgCl2 x 6 H2O 0.0992064 g/l CaCl2 x 2 H2O 0.0793651 g/l Na2-EDTA x 2 H2O 0.00515873 g/l FeCl2 x 4 H2O 0.0014881 g/l Sodium resazurin 0.000496032 g/l NaOH 0.000496032 g/l CoCl2 x 6 H2O 0.000188492 g/l MnCl2 x 4 H2O 9.92064e-05 g/l Pyridoxine hydrochloride 9.92064e-05 g/l ZnCl2 6.94444e-05 g/l (DL)-alpha-Lipoic acid 4.96032e-05 g/l p-Aminobenzoic acid 4.96032e-05 g/l Calcium D-(+)-pantothenate 4.96032e-05 g/l Nicotinic acid 4.96032e-05 g/l Riboflavin 4.96032e-05 g/l Thiamine HCl 4.96032e-05 g/l Na2MoO4 x 2 H2O 3.57143e-05 g/l NiCl2 x 6 H2O 2.38095e-05 g/l Folic acid 1.98413e-05 g/l Biotin 1.98413e-05 g/l H3BO3 5.95238e-06 g/l Na2WO4 x 2 H2O 3.96825e-06 g/l Na2SeO3 x 5 H2O 2.97619e-06 g/l CuCl2 x 2 H2O 1.98413e-06 g/l Vitamin B12 9.92064e-07 g/l Distilled water

culture temp

@ref	growth	type	temperature	range	confidence
18937	positive	growth	55	thermophilic
69480				thermophilic	97.703

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
18937	anaerobe
69480	anaerobe	100

spore formation

@ref: 69480
spore formation: yes
confidence: 99.999

Isolation, sampling and environmental information

isolation

@ref: 18937
sample type: a co-culture of strain PB with Methanothermobacter thermautotrophicus (DSM 12269)
host species: Methanothermobacter thermautotrophicus
country: Japan
origin.country: JPN
continent: Asia

isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Laboratory	#Lab enrichment
#Host	#Microbial	#Bacteria

taxonmaps

@ref: 69479
File name: preview.99_1015.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_176;96_583;97_682;98_792;99_1015&stattab=map
Last taxonomy: Thermacetogenium phaeum subclade
16S sequence: NR_024688
Sequence Identity:
Total samples: 119
soil counts: 19
aquatic counts: 36
animal counts: 51
plant counts: 13

Safety information

risk assessment

@ref: 18937
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 18937
description: Thermacetogenium phaeum DSM 12270 strain PB 16S ribosomal RNA, partial sequence
accession: NR_024688
length: 1462
database: nuccore
NCBI tax ID: 1089553

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Thermacetogenium phaeum DSM 12270	GCA_000305935	complete	ncbi	1089553
66792	Thermacetogenium phaeum DSM 12270	GCA_000519285	scaffold	ncbi	1089553
66792	Thermacetogenium phaeum DSM 12270	1089553.3	complete	patric	1089553
66792	Thermacetogenium phaeum DSM 12270	1089553.7	wgs	patric	1089553
66792	Thermacetogenium phaeum PB	2516653087	draft	img	1089553
66792	Thermacetogenium phaeum DSM 12270	2546826730	draft	img	1089553
66792	Thermacetogenium phaeum PB, DSM 12270	2521172702	complete	img	1089553

GC content

@ref: 18937
GC-content: 53.9
method: sequence analysis

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	yes	84	no
motile	yes	78.656	no
flagellated	no	94.039	no
gram-positive	no	78.636	no
anaerobic	yes	99.723	yes
aerobic	no	97.634	yes
halophile	no	94.843	no
spore-forming	yes	79.134	no
glucose-util	yes	75.798	no
thermophile	yes	99.304	no
glucose-ferment	no	71.464	no

External links

@ref: 18937

culture collection no.: DSM 26808, DSM 12270

straininfo link

@ref: 87545
straininfo: 49262

literature

topic: Metabolism
Pubmed-ID: 10939667
title: Thermacetogenium phaeum gen. nov., sp. nov., a strictly anaerobic, thermophilic, syntrophic acetate-oxidizing bacterium.
authors: Hattori S, Kamagata Y, Hanada S, Shoun H
journal: Int J Syst Evol Microbiol
DOI: 10.1099/00207713-50-4-1601
year: 2000
mesh: Acetates/*metabolism, Acetone/metabolism, Alcohols/metabolism, Anaerobiosis, Bacillus, Base Composition, Benzoquinones, Bioreactors/microbiology, Carbon Dioxide/metabolism, Cloning, Molecular, Coculture Techniques, Cysteine/metabolism, DNA, Bacterial/analysis/chemistry, DNA, Ribosomal/analysis, Formates/metabolism, Glycine/metabolism, Gram-Positive Endospore-Forming Bacteria/*classification/genetics/metabolism, Hydrogen/metabolism, Hydrogen-Ion Concentration, Molecular Sequence Data, Oxidation-Reduction, Pyruvic Acid/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sulfates/metabolism, Temperature
topic2: Phylogeny

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
18937	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26808)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-26808
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)
66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg		10.1093/nar/gkaa1025	BRENDA, the ELIXIR core data resource in 2021: new developments and updates	Nucleic Acids Res. 49: D498-D508 2020	33211880
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.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
69480	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
87545	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID49262.1	StrainInfo: A central database for resolving microbial strain identifiers