Archive BacDiveID:10.13145/bacdive16901.20230509.8.1

Strain identifier

BacDive ID: 16901

Type strain:

Species: Coprothermobacter platensis

Strain Designation: 3R

Strain history: <- C. Etchebehere, Universidad de la República, Montevideo, Uruguay; 3R <- C. Etchebehere {1995}

NCBI tax ID(s): 1259795 (strain), 108819 (species)

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

General

@ref: 4472

BacDive-ID: 16901

DSM-Number: 11748

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, Gram-negative

description: Coprothermobacter platensis 3R is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from anaerobic wastewater treatment reactor of baker yeast factory.

NCBI tax id

NCBI tax id	Matching level
108819	species
1259795	strain

strain history

@ref: 4472
history: <- C. Etchebehere, Universidad de la República, Montevideo, Uruguay; 3R <- C. Etchebehere {1995}

doi: 10.13145/bacdive16901.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/coprothermobacterota
domain: Bacteria
phylum: Coprothermobacterota
class: Coprothermobacteria
order: Coprothermobacterales
family: Coprothermobacteraceae
genus: Coprothermobacter
species: Coprothermobacter platensis
full scientific name: Coprothermobacter platensis Etchebehere et al. 1998

@ref: 4472

domain: Bacteria

phylum: Coprothermobacterota

class: Coprothermobacteria

order: Thermoanaerobacterales

family: Coprothermobacteraceae

genus: Coprothermobacter

species: Coprothermobacter platensis

full scientific name: Coprothermobacter platensis Etchebehere et al. 1998

strain designation: 3R

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: negative
confidence: 99.806

multimedia

@ref	multimedia content	caption	intellectual property rights
66793	EM_DSM_11748_1.jpg	electron microscopic image	© HZI/Manfred Rohde
66793	EM_DSM_11748_2.jpg	electron microscopic image	© HZI/Manfred Rohde
66793	EM_DSM_11748_3.jpg	electron microscopic image	© HZI/Manfred Rohde
66793	EM_DSM_11748_4.jpg	electron microscopic image	© HZI/Manfred Rohde
66793	EM_DSM_11748_5.jpg	electron microscopic image	© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@ref: 4472
name: COPROTHERMOBACTER PLATENSIS MEDIUM (DSMZ Medium 834)
growth: yes
link: https://mediadive.dsmz.de/medium/834
composition: Name: COPROTHERMOBACTER PLATENSIS MEDIUM (DSMZ Medium 834) Composition: Yeast extract 9.97009 g/l Meat peptone 4.98504 g/l Tryptone 4.98504 g/l NaCl 0.598205 g/l KH2PO4 0.299103 g/l L-Cysteine HCl x H2O 0.249252 g/l MgCl2 x 6 H2O 0.0997009 g/l CaCl2 x 2 H2O 0.0797607 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

culture temp

@ref	growth	type	temperature	range	confidence
4472	positive	growth	55	thermophilic
69480				thermophilic	98.814

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
4472	anaerobe
69480	anaerobe	99.638

spore formation

@ref: 69480
spore formation: no
confidence: 99.993

Isolation, sampling and environmental information

isolation

@ref: 4472
sample type: anaerobic wastewater treatment reactor of baker yeast factory
country: Uruguay
origin.country: URY
continent: Middle and South America

isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Industrial wastewater
#Condition	#Anoxic (anaerobic)

taxonmaps

@ref: 69479
File name: preview.99_689.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15913;96_426;97_484;98_555;99_689&stattab=map
Last taxonomy: Coprothermobacter platensis subclade
16S sequence: NR_026366
Sequence Identity:
Total samples: 114
soil counts: 13
aquatic counts: 91
animal counts: 3
plant counts: 7

Safety information

risk assessment

@ref: 4472
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 4472
description: Coprothermobacter platensis strain 3R 16S ribosomal RNA, partial sequence
accession: NR_026366
length: 1446
database: nuccore
NCBI tax ID: 108819

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Coprothermobacter platensis DSM 11748	GCA_000378005	scaffold	ncbi	1259795
66792	Coprothermobacter platensis DSM 11748	1259795.3	wgs	patric	1259795
66792	Coprothermobacter platensis DSM 11748	2522572051	draft	img	1259795

GC content

@ref: 4472
GC-content: 42.7
method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	yes	79	no
motile	yes	82.174	no
flagellated	no	90.723	no
gram-positive	no	90.489	no
anaerobic	yes	99.603	yes
aerobic	no	98.401	yes
halophile	no	95.668	no
spore-forming	no	91.998	no
glucose-util	yes	86.465	no
thermophile	yes	100	yes
glucose-ferment	yes	61.751	no

External links

@ref: 4472

culture collection no.: DSM 11748

straininfo link

@ref: 85907
straininfo: 49167

literature

topic: Phylogeny
Pubmed-ID: 9828430
title: Coprothermobacter platensis sp. nov., a new anaerobic proteolytic thermophilic bacterium isolated from an anaerobic mesophilic sludge.
authors: Etchebehere C, Pavan ME, Zorzopulos J, Soubes M, Muxi L
journal: Int J Syst Bacteriol
DOI: 10.1099/00207713-48-4-1297
year: 1998
mesh: Anaerobiosis, Anti-Bacterial Agents/pharmacology, Base Composition, Bioreactors, DNA, Bacterial/chemistry, DNA, Ribosomal/chemistry, Euryarchaeota/metabolism, Gram-Negative Anaerobic Bacteria/*classification/*isolation & purification/physiology, Microbial Sensitivity Tests, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Terminology as Topic, Thiosulfates/metabolism, Waste Disposal, Fluid
topic2: Metabolism

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
4472	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11748)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-11748
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)
66793	Mukherjee et al.		10.1038/nbt.3886	GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life	35: 676-683 2017	28604660
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)
85907	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID49167.1	StrainInfo: A central database for resolving microbial strain identifiers