Archive BacDiveID:10.13145/bacdive18064.20230509.8.1

Strain identifier

BacDive ID: 18064

Type strain:

Species: Thermovenabulum gondwanense

Strain Designation: R270

Strain history: <- Christopher Ogg ,Griffith Univ., Australia

NCBI tax ID(s): 520767 (species)

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

General

@ref: 15561

BacDive-ID: 18064

DSM-Number: 21133

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, Gram-positive, motile, rod-shaped

description: Thermovenabulum gondwanense R270 is an anaerobe, thermophilic, Gram-positive bacterium that was isolated from microbial mats.

NCBI tax id

NCBI tax id: 520767
Matching level: species

strain history

@ref	history
15561	<- C. Ogg, Griffith Univ., Nathan Campus, Australia; R270 <- C. Ogg {2007}
67771	<- Christopher Ogg ,Griffith Univ., Australia

doi: 10.13145/bacdive18064.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/bacillota
domain: Bacteria
phylum: Bacillota
class: Clostridia
order: Thermosediminibacterales
family: Thermosediminibacteraceae
genus: Thermovenabulum
species: Thermovenabulum gondwanense
full scientific name: Thermovenabulum gondwanense Ogg et al. 2010

@ref: 15561

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Thermoanaerobacterales

family: Thermosediminibacteraceae

genus: Thermovenabulum

species: Thermovenabulum gondwanense

full scientific name: Thermovenabulum gondwanense Ogg et al. 2010 emend. Pradel et al. 2013

strain designation: R270

type strain: yes

Morphology

cell morphology

@ref	gram stain	cell shape	motility	flagellum arrangement
29267	positive	rod-shaped	yes
67771		rod-shaped	yes	peritrichous
67771		curved-shaped
67771	positive

Culture and growth conditions

culture medium

@ref: 15561
name: THERMOVENABULUM MEDIUM (DSMZ Medium 1255)
growth: yes
link: https://mediadive.dsmz.de/medium/1255
composition: Name: THERMOVENABULUM MEDIUM (DSMZ Medium 1255) Composition: PIPES 3.75494 g/l Yeast extract 1.97628 g/l Tryptone 1.97628 g/l D-Glucose 1.97628 g/l NaCl 0.988142 g/l NH4Cl 0.988142 g/l K2HPO4 0.741107 g/l Na2S x 9 H2O 0.494071 g/l KH2PO4 0.375494 g/l MgCl2 x 6 H2O 0.0988142 g/l CaCl2 x 2 H2O 0.0988142 g/l HCl 0.0247036 g/l FeCl2 x 4 H2O 0.0148221 g/l CoCl2 x 6 H2O 0.00187747 g/l MnCl2 x 4 H2O 0.000988142 g/l ZnCl2 0.0006917 g/l FeSO4 0.000494071 g/l Sodium resazurin 0.000494071 g/l Na2MoO4 x 2 H2O 0.000355731 g/l NiCl2 x 6 H2O 0.000237154 g/l Pyridoxine hydrochloride 9.88142e-05 g/l H3BO3 5.92885e-05 g/l Thiamine HCl 4.94071e-05 g/l Riboflavin 4.94071e-05 g/l Calcium D-(+)-pantothenate 4.94071e-05 g/l p-Aminobenzoic acid 4.94071e-05 g/l (DL)-alpha-Lipoic acid 4.94071e-05 g/l Nicotinic acid 4.94071e-05 g/l CuCl2 x 2 H2O 1.97628e-05 g/l Folic acid 1.97628e-05 g/l Biotin 1.97628e-05 g/l Vitamin B12 9.88142e-07 g/l Distilled water

culture temp

@ref	growth	type	temperature	range
15561	positive	growth	65	thermophilic
29267	positive	growth	50-70	thermophilic
29267	positive	optimum	65	thermophilic
67771	positive	growth	65	thermophilic

culture pH

@ref	ability	type	pH	PH range
29267	positive	growth	06-09	alkaliphile
29267	positive	optimum	7

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance
15561	anaerobe
29267	anaerobe
67771	anaerobe

spore formation

@ref: 29267
spore formation: no

halophily

@ref: 29267
salt: NaCl
growth: positive
tested relation: growth
concentration: <2 %

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent	latitude	longitude
15561	microbial mats	Queensland, Great Artesian Basin, runoff channel of the New Lorne Bore	Australia	AUS	Australia and Oceania	-24.9133	145.138
67771	From microbial mat	runoff channel of the New Lorne Bore, Great Artesian Basin, Queensland	Australia	AUS	Australia and Oceania

isolation source categories

Cat1: #Environmental
Cat2: #Microbial community
Cat3: #Microbial mat

taxonmaps

@ref: 69479
File name: preview.99_5418.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_499;96_2628;97_3218;98_4042;99_5418&stattab=map
Last taxonomy: Thermovenabulum gondwanense subclade
16S sequence: EU443729
Sequence Identity:
Total samples: 31
soil counts: 1
aquatic counts: 28
animal counts: 2

Safety information

risk assessment

@ref: 15561
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 15561
description: Thermovenabulum gondwanense strain R270 16S ribosomal RNA gene, partial sequence
accession: EU443729
length: 1424
database: ena
NCBI tax ID: 520767

Genome sequences

@ref: 66792
description: Thermovenabulum gondwanense R270
accession: GCA_001601575
assembly level: contig
database: ncbi
NCBI tax ID: 520767

GC content

@ref	GC-content	method
15561	41±1	thermal denaturation, midpoint method (Tm)
29267	41
67771	40.0-42.0

Genome-based predictions

predictions

trait	prediction	confidence	training_data
flagellated	no	90.109	no
gram-positive	no	81.975	no
anaerobic	yes	99.457	yes
aerobic	no	97.516	yes
halophile	no	91.737	no
spore-forming	no	56.938	yes
glucose-util	yes	88.852	no
motile	yes	89.721	no
thermophile	yes	99.999	yes
glucose-ferment	yes	52.2	no

External links

@ref: 15561

culture collection no.: DSM 21133, KCTC 5616

straininfo link

@ref: 87052
straininfo: 396918

literature

topic: Phylogeny
Pubmed-ID: 19666811
title: Thermovenabulum gondwanense sp. nov., a thermophilic anaerobic Fe(III)-reducing bacterium isolated from microbial mats thriving in a Great Artesian Basin bore runoff channel.
authors: Ogg CD, Greene AC, Patel BKC
journal: Int J Syst Evol Microbiol
DOI: 10.1099/ijs.0.009886-0
year: 2009
mesh: Australia, Bacteria, Anaerobic/*classification/genetics/*growth & development/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Ferric Compounds/*metabolism, Fresh Water/*microbiology, Genes, rRNA, *Hot Temperature, Molecular Sequence Data, Oxidation-Reduction, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity
topic2: Stress

Reference

@id	authors	catalogue	doi/url	title	ID_cross_reference	pubmed	journal
15561	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21133)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-21133
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
29267	Barberan A, Caceres Velazquez H, Jones S, Fierer N.		10.1128/mSphere.00237-17	Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information	25685	28776041
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		33211880	Nucleic Acids Res. 49: D498-D508 2020
67771	Curators of the KCTC		https://kctc.kribb.re.kr/En/Kctc
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
87052	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID396918.1	StrainInfo: A central database for resolving microbial strain identifiers