Archive BacDiveID:10.13145/bacdive167134.20230509.8.1

Strain identifier

BacDive ID: 167134

Type strain:

Species: Aquirufa beregesia

Strain Designation: 50C-KIRBA

Strain history: CIP <- 2019, M. Hahn, Innsbruck Univ., Mondsee, Austria: strain 50C-KIRBA

NCBI tax ID(s): 2516556 (species)

General

@ref: 20215

BacDive-ID: 167134

DSM-Number: 108552

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, rod-shaped

description: Aquirufa beregesia 50C-KIRBA is a mesophilic, Gram-negative, rod-shaped bacterium that was isolated from Environment, Freshwater.

NCBI tax id

NCBI tax id: 2516556
Matching level: species

strain history

@ref	history
68583	<- M. Hahn, Inst. Microbiology, Univ. Innsbruck, Austria; 50C-KIRBA <- J. Schmidt
116788	CIP <- 2019, M. Hahn, Innsbruck Univ., Mondsee, Austria: strain 50C-KIRBA

doi: 10.13145/bacdive167134.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/bacteroidota
domain: Bacteria
phylum: Bacteroidota
class: Cytophagia
order: Cytophagales
family: Cytophagaceae
genus: Aquirufa
species: Aquirufa beregesia
full scientific name: Aquirufa beregesia Pitt et al. 2020

@ref: 20215

domain: Bacteria

phylum: Bacteroidota

class: Cytophagia

order: Cytophagales

family: Cytophagaceae

genus: Aquirufa

species: Aquirufa beregesia

full scientific name: Aquirufa beregesia Pitt et al. 2020

strain designation: 50C-KIRBA

type strain: yes

Morphology

cell morphology

@ref: 116788
gram stain: negative
cell shape: rod-shaped
motility: no

multimedia

@ref: 68583
multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_108552.jpg
caption: Micrograph of DSM 108552. Scale bar represents 2 um.
intellectual property rights: Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH

Culture and growth conditions

culture medium

@ref	name	growth	link
68583	R2A MEDIUM (DSMZ Medium 830)	yes	https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium830.pdf
116788	CIP Medium 566	yes	https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@ref: 68583
growth: positive
type: growth
temperature: 25
range: mesophilic

Isolation, sampling and environmental information

isolation

@ref: 116788
sample type: Environment, Freshwater
geographic location: Salzburg
country: Austria
origin.country: AUT
continent: Europe
isolation date: 2018-04-17

taxonmaps

@ref: 69479
File name: preview.99_62116.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_200;96_6432;97_7708;98_44045;99_62116&stattab=map
Last taxonomy: Aquirufa nivalisilvae subclade
16S sequence: MK449346
Sequence Identity:
Total samples: 3726
soil counts: 147
aquatic counts: 3247
animal counts: 326
plant counts: 6

Safety information

risk assessment

@ref: 116788
biosafety level: 1
biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

@ref: 20215
description: Aquirufa beregesia strain 50C-KIRBA 16S ribosomal RNA gene, partial sequence
accession: MK449346
length: 1386
database: ena
NCBI tax ID: 2516556

Genome sequences

@ref: 66792
description: Aquirufa beregesia 50C-KIRBA
accession: GCA_011090385
assembly level: scaffold
database: ncbi
NCBI tax ID: 2516556

GC content

@ref: 68583
GC-content: 38.5
method: sequence analysis

Genome-based predictions

predictions

trait	prediction	confidence	training_data
motile	no	95.52	no
flagellated	no	98.544	no
gram-positive	no	97.263	no
anaerobic	no	99.245	no
aerobic	yes	88.808	no
halophile	no	95.056	no
spore-forming	no	96.031	no
thermophile	no	97.916	yes
glucose-util	yes	83.147	no
glucose-ferment	no	88.838	no

External links

@ref: 20215

culture collection no.: CIP 111736, LMG 31501, DSM 108552

straininfo link

@ref: 114898
straininfo: 402068

literature

topic: Phylogeny
Pubmed-ID: 32658638
title: Aquirufa ecclesiirivi sp. nov. and Aquirufa beregesia sp. nov., isolated from a small creek and classification of Allopseudarcicella aquatilis as a later heterotypic synonym of Aquirufa nivalisilvae.
authors: Pitt A, Koll U, Schmidt J, Hahn MW
journal: Int J Syst Evol Microbiol
DOI: 10.1099/ijsem.0.004319
year: 2020
mesh: Austria, Bacterial Typing Techniques, Base Composition, Cytophagaceae/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fresh Water/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
topic2: Transcriptome

Reference

@id	authors	title	doi/url	catalogue
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	10.1099/ijsem.0.004332
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)	https://diaspora-project.de/progress.html#genomes
68583	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-108552	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 108552)
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.	MicrobeAtlas 1.0 beta	https://microbeatlas.org/
114898	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.	StrainInfo: A central database for resolving microbial strain identifiers	10.60712/SI-ID402068.1
116788	Curators of the CIP		https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20111736	Collection of Institut Pasteur (CIP 111736)