Archive BacDiveID:10.13145/bacdive158083.20250331.9.3

Strain identifier

BacDive ID: 158083

Type strain:

Species: Methylosinus sp.

Strain Designation: PW1

Strain history: <- A. Vorobev, Univ. of Washington, Seattle, USA; PW1 <- M. G. Kalyuzhnaya <- A. J. Auman

NCBI tax ID(s): 427 (species)

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

General

@ref: 64657

BacDive-ID: 158083

DSM-Number: 24492

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

description: Methylosinus sp. PW1 is a mesophilic, Gram-negative bacterium that was isolated from sediment.

NCBI tax id

NCBI tax id: 427
Matching level: species

strain history

@ref: 64657
history: <- A. Vorobev, Univ. of Washington, Seattle, USA; PW1 <- M. G. Kalyuzhnaya <- A. J. Auman

doi: 10.13145/bacdive158083.20250331.9.3

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Alphaproteobacteria
order: Hyphomicrobiales
family: Methylocystaceae
genus: Methylosinus
species: Methylosinus sp.
full scientific name: Methylosinus (ex Whittenbury et al. 1970) Bowman et al. 1993

@ref: 64657

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Methylocystaceae

genus: Methylosinus

species: Methylosinus sp.

full scientific name: Methylosinus sp.

strain designation: PW1

type strain: no

Morphology

cell morphology

@ref	gram stain	confidence
125438	negative	97
125439	negative	97.3

Culture and growth conditions

culture medium

@ref: 64657
name: MINERAL MEDIUM (DSMZ Medium 1007)
growth: yes
link: https://mediadive.dsmz.de/medium/1007
composition: Name: MINERAL MEDIUM (DSMZ Medium 1007) Composition: KNO3 0.25 g/l KH2PO4 0.1 g/l MgSO4 x 7 H2O 0.05 g/l CaCl2 x 2 H2O 0.01 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l CoCl2 x 6 H2O 0.0002 g/l CuCl2 x 5 H2O 0.0001 g/l ZnSO4 x 7 H2O 0.0001 g/l Na2MoO4 3e-05 g/l MnCl2 x 4 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l Distilled water

culture temp

@ref: 64657
growth: positive
type: growth
temperature: 25

Physiology and metabolism

oxygen tolerance

@ref: 125439
oxygen tolerance: aerobe
confidence: 93.2

spore formation

@ref: 125439
spore formation: no
confidence: 95.6

Isolation, sampling and environmental information

isolation

@ref: 64657
sample type: sediment
geographic location: LakeWashington
country: USA
origin.country: USA
continent: North America

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Sediment
#Environmental	#Terrestrial	#Sediment

taxonmaps

@ref: 69479
File name: preview.99_1539.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_208;97_227;98_1215;99_1539&stattab=map
Last taxonomy: Methylosinus
16S sequence: AF150802
Sequence Identity:
Total samples: 5561
soil counts: 930
aquatic counts: 3886
animal counts: 346
plant counts: 399

Sequence information

16S sequences

@ref: 64657
description: Methylosinus sp. PW1 16S ribosomal RNA gene, partial sequence
accession: AF150802
length: 1452
database: nuccore
NCBI tax ID: 107636

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Methylosinus sp. PW1	GCA_000745215	contig	ncbi	107636
66792	Methylosinus sp. PW1	107636.3	wgs	patric	107636
66792	Methylosinus sp. PW1	2582581241	draft	img	107636

Genome-based predictions

predictions

@ref	model	trait	description	prediction	confidence	training_data
125439	BacteriaNet	oxygen_tolerance	Oxygenic conditions needed for growth	aerobe	93.2
125439	BacteriaNet	gram_stain	Reaction to gram-staining	negative	97.3
125439	BacteriaNet	motility	Ability to perform movement	yes	55.1
125439	BacteriaNet	spore_formation	Ability to form endo- or exospores	no	95.6
125438	gram-positive	gram-positive	Positive reaction to Gram-staining	no	97	no
125438	anaerobic	anaerobic	Ability to grow under anoxygenic conditions (including facultative anaerobes)	no	85.811	no
125438	spore-forming	spore-forming	Ability to form endo- or exospores	no	86.899	no
125438	aerobic	aerobic	Ability to grow under oxygenic conditions (including facultative aerobes)	yes	74.19	no
125438	thermophile	thermophilic	Ability to grow at temperatures above or equal to 45°C	no	95.124	no
125438	motile2+	flagellated	Ability to perform flagellated movement	yes	67.743	no

External links

@ref: 64657

culture collection no.: DSM 24492

straininfo link

@ref: 110926
straininfo: 408043

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
64657	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-24492	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24492)
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
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/
110926	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-ID408043.1
125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann	Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets	10.1101/2024.08.12.607695
125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy	deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1	https://github.com/GenomeNet/deepG