Archive BacDiveID:10.13145/bacdive17600.20221219.7.1

Strain identifier

BacDive ID: 17600

Type strain:

Species: Xanthomonas vasicola

Strain Designation: F465, ICMP, VdM 71

Strain history: <- LMG <- NCPPB <- D. Dye; YW5 <- D. Watson; F465

NCBI tax ID(s): 56459 (species)

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

General

@ref: 6647

BacDive-ID: 17600

DSM-Number: 16926

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, plant pathogen

description: Xanthomonas vasicola F465 is a mesophilic plant pathogen that was isolated from red-brown leaf-stripe in Sorghum bicolor.

NCBI tax id

NCBI tax id: 56459
Matching level: species

strain history: <- LMG <- NCPPB <- D. Dye; YW5 <- D. Watson; F465

doi: 10.13145/bacdive17600.20221219.7.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Gammaproteobacteria
order: Lysobacterales
family: Lysobacteraceae
genus: Xanthomonas
species: Xanthomonas vasicola
full scientific name: Xanthomonas vasicola Vauterin et al. 1995

@ref: 6647

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Xanthomonas

species: Xanthomonas vasicola

full scientific name: Xanthomonas vasicola Vauterin et al. 1995

strain designation: F465, ICMP, VdM 71

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: negative
confidence: 97.849

Culture and growth conditions

culture medium

@ref	name	growth	link	composition
6647	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)	yes	https://mediadive.dsmz.de/medium/693	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
6647	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	yes	https://mediadive.dsmz.de/medium/92	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@ref: 6647
growth: positive
type: growth
temperature: 30
range: mesophilic

Physiology and metabolism

spore formation

@ref: 69480
spore formation: no
confidence: 95.869

halophily

@ref: 69480
halophily level: non-halophilic
confidence: 88.763

Isolation, sampling and environmental information

isolation

@ref: 6647
sample type: red-brown leaf-stripe in Sorghum bicolor
host species: Sorghum bicolor
country: New Zealand
origin.country: NZL
continent: Australia and Oceania

isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Leaf (Phyllosphere)

taxonmaps

@ref: 69479
File name: preview.99_92.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_73;97_76;98_83;99_92&stattab=map
Last taxonomy: Xanthomonas
16S sequence: Y10755
Sequence Identity:
Total samples: 52152
soil counts: 10026
aquatic counts: 6826
animal counts: 28252
plant counts: 7048

Safety information

risk assessment

@ref: 6647
pathogenicity plant: yes
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref	description	accession	length	database	NCBI tax ID
20218	Xanthomonas vasicola strain LMG736 16S-23S ribosomal RNA intergenic spacer, complete sequence	AF209765	510	ena	56459
6647	X.vasicola 16S rRNA gene	Y10755	1502	ena	56459

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Xanthomonas vasicola CFBP2543	GCA_002939925	contig	ncbi	56459
66792	Xanthomonas vasicola NCPPB 2417	GCA_000772705	contig	ncbi	56459
66792	Raoultella ornithinolytica DSM 16926	GCA_013425975	complete	ncbi	54291
66792	Raoultella ornithinolytica strain DSM 16926	54291.283	complete	patric	54291
66792	Xanthomonas vasicola NCPPB 2417	56459.22	wgs	patric	56459
66792	Xanthomonas vasicola strain CFBP2543	56459.70	wgs	patric	56459
66792	Xanthomonas vasicola NCPPB 2417	2630968353	draft	img	56459
66792	Xanthomonas vasicola CFBP2543	2880466697	draft	img	56459
66792	Escherichia coli 21-MO00799	GCA_020515255	contig	patric	562

External links

@ref: 6647

culture collection no.: DSM 16926, CFBP 2543, LMG 736, LMG 8707, NCPPB 2417

straininfo link

@ref	passport
20218	http://www.straininfo.net/strains/620975
20218	http://www.straininfo.net/strains/24513
20218	http://www.straininfo.net/strains/24512
20218	http://www.straininfo.net/strains/24516
20218	http://www.straininfo.net/strains/24517
20218	http://www.straininfo.net/strains/24519

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
6647	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16926)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-16926
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
20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.		10.1016/j.syapm.2013.11.002	StrainInfo introduces electronic passports for microorganisms.	Syst Appl Microbiol. 37: 42-50 2014	24321274
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)
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)