Archive BacDiveID:10.13145/bacdive17589.20221219.7.1

Strain identifier

BacDive ID: 17589

Type strain:

Species: Xanthomonas hyacinthi

Strain history: <- NCPPB <- E. van Slogteren

NCBI tax ID(s): 1440765 (strain), 56455 (species)

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

General

@ref: 7869

BacDive-ID: 17589

DSM-Number: 19077

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

description: Xanthomonas hyacinthi DSM 19077 is a mesophilic plant pathogen that was isolated from Hyacinthus orientalis.

NCBI tax id

NCBI tax id	Matching level
56455	species
1440765	strain

strain history: <- NCPPB <- E. van Slogteren

doi: 10.13145/bacdive17589.20221219.7.1

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 hyacinthi
full scientific name: Xanthomonas hyacinthi (ex Wakker 1883) Vauterin et al. 1995

@ref: 7869

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Xanthomonas

species: Xanthomonas hyacinthi

full scientific name: Xanthomonas hyacinthi (ex Wakker 1883) Vauterin et al. 1995

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: negative
confidence: 99.461

Culture and growth conditions

culture medium

@ref: 7869
name: NUTRIENT AGAR (DSMZ Medium 1)
growth: yes
link: https://mediadive.dsmz.de/medium/1
composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@ref: 7869
growth: positive
type: growth
temperature: 30
range: mesophilic

Physiology and metabolism

spore formation

@ref: 69480
spore formation: no
confidence: 98.622

halophily

@ref: 69480
halophily level: non-halophilic
confidence: 98.029

Isolation, sampling and environmental information

isolation

@ref: 7869
sample type: Hyacinthus orientalis
country: Netherlands
origin.country: NLD
continent: Europe

isolation source categories

Cat1: #Host
Cat2: #Plants
Cat3: #Herbaceous plants (Grass,Crops)

taxonmaps

@ref: 69479
File name: preview.99_399.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_73;97_76;98_333;99_399&stattab=map
Last taxonomy: Xanthomonas
16S sequence: Y10754
Sequence Identity:
Total samples: 20017
soil counts: 5101
aquatic counts: 3769
animal counts: 5827
plant counts: 5320

Safety information

risk assessment

@ref: 7869
pathogenicity plant: yes
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 7869
description: X.hyacinthi 16S rRNA gene
accession: Y10754
length: 1500
database: ena
NCBI tax ID: 56455

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Xanthomonas hyacinthi DSM 19077 DSM 19077	GCA_001010435	contig	ncbi	1440765
66792	Xanthomonas hyacinthi DSM 19077	1440765.4	wgs	patric	1440765
66792	Xanthomonas hyacinthi DSM 19077	2651869672	draft	img	1440765

External links

@ref: 7869

culture collection no.: DSM 19077, ATCC 19314, ICMP 189, LMG 739, NCPPB 599, IPO 392

straininfo link

@ref	passport
20218	http://www.straininfo.net/strains/764110
20218	http://www.straininfo.net/strains/24579
20218	http://www.straininfo.net/strains/24582
20218	http://www.straininfo.net/strains/24578
20218	http://www.straininfo.net/strains/24585

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
7869	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19077)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-19077
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)