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Strain identifier

BacDive ID:17593

Type strain: Yes

Species:Xanthomonas axonopodis

Culture col. no.:DSM 3585,ATCC 19312, ICPB XA 103,LMG 982,NCPPB 457,CFBP 4924

Strain history:<- ATCC<- NCPPB<- ICPB

NCBI tax ID(s):53413 (species)

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For referencing data from this strain:

doi:10.13145/bacdive17593.20240916.9.1

Please consider citation of BacDive:

doi: 10.1093/nar/gkab961

SI-ID 14039

LMG 982,ATCC 19312,CECT 548,DSM 3585,ICMP 50,LMG 538,NCPPB 457, PDDCC 50,CBMAI 201,KACC 10935,CFBP 4924

Special Collections

DSMZ

Other strains from Xanthomonas axonopodis

X. axonopodis DSM 50850, DSM 60127, LMG 7178

Section

Name and taxonomic classification
Morphology
Culture and growth conditions
Isolation, sampling and environmental information
Safety information
Sequence information
Genome-based predictions

External links

Search for speciesXanthomonas axonopodis in external resources:
SILVA
BRENDA
PANGAEA
GBIF

Xanthomonas axonopodis DSM 3585 is a mesophilic, Gram-negative plant pathogen that was isolated fromAxonoperis scoparius.

Gram-negative
mesophilic
plant pathogen
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Lysobacterales*
	Family	*Lysobacteraceae*
	Genus	*Xanthomonas*
	Species	*Xanthomonasaxonopodis*
	Full Scientific Name (LPSN)	Xanthomonasaxonopodis Starr and Garces 1950 (Approved Lists 1980)

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negativeConfidence in %98.75

Information on culture and growth conditions Culture and growth conditions

[Ref.: #1410]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #1410]

Culture medium growth

[Ref.: #1410]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1410]

Culture medium composition

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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

	Temperatures	Kind of temperature		Temperature
[Ref.: #1410]			growth	30 °C

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #1410]	Sample type/isolated from	Axonoperis scoparius
[Ref.: #1410]	Host species	Axonoperis scoparius
* marker position based on {}

Isolation sources categories

#Host

#Plants

#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequenceX95919 (>99% sequence identity) forXanthomonas fromMicrobeatlas

Aquatic Samples	6826
Soil Samples	10026
Animal Samples	28252
Plant Samples	7048
Total Samples	52152

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #1410]	Pathogenicity (plant)	yes
[Ref.: #1410]	Biosafety level	1	Risk group (German classification) According toTRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #20218]	Xanthomonas axonopodis pv. axonopodis clone K0891 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequence	HM181898	558	GenBank ENA	316581 tax ID	*
[Ref.: #20218]	Xanthomonas axonopodis strain LMG538 16S-23S ribosomal RNA intergenic spacer, complete sequence	AF209753	519	GenBank ENA	53413 tax ID	*
[Ref.: #20218]	X.axonopodis 16S rRNA gene	X95919	1502	GenBank ENA	53413 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.Click here to see only first 5 entries.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Xanthomonas axonopodis DSM 3585	GCA_001304695	contig	GenBank ENA	53413 tax ID	*
[Ref.: #66792]	Xanthomonas axonopodis pv. axonopodis LMG 982	GCA_001401595	contig	GenBank ENA	316581 tax ID	*
[Ref.: #66792]	Xanthomonas axonopodis pv. axonopodis strain LMG 982	316581.4	wgs	PATRIC	316581 tax ID	*
[Ref.: #66792]	Xanthomonas axonopodis strain DSM 3585	53413.25	wgs	PATRIC	53413 tax ID	*
[Ref.: #66792]	Xanthomonas axonopodis pv. axonopodis LMG 982	2651869742	draft	JGI IMG/M	316581 tax ID	*
[Ref.: #66792]	Xanthomonas axonopodis DSM 3585	2639762869	draft	JGI IMG/M	53413 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions fromDiaspora project based on: Xanthomonas axonopodis pv. axonopodis strain LMG 982 PATRIC:316581.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	98.75	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	97.61	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	89.485	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	98.5	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	84.611	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	67.329	no

Availability in culture collections External links

[Ref.: #1410]

Culture collection no.

DSM 3585,ATCC 19312, ICPB XA 103,LMG 982,NCPPB 457,CFBP 4924

[Ref.: #86588]

SI-ID 14039

References
#1410 Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH; Curators of the DSMZ;DSM 3585

#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. IJSEM (DOI 10.1099/ijsem.0.004332)

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.:StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol.37: 42-50 2014(DOI 10.1016/j.syapm.2013.11.002,PubMed 24321274)

#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).

#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.

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann:Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information).

#86588

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. (DOI 10.60712/SI-ID14039.1)

* These data were automatically processed and therefore are not curated

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Xanthomonas axonopodis pv. axonopodis strain LMG 982

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