Xylella fastidiosa (DSM 10026, ATCC 35879, CFBP 7970)

Name: Xylella fastidiosa (DSM 10026, ATCC 35879, CFBP 7970)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17622

Type strain

Strain Designation 2683 PCE-RR

Culture col. no. DSM 10026 ATCC 35879 CFBP 7970 LMG 17159 2683 PCE-RR

NCBI tax ID(s) 2371 644356

Special Collections DSMZ

History <- ATCC <- J. M. Wells; 2683 PCE-RR <- B. C. Raju

Links

Xylella fastidiosa 2683 PCE-RR is a plant pathogen that was isolated from grapevine.

plant pathogen genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 10333

LMG 17159,ATCC 35879,DSM 10026,ICMP 11140,ICMP 15197,NCPPB 4432,CFBP 7970

@ref 20215

Last LPSN update 2026-02-09 11:22:16

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Lysobacterales

Family Lysobacteraceae

Genus Xylella

Species Xylella fastidiosa

Full scientific name Xylella fastidiosa Wells et al. 1987

Synonyms (1)

"Xylella fastidiosa subsp. piercei"

BacDive ID	Other strains from **Xylella fastidiosa** (2)	Type strain
132105	X. fastidiosa Wells 2691, DSM 103369, ATCC 35869, CFBP ...
132106	X. fastidiosa ALS-BC, DSM 103417, ATCC 35870, LMG 15099

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	97.833
125439	negative	96
125439		90.5

Colony morphology

3785

Incubation period8-14 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
3785	BOSEA MEDIUM (DSMZ Medium 1052)		Medium recipe at MediaDive	Name: BOSEA MEDIUM (DSMZ Medium 1052) Composition: Agar 15.0 g/l ACES 10.0 g/l Yeast extract 10.0 g/l Activated charcoal 2.0 g/l Distilled water
3785	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	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	Growth	Type	Temperature (°C)
3785	positive	growth	26
3785	positive	growth	25

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	facultative anaerobe	98.8

Spore formation

@ref	Spore formation	Confidence
125438		95.96
125439		99.4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Food production	#Fermented
#Host Body-Site	#Plant	#Fruit (Seed)
#Engineered	#Food production	#Beverage

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
3785	grapevine	Florida	USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence AF203391 (>99% sequence identity) for Xylella fastidiosa from Microbeatlas

Aquatic Samples	1022
Soil Samples	540
Animal Samples	2029
Plant Samples	287
Total Samples	3878

Interaction and safety

Risk assessment

@ref	Pathogenicity plant	Biosafety level	Biosafety level comment
3785		1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1180147v1 assembly for Xylella fastidiosa ATCC 35879	complete	GCA_011801475	2371.472	8002971932	2371	96.93
66792	ASM76756v1 assembly for Xylella fastidiosa ATCC 35879	contig	GCA_000767565	2371.35	2645728018	2371	75.17
66792	IMG-taxon 2595698223 annotated assembly for Xylella fastidiosa DSM 10026	scaffold	GCA_900129695	2371.167	2595698223	2371	64.25
66792	ASM401631v1 assembly for Xylella fastidiosa subsp. fastidiosa CFBP7970	contig	GCA_004016315	644356.17		644356	59.51

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Xylella fastidiosa strain GR.8935 16S ribosomal RNA gene, partial sequence	AF203391	1534	2371
20218	Xylella fastidiosa strain GR.8935 16S-23S ribosomal RNA intergenic spacer, complete sequence	AF203397	512	2371
20218	Xylella fastidiosa 16S ribosomal RNA gene, partial sequence; tRNA-Ala and tRNA-Ile genes, complete sequence; and 23S ribosomal RNA gene, partial sequence	AF272834	942	2371
20218	Xylella fastidiosa 16S ribosomal RNA gene, partial sequence	DQ987477	1537	2371
20218	Xylella fastidiosa strain ATCC 35879 16S-23S ribosomal RNA intergenic spacer, complete sequence	DQ991169	512	2371
3785	Xylella fastidiosa 16S ribosomal RNA, complete sequence	AF192343	1537	2371

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Xylella fastidiosa ATCC 35879
NCBI: GCA_011801475

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.40	no
125439	motility	BacteriaNetⓘ	no	90.50	no
125439	gram_stain	BacteriaNetⓘ	negative	96.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	98.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Xylella fastidiosa ATCC 35879
NCBI: GCA_011801475.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.83	no
125438	anaerobic	anaerobicⓘ	no	91.06	no
125438	aerobic	aerobicⓘ	yes	55.18	no
125438	spore-forming	spore-formingⓘ	no	95.96	no
125438	thermophilic	thermophileⓘ	no	92.16	no
125438	flagellated	motile2+ⓘ	no	71.33	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	The hidden life of Xylella: mining the NCBI Sequence Read Archive reveals potential new species, host plants, and infected areas for this elusive bacterial plant pathogen.	Briand M, Jacques M-A, Dittmer J.	Appl Environ Microbiol	10.1128/aem.00913-25	2025
	Natural Recombination among Type I Restriction-Modification Systems Creates Diverse Genomic Methylation Patterns among Xylella fastidiosa Strains.	O'Leary ML, Burbank LP.	Appl Environ Microbiol	10.1128/aem.01873-22	2023
	Real-Time On-Site Diagnosis of Quarantine Pathogens in Plant Tissues by Nanopore-Based Sequencing.	Marcolungo L, Passera A, Maestri S, Segala E, Alfano M, Gaffuri F, Marturano G, Casati P, Bianco PA, Delledonne M.	Pathogens	10.3390/pathogens11020199	2022
Phylogeny	Identification of genetic relationships and subspecies signatures in Xylella fastidiosa.	Denance N, Briand M, Gaborieau R, Gaillard S, Jacques MA.	BMC Genomics	10.1186/s12864-019-5565-9	2019
Phylogeny	Live neighbor-joining.	Telles GP, Araujo GS, Walter MEMT, Brigido MM, Almeida NF.	BMC Bioinformatics	10.1186/s12859-018-2162-x	2018
	Development of a Polymerase Chain Reaction Protocol for Detection of Xylella fastidiosa in Plant Tissue.	Minsavage GV, Thompson CM, Hopkins DL, Leite RMVBC, Stall RE.	Phytopathology	10.1094/phyto-84-456	2025
	Use of traC Gene to Type the Incidence and Distribution of pXFAS_5235 Plasmid-Bearing Strains of Xylella fastidiosa subsp. fastidiosa ST1 in Spain.	Velasco-Amo MP, Arias-Giraldo LF, Olivares-Garcia C, Denance N, Jacques MA, Landa BB.	Plants (Basel)	10.3390/plants11121562	2022
Genetics	Investigating the impact of insertion sequences and transposons in the genomes of the most significant phytopathogenic bacteria.	Fernandes AS, Campos KF, de Assis JCS, Goncalves OS, Queiroz MV, Bazzolli DMS, Santana MF.	Microb Genom	10.1099/mgen.0.001219	2024
Genetics	Complete Genome Sequence of Xylella taiwanensis and Comparative Analysis of Virulence Gene Content With Xylella fastidiosa.	Weng LW, Lin YC, Su CC, Huang CT, Cho ST, Chen AP, Chou SJ, Tsai CW, Kuo CH.	Front Microbiol	10.3389/fmicb.2021.684092	2021
Genetics	Metagenomic Sequencing for Identification of Xylella fastidiosa from Leaf Samples.	Roman-Reyna V, Dupas E, Cesbron S, Marchi G, Campigli S, Hansen MA, Bush E, Prarat M, Shiplett K, Ivey MLL, Pierzynski J, Miller SA, Peduto Hand F, Jacques MA, Jacobs JM.	mSystems	10.1128/msystems.00591-21	2021
	New Coffee Plant-Infecting Xylella fastidiosa Variants Derived via Homologous Recombination.	Jacques MA, Denance N, Legendre B, Morel E, Briand M, Mississipi S, Durand K, Olivier V, Portier P, Poliakoff F, Crouzillat D.	Appl Environ Microbiol	10.1128/aem.03299-15	2015
	Novel Tetraplex Quantitative PCR Assays for Simultaneous Detection and Identification of Xylella fastidiosa Subspecies in Plant Tissues.	Dupas E, Briand M, Jacques MA, Cesbron S.	Front Plant Sci	10.3389/fpls.2019.01732	2019
	Novel Virulent Bacteriophages Infecting Mediterranean Isolates of the Plant Pest Xylella fastidiosa and Xanthomonas albilineans.	Clavijo-Coppens F, Ginet N, Cesbron S, Briand M, Jacques MA, Ansaldi M.	Viruses	10.3390/v13050725	2021
	Susceptibility of Olea europaea L. varieties to Xylella fastidiosa subsp. pauca ST53: systematic literature search up to 24 March 2017.	European Food Safety Authority (EFSA), Bau A, Delbianco A, Stancanelli G, Tramontini S.	EFSA J	10.2903/j.efsa.2017.4772	2017
Phylogeny	Identification of Xanthomonas fragariae, Xanthomonas axonopodis pv. phaseoli, and Xanthomonas fuscans subsp. fuscans with novel markers and using a dot blot platform coupled with automatic data analysis.	Albuquerque P, Caridade CM, Marcal AR, Cruz J, Cruz L, Santos CL, Mendes MV, Tavares F.	Appl Environ Microbiol	10.1128/aem.05189-11	2011
Genetics	Whole Genome Sequence of Xylella fastidiosa ATCC 35879(T) and Detection of Genome Rearrangements Within Subsp. fastidiosa.	Chen J, O'Leary M, Burbank L, Zheng Z, Deng X	Curr Microbiol	10.1007/s00284-020-01937-0	2020
Phylogeny	Evidence for conserved tRNA genes in the 16S-23S rDNA spacer sequence and two rrn operons of Xylella fastidiosa.	Chen J, Banks D, Jarret RL, Jones JB	Can J Microbiol	10.1139/w00-114	2000

References

#3785	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 10026
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Xylella fastidiosa (DSM 10026, ATCC 35879, CFBP 7970)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_011801475

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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