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ARS Home » Pacific West Area » Parlier, California » San Joaquin Valley Agricultural Sciences Center » Crop Diseases, Pests and Genetics Research » Research » Publications at this Location » Publication #368317
Research Project: Identification of Novel Management Strategies for Key Pests and Pathogens of Grapevine with Emphasis on the Xylella Fastidiosa Pathosystem

Location: Crop Diseases, Pests and Genetics Research

Title: Whole genome sequence of Xylella fastidiosa ATCC 35879T and detection of genome rearrangement within subsp. fastidiosa

Author
item Chen, Jianchi
item O'Leary, Michael
item Burbank, Lindsey
item ZHENG, ZHENG - South China Agricultural University
item DENG, X - South China Agricultural University

Submitted to: Current Microbiology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 2/13/2020
Publication Date: 3/16/2020
Citation: Chen, J., O'Leary, M.L., Burbank, L.P., Zheng, Z., Deng, X. 2020. Whole genome sequence of Xylella fastidiosa ATCC 35879T and detection of genome rearrangement within subsp. fastidiosa. Current Microbiology. 77:1858-1863. https://doi.org/10.1007/s00284-020-01937-0.
DOI: https://doi.org/10.1007/s00284-020-01937-0

Interpretive Summary: Xylella fastidiosa is a bacterial pathogen causing Pierce’s disease (PD) of grapevine and other plant diseases. A taxonomically representative strain of the bacterium, strain ATCC 35879, causing PD in Florida, was selected and successfully used for complete whole genome sequencing in this study. Analyses of PD bacterial genome sequences led to a discovery of a genome rearrangement event within the bacterium. The new genome sequence and new genomic knowledge from this study will facilitate current research efforts to better understand PD pathogen and therefore PD control in US and around the world.

Technical Abstract: Xylella fastidiosa is a Gram negative and nutritionally fastidious bacterial pathogen causing Pierce’s disease (PD) of grapevine and other plant diseases. X. fastidiosa strain ATCC 35879T originating from Florida is the designated type strain for the species and also sub-species fastidiosa. In bacterial taxonomy, type strains preserve the characters of the original descriptions. Whole genome sequence of a type strain not only provides a standard reference for bacterial identification, but also facilitate research in population diversity and gene function analyses. In this study, the whole genome sequence of X. fastidiosa subsp. fastidiosa strain ATCC 35879T was determined using PacBio RSII format. The ATCC 35879 genome has a circular chromosome of 2,565,504 bp with 2,904 protein coding genes and 55 RNA genes, and a circular plasmid of 41,753 bp. The chromosome of strain ATCC 35879 was compared to that of X. fastidosa subsp. fastidiosa strain M23 from California causing both PD and almond leaf scorch disease. A large (~700K bp) chromosomal rearrangement event was detected. Genome annotations showed clusters of phage-related genes around the rearrangement junctions, suggesting the rearrangement event was likely phage-mediated. This is the first report on genome structure variation within members of X. fastidiosa subsp. fastidiosa.