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United States Department of Agriculture

Agricultural Research Service

Research Project: Epidemiology and Management of Pierce's Disease and Other Maladies of Grape

Location: Crop Diseases, Pests and Genetics

Title: Initiation of a pan-genomic research project for Xylella fastidiosa

Authors
item Chen, Jianchi
item Huang, H -
item Chang, C-J -
item Stenger, Drake

Submitted to: CDFA Pierce's Disease Control Program Research Symposium
Publication Type: Abstract Only
Publication Acceptance Date: November 7, 2013
Publication Date: December 15, 2013
Citation: Chen, J., Huang, H., Chang, C., Stenger, D.C. 2013. Initiation of a pan-genomic research project for Xylella fastidiosa. In: Proceedings of the Pierce's Disease Research Symposium, December 16-18, 2013, Sacramento, California. pp. 84.

Technical Abstract: Differences in genomic structure and nucleotide polymorphism among strains form the genetic basis for adaptability of a bacterial species. This can be described by a bacterial pan-genome, which is defined as the full complement of genes in all strains of a species. The pan-genome is composed of a "core genome", shared by all strains of the species, and a "dispensable genome" that accounts for genotypic differences among strains. The more genome sequences available, the more comprehensive a bacterial pan-genome is described. For Xylella fastidiosa, there are nine whole genome sequences available in public databases (Strains 9a5c, Temecula1, M12, M23, GB514, ATCC 35871, Dixon, EB92.1, and Ann-1). To enrich pan-genome information, a project was initiated to sequence at least ten more X. fastidiosa strains from different geographical and host origins. In the past research period, whole genome sequencing was performed on two X. fastidiosa strains: Griffin-1, an oak leaf scorch strain isolated from a symptomatic red oak tree, and Mus-1, a strain isolated from muscadine grape showing Pierce’s disease symptoms. Both X. fastidiosa strains were isolated from Georgia, U.S. Genomes of the two X. fastidiosa strains were sequenced using pure culture DNA as template. Efforts were made for gap closure. The two whole genome sequences were annotated and deposited in GenBank. Taxonomic status of the two X. fastidiosa strains was established through multi-locus comparison. It is expected that pan-genome research efforts will have important consequences for understanding bacterial evolution, adaptation, and population structure, as well as for more applied issues such as pathogen detection and identification.

Last Modified: 10/24/2014
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