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ARS Home » Pacific West Area » Corvallis, Oregon » Horticultural Crops Disease and Pest Management Research Unit » Research » Publications at this Location » Publication #384291
Research Project: Development of Knowledge-based Approaches for Disease Management in Small Fruit and Nursery Crops

Location: Horticultural Crops Disease and Pest Management Research Unit

Title: TGenomic characterization of globodera ellingtonae populations from Chile

Author
item Hesse, Cedar
item MORENO, INGRID - Agricultural And Livestock Service
item ACEVEDO PARDO, ORIANA - Agricultural And Livestock Service
item PACHECO FUENTES, HUGO - Agricultural And Livestock Service
item GREINER, ERIC - French National Institute For Agricultural Research
item DANDURAND, LOUISE-MARIE - University Of Idaho
item Zasada, Inga

Submitted to: Journal of Nematology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 10/4/2021
Publication Date: 10/5/2021
Citation: Hesse, C.N., Moreno, I., Acevedo Pardo, O., Pacheco Fuentes, H., Greiner, E., Dandurand, L., Zasada, I.A. 2021. TGenomic characterization of globodera ellingtonae populations from Chile. Journal of Nematology. 53:1-9. https://doi.org/10.21307/jofnem-2021-088.
DOI: https://doi.org/10.21307/jofnem-2021-088

Interpretive Summary: Potato cyst nematodes (PCN) are among the most significant pathogens limiting the production of potato globally. A new potato cyst nematode, Globodera ellingtonae, was described from Oregon in 2012. Since PCN are known to originate in South America, the purpose of this research was to find populations of G. ellingtonae in Chile to compare with the population from the U.S. Samples were collected in northern Chile and the genomes of collected populations were sequenced. It was discovered that the G. ellingtonae population in the U.S. is very different from PCN populations collected in Chile. This data suggests that the G. ellingtonae population in the U.S. did not originate from Chile. Data will be used by scientists to further understand the diversity of PCN.

Technical Abstract: Globodera ellingtonae was originally described from populations collected in the United States. In the original description, ribosomal DNA loci from Globodera sp. collected in Chile and Argentina were similar to G. ellingtonae, suggesting this nematode originated in this region of South America. In an effort to find additional populations of G. elllingtonae, collection trips were conducted in 2017 and 2020 in the Antofagasta and Arica y Parinacota Regions in northern Chile, respectively. Globodera sp. were more prevalent in Antofagasta (17 samples collected, 53% positive for Globodera sp.) than in Arica y Parincota (16 samples collected, 13% positive for Globodera sp.). The genomes of single cysts (N = 3) from four fields were sequenced. Additionally, the genomes of the G. ellingtonae population from Oregon and a Globodera sp. population originally collected in Antofagasta but maintained in culture in France were also sequenced. Genome-wide SNP patterns showed strong clustering of samples based on geographic location indicating the species has high genetic diversity within Chile. A phylogenetic tree derived from 578,952 binary SNPs in the nuclear genome showed separate but distinct clustering of the Oregon population and the population maintained in France. The Oregon G. ellingtonae population subtended the Chilean clades and placed on a long branch representing approximately twice the genetic variation observed among all Chilean populations. The possibility remains Globodera sp. originating from Chile may be sufficiently diverged to constitute a new species from G. ellingtonae originally described from a population collected in Oregon. ahead of potential resistance.