Whole genome analysis of the koa wilt pathogen (Fusarium oxysporum f. sp. koae) and the development of molecular tools for early detection and monitoring

BMC Genomics

John T. Dobbs¹  Jane E. Stewart¹  Robert D. Hauff²  Aileen Yeh³  Nicklos S. Dudley³  Tyler C. Jones³  Philip G. Cannon⁴  Mee-Sook Kim⁵  R. Kasten Dumroese⁶  Ned B. Klopfenstein⁶ 

[1] Colorado State University, Department of Agricultural Biology, 1177 Campus Delivery, 80523, Fort Collins, CO, USA;Division of Forestry and Wildlife, Department of Land and Natural Resources, 1151 Punchbowl Street, Room 325, 96813, Honolulu, HI, USA;Hawai‘i Agriculture Research Center, Maunawili Research Station, Oahu, HI, USA;USDA Forest Service, Forest Health Protection, 1323 Club Drive, 94592, Vallejo, CA, USA;USDA Forest Service, Pacific Northwest Research Station, 3200 SW Jefferson Way, 97331, Corvallis, OR, USA;USDA Forest Service, Rocky Mountain Research Station, 1221 South Main Street, 83843, Moscow, ID, USA;

关键词: Fusarium oxysporum;    Lineage-specific DNA;    Virulence genes;    PCR primer;    Haplotypes;    Acacia koa;   

DOI  :  10.1186/s12864-020-07156-y

来源: Springer

【 摘 要 】

BackgroundDevelopment and application of DNA-based methods to distinguish highly virulent isolates of Fusarium oxysporum f. sp. koae [Fo koae; cause of koa wilt disease on Acacia koa (koa)] will help disease management through early detection, enhanced monitoring, and improved disease resistance-breeding programs.ResultsThis study presents whole genome analyses of one highly virulent Fo koae isolate and one non-pathogenic F. oxysporum (Fo) isolate. These analyses allowed for the identification of putative lineage-specific DNA and predicted genes necessary for disease development on koa. Using putative chromosomes and predicted gene comparisons, Fo koae-exclusive, virulence genes were identified. The putative lineage-specific DNA included identified genes encoding products secreted in xylem (e. g., SIX1 and SIX6) that may be necessary for disease development on koa. Unique genes from Fo koae were used to develop pathogen-specific PCR primers. These diagnostic primers allowed target amplification in the characterized highly virulent Fo koae isolates but did not allow product amplification in low-virulence or non-pathogenic isolates of Fo. Thus, primers developed in this study will be useful for early detection and monitoring of highly virulent strains of Fo koae. Isolate verification is also important for disease resistance-breeding programs that require a diverse set of highly virulent Fo koae isolates for their disease-screening assays to develop disease-resistant koa.ConclusionsThese results provide the framework for understanding the pathogen genes necessary for koa wilt disease and the genetic variation of Fo koae populations across the Hawaiian Islands.

【 授权许可】

CC BY