Population genetics analysis of Phytophthora nicotianae associated with heart rot in pineapple revealed geneflow between population

Auliana Afandi (Department of Plant Protection, Faculty of Agriculture, Universitas Lampung. Jl. Prof. Dr. Sumantri Brojonegoro No. 1, Bandar Lampung 35145, Lampung, Indonesia)
Siti Subandiyah (Program of Biotechnology, Universitas Gadjah Mada. Jl. Teknika Utara, Barek, Sleman 55281, Yogyakarta, Indonesia)
Arif Wibowo (Department of Entomology and Plant Pathology, Faculty of Agriculture, Universitas Gadjah Mada. Jl. Flora, Bulaksumur, Sleman 55281, Yogyakarta, Indonesia)
Ayaka Hieno (River Basin Research Center, Gifu University, 1-1 Yanagido, Gifu 501-1193, Gifu, Japan)
Afandi AFANDI (Department of Soil Science, Faculty of Agriculture, Universitas Lampung. Jl. Prof. Dr. Sumantri Brojonegoro No. 1, Bandar Lampung 35145, Lampung, Indonesia)
Supriyono Loekito (PT. Great Giant Pineapple. Jl. Raya Bandar Lampung-Menggala km. 77, Terbanggi Besar, Lampung Tengah 34165, Lampung, Indonesia)
Haruhisa Suga (Life Science Research Center, Gifu University. 1-1 Yanagido, Gifu 501-1193, Gifu, Japan.)
Koji Kageyama (River Basin Research Center, Gifu University, 1-1 Yanagido, Gifu 501-1193, Gifu, Japan)

Biodiversitas Journal of Biological Diversity
Vol. 22 No. 8 (2021)

Abstract. Afandi A, Subandiyah S, Wibowo A, Hieno A, Afandi, Loekito S, Suga H, Kageyama K. 2021. Population genetics analysis of Phytophthora nicotianae associated with heart rot in pineapple revealed gene flow between populations. Biodiversitas 22: 3342-3348.  Phytophthora nicotianae has caused heart rot in pineapple. This study identified the population genetic diversity of P. nicotianae, collecting 90 isolates of P. nicotianae from the pineapple plantation sites in three provinces of Indonesia and, as comparisons, seven isolates from non-pineapple sites. Six polymorphic microsatellite markers amplified the non-coding region was used to characterize the population diversity. The phylogenetic tree constructed by MEGA revealed three major clades; the first and second clades were dominated by the isolates from pineapple plantation sites, and the third clade contained isolates from the non-pineapple sites. The allelic pattern analysis using Genalex software revealed the local alleles specific to Lampung and Blitar populations. The AMOVA of microsatellite genotypes data showed that the isolates had a low diversity among the population (6%) but high diversity within individual. Conclusively, P. nicotianae population associated with heart rot in pineapple showed geneflow between populations.