View in EDS

Genetic diversity of begomovirus PepYLCIV infecting chili peppers in the main production area of West Java Province, Indonesia.

Saved in:
Bibliographic Details
Title: Genetic diversity of begomovirus PepYLCIV infecting chili peppers in the main production area of West Java Province, Indonesia.
Authors: Polosoro, Aqwin (AUTHOR), Kusumanegara, Kusumawaty1 (AUTHOR) kusu005@brin.go.id, Enggarini, Wening (AUTHOR), Azmi, Chotimatul (AUTHOR), Sabda, Muhamad (AUTHOR), Sukmadjaja, Deden (AUTHOR), Hadiarto, Toto (AUTHOR), Koeda, Sota (AUTHOR), Hidayat, Sri Hendrastuti (AUTHOR)
Source: Journal of General Plant Pathology. Nov2025, p1-12.
Subject Terms: *BEGOMOVIRUSES, *GENETIC variation, *PHYLOGENY, *HOT peppers, *INDONESIANS, *NUCLEIC acid amplification techniques
Geographic Terms: JAVA (Indonesia), JAWA Barat (Indonesia), INDONESIA
Abstract: Pepper yellow leaf curl Indonesia virus (PepYLCIV), a bipartite begomovirus, is one of the major constraints on chili pepper (Capsicum annuum L.) production in Indonesia. Like most viral pathogens, begomoviruses can rapidly mutate and recombine, resulting in high genetic diversity. Here we studied the genetic diversity of PepYLCIV infecting chili peppers in the main production areas of West Java Province. PCR analysis showed that all 108 isolates from 17 chili pepper fields were positive for the 959-bp PepYLCIV DNA-A fragment. The PCR products of 106 of the isolates (98.1%) were able to be sequenced (766 nt; GenBank accessions PQ584071–PQ584176). Phylogenetic and pairwise sequence identity analyses showed that the isolates were generated five clusters and majority of them assembled into three large clusters. They shared the highest sequence homology with PepYLCIV, PepYLCIV isolate Jav-19, PepYLCIV isolate Bali, pepper yellow leaf curl virus isolate TDWS-21, pepper yellow leaf curl Aceh virus (PepYLCAV) isolate UKM, and PepYLCIV isolate EJavaCP1 in the GenBank sequence database. Interestingly, a third of the samples were new variants that were distinctly related to PepYLCIV accessions originating from Java; however, they later diverged and formed a separate cluster. Moreover, the genetic diversity of PepYLCIV isolates was not associated with sampling location or geographic factors. This study provides valuable epidemiological data to better control the disease caused by PepYLCIV and understand the mechanisms underlying its pathogenicity. [ABSTRACT FROM AUTHOR]
Database: Academic Search Index
Description
Abstract:Pepper yellow leaf curl Indonesia virus (PepYLCIV), a bipartite begomovirus, is one of the major constraints on chili pepper (<italic>Capsicum annuum</italic> L.) production in Indonesia. Like most viral pathogens, begomoviruses can rapidly mutate and recombine, resulting in high genetic diversity. Here we studied the genetic diversity of PepYLCIV infecting chili peppers in the main production areas of West Java Province. PCR analysis showed that all 108 isolates from 17 chili pepper fields were positive for the 959-bp PepYLCIV DNA-A fragment. The PCR products of 106 of the isolates (98.1%) were able to be sequenced (766 nt; GenBank accessions PQ584071–PQ584176). Phylogenetic and pairwise sequence identity analyses showed that the isolates were generated five clusters and majority of them assembled into three large clusters. They shared the highest sequence homology with PepYLCIV, PepYLCIV isolate Jav-19, PepYLCIV isolate Bali, pepper yellow leaf curl virus isolate TDWS-21, pepper yellow leaf curl Aceh virus (PepYLCAV) isolate UKM, and PepYLCIV isolate EJavaCP1 in the GenBank sequence database. Interestingly, a third of the samples were new variants that were distinctly related to PepYLCIV accessions originating from Java; however, they later diverged and formed a separate cluster. Moreover, the genetic diversity of PepYLCIV isolates was not associated with sampling location or geographic factors. This study provides valuable epidemiological data to better control the disease caused by PepYLCIV and understand the mechanisms underlying its pathogenicity. [ABSTRACT FROM AUTHOR]
ISSN:13452630
DOI:10.1007/s10327-025-01260-1