Pepper yellow leaf curl Aceh virus: a novel bipartite begomovirus isolated from chili pepper, tomato, and tobacco plants in Indonesia

Kesumawati, Elly; Okabe, Shoko; Homma, Kanami; Fujiwara, Ikuya; Zakaria, Sabaruddin; Kanzaki, Sho; Koeda, Sota

doi:10.1007/s00705-019-04316-8

Cited by 32 publications

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“…These results strongly suggest that the infecting begomovirus species has differentiated from Solanaceae to Cucurbitaceae crops. PepYLCAV is reported to be a recombinant between PepYLCIV infecting Solanaceae, the Pumpkin yellow mosaic virus, and ToLCNDV infecting Cucurbitaceae (Kesumawati et al, 2019). Tobacco generally has a broad spectrum of infecting viruses, but mix-infection of Solanaceae-infecting and Cucurbitaceae-infecting begomoviruses was not detected in this study.…”

Section: Resultsmentioning

confidence: 57%

“…Phylogenetic analysis was conducted using fulllength DNA-A sequences obtained in the present and previous studies (Koeda et al, 2016;Kesumawati et al, 2019) and with begomoviral sequences obtained in other Asian countries (Fig. 2).…”

Section: Resultsmentioning

confidence: 99%

“…In our previous studies, full-length sequences of K = G or T; M = A or C; R = A or G; S = C or G; W = A or T; Y = C or T begomovirus were isolated from chili pepper, tomato, and tobacco (Koeda et al, 2016(Koeda et al, , 2017(Koeda et al, , 2018Kesumawati et al, 2019). In the present study, fulllength sequences of the infecting begomoviruses affecting eggplant, cucumber, squash, and tobacco were isolated by an RCA method (Table 3).…”

Section: Resultsmentioning

confidence: 99%

“…Most of the chili pepper plants were infected by a mixture of viruses such as Pepper yellow leaf curl Indonesia virus (PepYLCIV) with another bipartite begomovirus, Tomato yellow leaf curl Kanchanaburi virus (TYLCKaV) and/or a monopartite begomovirus Ageratum yellow vein virus (AYVV). More recently, we identified a new bipartite begomovirus species, Pepper yellow leaf curl Aceh virus (PepYLCAV), that had infected chili pepper, tomato, and tobacco from samples collected in 2017 (Kesumawati et al, 2019).…”

Section: Introductionmentioning

confidence: 99%

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Molecular Characterization of Begomoviruses Associated with Yellow Leaf Curl Disease in Solanaceae and Cucurbitaceae Crops from Northern Sumatra, Indonesia

et al. 2020

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Begomoviruses, transmitted by whiteflies (Bemisia tabaci), have emerged as serious constraints to the cultivation of a wide variety of vegetable crops worldwide. Leaf samples from Solanaceae (tomato, tobacco, and eggplant) and Cucurbitaceae (cucumber and squash) plants exhibiting typical begomoviral yellowing and/or curling symptoms were collected in Northern Sumatra, Aceh province, Indonesia. Rolling circle amplification was conducted using DNA isolated from cucumber, squash, eggplant, and tobacco, and the fulllength sequences of the begomoviruses were evaluated. The following viruses were isolated: bipartite begomoviruses Tomato leaf curl New Delhi virus (ToLCNDV), Squash leaf curl China virus (SLCCNV), Tomato yellow leaf curl Kanchanaburi virus (TYLCKaV), and a monopartite begomovirus Ageratum yellow vein virus (AYVV). Begomovirus diagnosis was conducted by PCR using begomovirus species-specific primers for Pepper yellow leaf curl Indonesia virus (PepYLCIV), Pepper yellow leaf curl Aceh virus (PepYLCAV), ToLCNDV, SLCCNV, TYLCKaV, and AYVV, which are the predominant begomoviruses. The primary begomovirus species for each plant were as follows: PepYLCAV for tomato, AYVV for tobacco, TYLCKaV for eggplant, ToLCNDV for cucumber, and SLCCNV for squash. This study provides valuable information for breeding begomovirus-resistant cultivars as horticultural crops.

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Section: Resultsmentioning

confidence: 57%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Molecular Characterization of Begomoviruses Associated with Yellow Leaf Curl Disease in Solanaceae and Cucurbitaceae Crops from Northern Sumatra, Indonesia

et al. 2020

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“…We conclude that the relatively higher rates of mutation relative to recombination on a microevolutionary scale are not reflective of the influence of recombination at the macroevolutionary scale, where inter-species recombination is the driving force behind the emergence of the majority of CMB species. While reports of begomovirus species that have emerged through recombination are common (58)(59)(60)(61)(62), this is the first time a systematic analysis of recombination and its contribution to species diversity is performed within all known species of a begomovirus disease complex.…”

Section: Discussionmentioning

confidence: 99%

Interspecies recombination has driven the macroevolution of cassava mosaic begomoviruses

Crespo-Bellido

Hoyer

Dubey

et al. 2021

Preprint

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Begomoviruses (family Geminiviridae, genus Begomovirus) significantly hamper crop production and threaten food security around the world. The frequent emergence of new begomovirus genotypes is facilitated by high mutation frequencies and the propensity to recombine and reassort. Homologous recombination has been especially implicated in the emergence of novel cassava mosaic begomovirus (CMB) genotypes, which cause cassava mosaic disease (CMD). Cassava (Manihot esculenta) is a staple food crop throughout Africa, and an important industrial crop in Asia, two continents where production is severely constrained by CMD. The CMD species complex is comprised of 11 bipartite begomovirus species with ample distribution throughout Africa and the Indian subcontinent. While recombination is regarded as a frequent occurrence for CMBs, a revised, systematic assessment of recombination and its impact on CMB phylogeny is currently lacking. We assembled datasets of all publicly available, full-length DNA-A (n=880) and DNA-B (n=369) nucleotide sequences from the 11 recognized CMB species. Phylogenetic networks and complementary recombination detection methods revealed extensive recombination among the CMB sequences. Six out of the eleven species have descended from unique interspecies recombination events. Estimates of recombination and mutation rates revealed that all species experience mutation more frequently than recombination, but measures of population divergence indicate that recombination is largely responsible for the genetic differences between species. Our results support that recombination has significantly impacted the CMB phylogeny and is driving speciation in the CMD species complex.

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A recessive gene pepy-1 encoding Pelota confers resistance to begomovirus isolates of PepYLCIV and PepYLCAV in Capsicum annuum

et al. 2021

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Pepper yellow leaf curl disease caused by begomoviruses seriously affects pepper (Capsicum spp.) production in a number of regions around the world. Ty genes of tomato, which confer resistance to the tomato yellow leaf curl virus, are the only begomovirus resistance genes cloned to date. In this study, we focused on the identi cation of begomovirus resistance genes in Capsicum annuum. BaPep-5 was identi ed as a novel source of resistance against pepper yellow leaf curl Indonesia virus (PepYLCIV) and pepper yellow leaf curl Aceh virus (PepYLCAV). A single recessive locus, which we named as pepper yellow leaf curl disease virus resistance 1 (pepy-1), responsible for PepYLCAV resistance in BaPep-5 was identi ed on chromosome 5 in an F 2 population derived from a cross between BaPep-5 and the begomovirus susceptible accession BaPep-4. In the target region spanning 34 kb, a single candidate gene, the messenger RNA surveillance factor Pelota, was identi ed. Whole-genome resequencing of BaPep-4 and BaPep-5 and comparison of their genomic DNA sequences revealed a single nucleotide polymorphism (A to G) located at the splice site of the 9th intron of CaPelota in BaPep-5, which caused the insertion of the 9th intron into the transcript, resulting in the addition of 28 amino acids to CaPelota protein without causing a frameshift. Virus-induced gene silencing of CaPelota in the begomovirus susceptible pepper No.218 resulted in the gain of resistance against PepYLCIV, a phenotype consistent with BaPep-5. The DNA marker developed in this study will greatly facilitate marker-assisted breeding of begomovirus resistance in peppers.

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Pepper yellow leaf curl Aceh virus: a novel bipartite begomovirus isolated from chili pepper, tomato, and tobacco plants in Indonesia

Cited by 32 publications

References 17 publications

Molecular Characterization of Begomoviruses Associated with Yellow Leaf Curl Disease in <i>Solanaceae</i> and <i>Cucurbitaceae</i> Crops from Northern Sumatra, Indonesia

Molecular Characterization of Begomoviruses Associated with Yellow Leaf Curl Disease in <i>Solanaceae</i> and <i>Cucurbitaceae</i> Crops from Northern Sumatra, Indonesia

Interspecies recombination has driven the macroevolution of cassava mosaic begomoviruses

A recessive gene pepy-1 encoding Pelota confers resistance to begomovirus isolates of PepYLCIV and PepYLCAV in Capsicum annuum

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