First report of <i>Grapevine yellow speckle viroid‐2</i> infecting grapevine (<i>Vitis vinifera</i>) in Thailand

Tangkanchanapas, Parichate; Reanwarakorn, K.; Juenak, H.; Jonghe, Kris De

doi:10.5197/j.2044-0588.2017.036.006

Cited by 8 publications

(3 citation statements)

References 3 publications

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“…Collectively, these GSYVd-1 isolates were obtained from a variety of Vitis hosts including different table and wine grape species. The lack of signi cant variation between isolates suggests that they are not under diversifying selection (25).…”

Section: Discussionmentioning

confidence: 99%

“…GYSVd-1 and GYSVd-2 both have a global distribution and are found in nearly all grape growing regions (22) though GYSVd-1 has a greater level of diversity when compared to GYSVd-2 (24,25). GYSVd-1 possesses a heterogenous population which is divided into four types based on variation in nucleic acid sequences and symptom inducing ability (26).…”

Section: Introductionmentioning

confidence: 99%

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Diversity of viroids infecting grapevines in South Africa

Morgan

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Burger

et al. 2022

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Seven viroid species have been reported to infect grapevine namely, hop stunt viroid (HSVd), grapevine yellow speckle viroid 1 (GYSVd-1), grapevine yellow speckle viroid 2 (GYSVd-2), Australian grapevine viroid (AGVd), Japanese grapevine viroid (JGVd), grapevine latent viroid (GLVd), and citrus exocortis viroid (CEVd). In this study, RNA sequence (RNA-Seq) data, from 229 Vitis accessions from the field maintained South African Vitis germplasm collection vineyard, were analysed to determine the diversity of the viroids present. Five of the seven known grapevine infecting viroids were very commonly found, with 214 of the 229 samples containing at least one viroid species. HSVd, GYSVd-1, GYSVd-2, AGVd, and JGVd were identified in the RNA-Seq data of the samples and confirmed with RT-PCR detection and Sanger sequencing. The HSVd sequences indicated the presence of two variants, with one showing multiple nucleotide insertions. AGVd and GYSVd-2 did not display significant sequence diversity, confirming past international studies. GYSVd-1 occurred as four major variants worldwide and representatives of all four were identified in this vineyard. This is first report on the diversity of viroids infecting grapevine in South Africa and the first report of JGVd outside of Japan. Further studies are needed to fully assess the population and to identify potentially new viroid species.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Diversity of viroids infecting grapevines in South Africa

Morgan

Read

Burger

et al. 2022

Preprint

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“…Grapevine yellow speckle viroid 1 (GYSVd-1) (Rezaian et al, 1988) and Grapevine yellow speckle viroid 2 (GYSVd-2) (Koltunow et al, 1989) are the casual agents of yellow speckle disease in grapevine. Both species have a global distribution though GYSVd-1 has a greater level of genetic diversity in comparison to GYSVd-2 (Jiang et al, 2012;Tangkanchanapas et al, 2017). No vector is known for these viroids and dissemination occurs through distribution of infected propagation material and mechanical inoculation (Martelli, 2014).…”

Section: Introductionmentioning

confidence: 99%

Next generation RNA sequencing analysis of nuclear grapevines to identify viruses and viroids

Morgan,

Burger,

Pietersen

2023

Preprint

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The use of next generation sequencing technology has allowed for greater elucidation of viruses infecting grapevine, which number more than 85. Many of these viruses can result in disease symptoms and it is therefore vital to the industry that they be supplied with healthy plant material. This is done through grapevine certification schemes. In this study, 97 nuclear grapevine vines subjected to a virus elimination process and maintained in vector-free conditions, were subjected to total RNA sequencing using the Ion-Torrent platform to determine the presence of viruses and viroids. In total, five virus species, four viroid species, and a further putative viroid species were identified in these nuclear grapevines through NGS analysis and confirmed using RT-PCR and Sanger sequencing. Grapevine Rupestris stem pitting-associated virus was identified in six nuclear accessions, while grapevine fleck virus, grapevine Syrah virus, grapevine leafroll-associated virus 4, and grapevine Rupestris vein feathering virus were identified in one nuclear accession each. Viroids were identified in 73 of the 97 nuclear accessions, with hop stunt viroid present in 63 of the 97 samples followed by grapevine yellow speckle viroid 1, present in 52 of the 97 samples, grapevine yellow speckle viroid 2, present in 17 of the 97 samples, Australian grapevine viroid present in three of the 97 samples and grapevine hammerhead viroid-like RNA was identified in two of the 97 samples. These findings suggest that some viruses, especially GRSPaV, and viroids are recalcitrant to currently employed virus elimination techniques, and how advantageous the use of NGS is to grapevine certification schemes.

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