scholarly journals Distinct responses of Vitis aestivalis ‘Norton’ and Vitis vinifera ‘Kishmish Vatkana’ to seven viruses revealed by small RNA sequencing

2021 ◽  
Author(s):  
Susanne Howard ◽  
Sylvia Petersen ◽  
Adam Uhls ◽  
Wenping Qiu
Keyword(s):  
Vitis Vinifera ◽  
Rna Viruses ◽  
Small Rna Sequencing ◽  
Grapevine Virus A ◽  
The Family ◽  
Grapevine Pinot Gris Virus ◽  
Vitis Aestivalis ◽  
Rupestris Stem Pitting ◽  
Stem Pitting ◽  
Virus Quantification

Grapevines are frequently infected by multiple viruses. Our previous study showed that ‘Norton’ grapevine (Vitis aestivalis) is resistant to grapevine vein clearing virus, a DNA virus in the family Caulimoviridae. To study the reaction of ‘Norton’ to RNA viruses, we transferred seven RNA viruses to ‘Norton’ from ‘Kishmish Vatkana’ (‘KV’) (Vitis vinifera) via graft-transmission. We profiled viral small RNAs (vsRNAs) of the seven viruses and compared viral titers in ‘Norton’ and ‘KV’. Total vsRNAs of grapevine leafroll-associated virus 1 (GLRaV-1), GLRaV-2, GLRaV-3, grapevine virus A (GVA) and grapevine Pinot gris virus (GPGV) were significantly less abundant in ‘Norton’ than in ‘KV’, but total vsRNAs of grapevine fleck virus (GFkV) were more abundant in ‘Norton’ than in ‘KV’. Total vsRNAs of grapevine rupestris stem pitting-associated virus (GRSPaV) were not different between ‘Norton’ and ‘KV’. Grafting direction of ‘Norton’ to ‘KV’ or ‘KV’ to ‘Norton’ did not affect the quantity of vsRNAs. The genome coverage of GLRaV-1, GLRaV-2, GLRaV-3 and GVA vsRNAs was lower in ‘Norton’ than ‘KV’. The 21-nt and 22-nt classes of vsRNAs were predominant for all seven viruses. Virus quantification by qPCR indicated that GLRaV-1 was undetectable in ‘Norton’, GLRaV-2, GLRaV-3, and GVA were less abundant in ‘Norton’, but GFkV was more abundant in ‘Norton’ than in ‘KV’. These results demonstrated that ‘Norton’ grapevine suppresses GLRaV-1, GLRaV-2, GLRaV-3, and GVA, but supports GFkV in comparison with ‘KV’. This study revealed new facets of complex molecular interactions between grapevines and multiple viruses.

scholarly journals Survey and Diversity of Grapevine Pinot gris virus in Algeria and Comprehensive High-Throughput Small RNA Sequencing Analysis of Two Isolates from Vitis vinifera cv. Sabel Revealing High Viral Diversity

Genes ◽  
2020 ◽  
Vol 11 (9) ◽  
pp. 1110
Author(s):  
Aleš Eichmeier ◽  
Eliška Peňázová ◽  
Jana Čechová ◽  
Akila Berraf-Tebbal
Keyword(s):  
Vitis Vinifera ◽  
Rna Sequencing ◽  
Small Rna ◽  
Phylogenetic Analyses ◽  
Small Rna Sequencing ◽  
Sequencing Analysis ◽  
Hop Stunt Viroid ◽  
Grapevine Virus B ◽  
Grapevine Pinot Gris Virus ◽  
Rupestris Stem Pitting

Grapevine Pinot gris virus (GPGV) is a putative causal agent of grapevine leaf mottling and deformation disease that has been reported worldwide throughout the grapevine-growing regions. Fifty-four grapevines collected from five Algerian grapevine-growing regions were tested for the presence of GPGV in phloem tissues. Eight of the tested grapevines were infected by GPGV. Viromes of two selected Vitis vinifera cv. Sabel grapevines infected by GPGV and showing virus-like symptoms were analyzed by small RNA sequencing. Phylogenetic analyses of the partial coding sequence (cds) of the RNA-dependent RNA polymerase (RdRp) domain showed that all Algerian GPGV isolates were grouped with some already-described asymptomatic isolates. This study provides the first survey of the occurrence of GPGV in Algeria. Moreover, Grapevine fleck virus, Grapevine rupestris stem pitting-associated virus, Grapevine virus B, Grapevine rupestris vein feathering virus, Hop stunt viroid and Grapevine yellow speckle viroid 1 were detected in Algeria for the first time.

scholarly journals A Survey of Virginia Vineyards Revealed High Incidences of Grapevine Rupestris Stem Pitting-Associated Virus, Grapevine Red Blotch Virus, and Two Mealybug Species

2019 ◽  
Vol 20 (4) ◽  
pp. 207-214 ◽  
Author(s):  
Taylor Jones ◽  
Mizuho Nita
Keyword(s):  
Virus Disease ◽  
Grapevine Virus ◽  
Factors Affecting ◽  
Grapevine Virus A ◽  
Grapevine Virus B ◽  
Grapevine Pinot Gris Virus ◽  
Potential Factors ◽  
Pseudococcus Viburni ◽  
Rupestris Stem Pitting ◽  
Stem Pitting

We investigated the prevalence of viruses infecting grapevines in Virginia, identity of disease vectors, and potential factors affecting virus incidence. Tested viruses were grapevine leafroll-associated virus (GLRaV-1 and -4), grapevine fleck virus (GFkV), grapevine virus A (GVA), grapevine virus B (GVB), grapevine rupestris stem pitting-associated virus (GRSPaV), tomato ringspot virus (ToRSV), grapevine vein clearing virus (GVCV), grapevine red blotch virus (GRBV), and grapevine Pinot gris virus (GPGV). We documented wide distributions of GRSPaV (54%) and GRBV (24%) and common occurrences of grape (Pseudococcus maritimus) and Gill’s (Ferrisia gilli) mealybugs among vineyards. This is the first report of GLRaV-1, GLRaV-4, GVA, GVB, GRSPaV, and obscure mealybug (Pseudococcus viburni) in Virginia. We also documented significant association (P ≤ 0.05) of the presence of mealybugs and GVA and GVB. With younger vines, significantly lower incidences were found for viruses that were listed (i.e., tested for a certification) by the Foundation Planting Service’s and the National Clean Plant Network’s grape programs. On the other hand, there was a lack of the age effect on incidence of GRSPaV and GRBV, which were not listed until recently. These results suggest the importance of clean plant material and vector management for grapevine virus disease management in Virginia.

scholarly journals Viral Diversity in Autochthonous Croatian Grapevine Cultivars

Plant Disease ◽  
2017 ◽  
Vol 101 (7) ◽  
pp. 1230-1235 ◽  
Author(s):  
Darko Vončina ◽  
Maher Al Rwahnih ◽  
Adib Rowhani ◽  
Mona Gouran ◽  
Rodrigo P. P. Almeida
Keyword(s):  
Coastal Region ◽  
Germplasm Collection ◽  
Grapevine Virus A ◽  
Group I ◽  
High Infection ◽  
Grapevine Pinot Gris Virus ◽  
Leaf Deformation ◽  
Rupestris Stem Pitting ◽  
First Time ◽  
Stem Pitting

A survey was conducted on nine autochthonous grapevine cultivars grown along the Croatian coastal region. In total, 48 vines (44 from germplasm collection, 4 from vineyards) originating from 23 sites were tested for 26 viruses using molecular methods. Results revealed high infection rates with Grapevine leafroll-associated virus 3 (GLRaV-3); Grapevine virus A (GVA, both 91.7%); Grapevine fleck virus (GFkV, 87.5%); and Grapevine rupestris stem pitting-associated virus (GRSPaV, 83.3%). Other detected viruses were: Grapevine fanleaf virus (GFLV); Grapevine leafroll-associated viruses 1, 2, and strains of 4 (GLRaV-1, GLRaV-2, GLRaV-4); Grapevine viruses B, D, F (GVB, GVD, GVF); Grapevine red globe virus (GRGV); Grapevine vein feathering virus (GVFV); Grapevine Syrah virus 1 (GSyV-1); and Grapevine Pinot gris virus (GPGV). No virus-free vine was found. Mixed infections were determined in all vines, the number of viruses in a single vine ranged from three to nine. GLRaV-3 variant typing confirmed presence of group I, II, and III. Four vines with leaf deformation and mottling were positive for GPGV. Seven viruses (GLRaV-4-like group, GVD, GVE, GVF, GRGV, GSyV-1, and GVFV) were detected for the first time in Croatia. This survey confirmed the deteriorated sanitary status of autochthonous Croatian grapevine cultivars.

scholarly journals Predominance and Diversity of GLRaV-3 in Native Vines of Mediterranean Croatia

Plants ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 17
Author(s):  
Katarina Hančević ◽  
Pasquale Saldarelli ◽  
Mate Čarija ◽  
Silvija Černi ◽  
Goran Zdunić ◽  
...  
Keyword(s):  
Single Strand Conformation Polymorphism ◽  
Phylogenetic Group ◽  
Enzyme Linked Immunosorbent Assay ◽  
Phylogenetic Groups ◽  
Arabis Mosaic Virus ◽  
Grapevine Virus A ◽  
Group I ◽  
Grapevine Pinot Gris Virus ◽  
Virus Genomes ◽  
Rupestris Stem Pitting

Sixteen grapevine cultivars from Mediterranean Croatia were surveyed for the presence of 10 of the most economically important grapevine viruses. The presence of Grapevine fanleaf virus (GFLV), Arabis mosaic virus (ArMV), Grapevine leafroll associated virus-1, -2, and -3 (GLRaV-1; GLRaV-2 and GLRaV-3), Grapevine virus A (GVA) and B (GVB), Grapevine fleck virus (GFkV), Grapevine rupestris stem pitting associated virus (GRSPaV), and Grapevine Pinot gris virus (GPGV) were tested by reverse transcription polymerase chain reaction (RT-PCR) and enzyme-linked immunosorbent assay (ELISA). All 71 analyzed clones were positive for the presence of one or more viruses. The most abundant one, detected in almost 95% of samples was GLRaV-3. In most of cases it was reported in mixed infections with GVA, GRSPaV, and GPGV. Virus genomes of GLRaV-3 infected vines were further characterized molecularly in order to determine their genetic diversity. Different genomic variants of heat shock 70 protein homologue (HSP70h) were identified by single-strand conformation polymorphism (SSCP) and sequenced. Sequence analysis confirmed their clustering into phylogenetic group I and/or phylogenetic group II. This study emphasizes the wide virus heterogenicity in Mediterranean vines and the predominant presence of GLRaV-3 phylogenetic groups I and II, either individually or in combination.

scholarly journals First Report on the Occurrence of Grapevine leafroll-associated virus 5 in Chilean Grapevines

Plant Disease ◽  
2010 ◽  
Vol 94 (8) ◽  
pp. 1067-1067 ◽  
Author(s):  
E. A. Engel ◽  
P. F. Escobar ◽  
P. A. Rivera ◽  
P. D. T. Valenzuela
Keyword(s):  
Amino Acid ◽  
Protein Gene ◽  
Amino Acid Identity ◽  
Specific Primers ◽  
Sauvignon Blanc ◽  
Reverse Transcription Pcr ◽  
Reference Isolate ◽  
Grapevine Virus A ◽  
Rupestris Stem Pitting ◽  
Stem Pitting

Grapevine leafroll is one of the most widespread and economically damaging viral diseases of grapevines. At least eight distinct Grapevine leafroll-associated viruses (GLRaVs), all members of the Closteroviridae family, have been associated with this disease (4). GLRaV-5 was recently reported in vineyards from Argentina (2). To determine if GLRaV-5 was present in Chilean grapevines, in addition to the previously reported GLRaV-1, -2, -3, -4, -7, and -9 (1), 45 dormant cane samples from 12 different cultivars were collected from different geographic regions of Chile and screened by reverse transcription-PCR. Two of the forty-five samples (cvs. Sauvignon Blanc and Superior) collected from the III (700 km north of Santiago) and VI (150 km south of Santiago) regions of Chile, respectively, were found to be infected with GLRaV-5 using two different pairs of virus-specific primers. The first pair of primers, LR5-1F: 5′-CCCGTGATACAAGGTAGGACA-3′ and LR5-1R: 5′-CAGACTTCACCTCCTGTTAC-3′ (3), was used to amplify a 690-bp fragment corresponding to a partial region of the coat protein gene. The sequences obtained from the two positive samples (GenBank Accession Nos. HM214148 and HM214149) shared 97 and 94% of nucleotide identities, respectively, with the corresponding fragment of a reference GLRaV-5 isolate (GenBank Accession No. EU815935). Both samples shared 99% of amino acid identity with the same reference isolate. A second pair of primers, LR5upF: 5′-CTCTGCTTTTCTGCTGGCA-3′ and LR5doR: 5′-TATCTTTTATCTCCCGATAAACGAG-3′ (4) that amplified a 160-bp fragment of the HSP70h gene was also used. The positive Chilean samples (GenBank Accession Nos. HM214150 and HM214151) shared in both cases 98% nucleotide and 98% amino acid identities with the corresponding fragment of a reference GLRaV-5 isolate (Accession No. AF039552). The two GLRaV-5-positive plants were additionally infected with other viruses previously reported in Chile (1). The cv. Sauvignon Blanc sample was also infected with GLRaV-2, Grapevine fleck virus, and Grapevine rupestris stem pitting-associated virus. The cv. Superior sample was also infected with GLRaV-3, GLRaV-4, and Grapevine virus A. References: (1) E. A. Engel et al. J. Virol. Methods 163:445, 2010. (2) S. Gomez et al. Virus Genes 38:184, 2009. (3) X. Good and J. Monis. Phytopathology 91:274, 2001. (4) V. I. Maliogka et al. J. Virol. Methods 154:41, 2008.

scholarly journals Incidência de vírus em videiras no Nordeste brasileiro e caracterização molecular parcial de isolados virais locais

2015 ◽  
Vol 45 (3) ◽  
pp. 379-385 ◽  
Author(s):  
Aricléia de Moraes Catarino ◽  
Thor Vinícius Martins Fajardo ◽  
Gilvan Pio-Ribeiro ◽  
Marcelo Eiras ◽  
Osmar Nickel
Keyword(s):  
Grapevine Virus ◽  
Rt Pcr ◽  
Grapevine Fanleaf Virus ◽  
Grapevine Virus A ◽  
Grapevine Virus B ◽  
Rupestris Stem Pitting ◽  
Stem Pitting

Os objetivos deste trabalho foram identificar as espécies virais presentes em vinhedos comerciais de duas regiões do Nordeste do Brasil e realizar a caracterização molecular parcial de isolados de três espécies virais. A diagnose foi realizada por meio de RT-PCR em tempo real para a detecção de Grapevine rupestris stem pitting-associated virus (GRSPaV), Grapevine virus A (GVA), Grapevine virus B (GVB), Grapevine leafroll-associated virus 2, 3 e 4 (GLRaV-2, -3 e -4), Grapevine fleck virus (GFkV), Grapevine rupestris vein feathering virus (GRVFV) e Grapevine fanleaf virus (GFLV). Exceto para GFLV, os vírus avaliados estão amplamente disseminados nas áreas amostradas, frequentemente em altas incidências e em infecções múltiplas, de até 98% e 76,4%, na Zona da Mata e no Vale do São Francisco, respectivamente. Isolados locais de GVA, GVB e GLRaV-3 foram parcialmente caracterizados com base na sequência completa de nucleotídeos do gene da proteína capsidial e apresentaram alta porcentagem de identidade de nucleotídeos com outros isolados brasileiros: 91,2% (GVA), 99,8% (GVB) e 99,7% (GLRaV-3)

scholarly journals Genetic diversity analyses of grapevine Rupestris stem pitting-associated virus reveal distinct population structures in scion versus rootstock varieties

2006 ◽  
Vol 87 (6) ◽  
pp. 1725-1733 ◽  
Author(s):  
Baozhong Meng ◽  
Ana Rita Rebelo ◽  
Helen Fisher
Keyword(s):  
Genetic Diversity ◽  
International Exchange ◽  
Cdna Clones ◽  
Helicase Domain ◽  
Origin And Evolution ◽  
The Family ◽  
Population Structures ◽  
Genomic Regions ◽  
Rupestris Stem Pitting ◽  
Stem Pitting

Grapevine Rupestris stem pitting-associated virus (GRSPaV) is a member of the genus Foveavirus within the family Flexiviridae. GRSPaV is closely associated with the disease Rupestris stem pitting and is frequently detected in grapevines worldwide. Previous research in several laboratories suggests that GRSPaV consists of a family of sequence variants. However, the genetic composition of GRSPaV variants in viral isolates from scion and rootstock varieties has not been studied extensively. In this report, the genetic diversity and population structure of GRSPaV isolates from scion and rootstock varieties were analysed using two pairs of primers targeting two different genomic regions encoding the helicase domain of the replicase and the capsid protein. In total, 190 cDNA clones derived from 24 isolates were sequenced and analysed. At least four major groups of GRSPaV variants were found to exist in grapevines. Interestingly, the majority of the scion varieties (9/10) that were analysed, regardless of their genetic background and geographical origin, harboured complex viral populations composed of two to four distinct viral variants. In contrast, the viral populations in isolates from rootstock varieties were homogeneous and comprised a single variant. The practice of grafting between scion and rootstock varieties commonly used in modern viticulture, coupled with the frequent regional and international exchange of propagating materials, may have played a major role in the ubiquitous distribution and mixed infections of distinct GRSPaV variants among scion varieties. The possible origin and evolution of GRSPaV are also discussed.

Sign in / Sign up

Export Citation Format

Share Document