Molecular Characterization of Phylogenetically Distinct Isolates of Grapevine fanleaf virus from Iran Based on 2AHP Gene

Sokhandan-Bashir, Nemat; Hooshmand, Azam; Delpasand-Khabazi, Afsaneh

doi:10.1007/s13337-012-0057-4

Cited by 5 publications

(4 citation statements)

References 26 publications

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“…Considering the abundance of nepovirus species such as GFLV, GDefV, and ArMV in grapevine libraries, it is likely that decline and stunting symptoms of grapevines in the surveyed vineyards are caused by infectious degeneration syndrome induced by nepoviruses [ 6 ], although mosaic and fanleaf symptoms are not observed on grapevine leaves. Previous reports also indicate that Iranian GFLV isolates represent a divergent group in the GFLV population [ 24 , 68 , 69 ], and Vitis vinifera cultivars in Iran do not show severe and clear symptoms of GFLV infection [ 70 ].…”

Section: Discussionmentioning

confidence: 99%

Application of High-Throughput Sequencing for Comprehensive Virome Profiling in Grapevines Shows Yellows in Iran

Gholampour,

Zakiaghl,

Asquini

et al. 2024

Viruses

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A comprehensive study on the whole spectrum of viruses and viroids in five Iranian grapevine cultivars was carried out using sRNA libraries prepared from phloem tissue. A comparison of two approaches to virus detection from sRNAome data indicated a significant difference in the results and performance of the aligners in viral genome reconstruction. The results showed a complex virome in terms of viral composition, abundance, and richness. Thirteen viruses and viroids were identified in five Iranian grapevine cultivars, among which the grapevine red blotch virus and grapevine satellite virus were detected for the first time in Iranian vineyards. Grapevine leafroll-associated virus 1 (GLRaV1) and grapevine fanleaf virus (GFLV) were highly dominant in the virome. However, their frequency and abundance were somewhat different among grapevine cultivars. The results revealed a mixed infection of GLRaV1/grapevine yellow speckle viroid 1 (GYSVd1) and GFLV/GYSVd1 in grapevines that exhibited yellows and vein banding. We also propose a threshold of 14% of complete reconstruction as an appropriate threshold for detection of grapevine viruses that can be used as indicators for reliable grapevine virome profiling or in quarantine stations and certification programs.

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Section: Discussionmentioning

confidence: 99%

Application of High-Throughput Sequencing for Comprehensive Virome Profiling in Grapevines Shows Yellows in Iran

Gholampour,

Zakiaghl,

Asquini

et al. 2024

Viruses

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“…Comparison of the satRNA sequences from Iran with the previously reported satRNA sequences suggested that the former were phylogenetically close to that reported from Slovenia and Central Europe, however, the reported satRNA sequences in this study are placed in a distinct sub clade on the phylogenetic tree. The previous studies on CP and MP genes of GFLV in Iran have shown the distinctness of Iran isolates among all the reported GFLV sequences from around the world (Sokhandan et al 2012). So, the distinct positions of satRNAs from Iran in the phylogenetic tree could be because of the distinctness of the helper virus.…”

Section: Glasshouse Studiesmentioning

confidence: 93%

“…The genetic variation in the flanking sequences of satRNA and failure in the primer annealing process might be the reason for unsuccessful RT-PCR amplification once other primers were used. Also, previous studies on Iran isolates of GFLV have revealed that they possess distinct genotypes, consequently the primers which were designed based on exotic GFLV isolates could not be efficient in annealing the local isolates (Sokhandan et al 2012). Among the newly designed primers, Gf750/Gr750 had a better amplification thus were utilized in the study.…”

Section: Glasshouse Studiesmentioning

confidence: 99%

Association of satellite RNA with Grapevine fanleaf virus in its geographical origin and sequence characteristics

Khabbazi¹,

Bashir²,

Zarghani³

2021

Tarım Bilimleri Dergisi

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The region between The Caspian Sea and Black Sea has been hypothesized as the origin of grapevine.Likewise, an extensive study on Grapevine fanleaf virus (GFLV) from this region suggests this region as a possible origin of the virus. However, as yet there is no information as to whether or not the virus variants from this region accompanied with the virus satellite RNA (satRNA) and if so, how diverse theses satRNAs can be. To answer these questions, Grapevine fanleaf virus isolates were collected from different vineyards in the northwest region of Iran for the occurrence of the satellite RNA. A total of 421 samples including Vitis vinifera, Chenopodium quinoa, C. amaranticolor, Cynodon dactylis, Medicago sativa were initially screened against GFLV by RT-PCR with the coat protein primers (Cp433, Cp912). When the GFLVinfected plants (36 samples) were screened by RT-PCR with the newly designed satRNA primers Gf750 and Gr750, three samples appeared to possess the satRNA. The satellite cDNA fragments were cloned and sequenced and when the resulting data were compared with sequences of previously-reported satRNA of GFLV and Arabis mosaic virus (ArMV), 70-98% and 69-71% similarities were found, respectively.Phylogenetic studies revealed distinctness of the satRNAs from Iran. This may suggest coevolution of the satRNA with the helper virus because GFLV isolates from this region also form a distinct branch. Among previously reported corresponding satRNA sequences to those from Slovenia and South Central Europe were the closest. This study also reports C. amaranticolor as the natural host for GFLV, which was previously reported only as an experimental host.

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“…It is estimated that the global loss of over 1 billion US dollars is due to viral infection in only vineyards (Mckenzie and Pathirana, 2007). Despite the conducted studies relating to grapevine, the necessity to identify and control viruses is still main issue (Bashir et al, 2009;Sokhandan-Bashir et al, 2012). The first step to control the viral diseases is to identify the virus.…”

Section: Introductionmentioning

confidence: 99%

Extraction and molecular detection of viral dsRNA from different infected plants

Khabbazi¹,

Bashir

Khabbazi

et al. 2017

jsa

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Extraction of viral double stranded RNA (dsRNA) from infected plants is helpful in identification of the viruses involved in infection. To date, there have been several methods developed to isolate dsRNA; however, type of the plant and virus is determinative in extraction efficiency. In this study we extracted dsRNA from different woody and herbaceous plants through a modified method which reduces the costs and time of extraction procedure. This method is based on different affinity of nucleic acids for the cellulose CF-11 in1X STE (Sodium chloride Tris EDTA) buffer containing 16 % ethanol. There is no phenol treatment or mini columns used in the isolation procedure. Extracted dsRNAs were identified by ribonuclease treatment and RT-PCR (Reverse Transcriptase-Polymerase Chain Reaction). We have applied the procedure on five different hosts representing Amaranthaceae, Vitaceae, Fabaceae and Rosaceae infected with four different viruses representing Secoviridae and Bromoviridae.

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Molecular Characterization of Phylogenetically Distinct Isolates of Grapevine fanleaf virus from Iran Based on 2AHP Gene

Cited by 5 publications

References 26 publications

Application of High-Throughput Sequencing for Comprehensive Virome Profiling in Grapevines Shows Yellows in Iran

Application of High-Throughput Sequencing for Comprehensive Virome Profiling in Grapevines Shows Yellows in Iran

Association of satellite RNA with Grapevine fanleaf virus in its geographical origin and sequence characteristics

Extraction and molecular detection of viral dsRNA from different infected plants

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