Hakkari İli Domates ve Biber Üretim Alanlarında Yonca Mozaik Virüsü ve Domates Lekeli Solgunluk Virüsü’nün Belirlenmesi

AKDURA, Nevin; Kiliç, Handan Çulal

doi:10.19113/sdufenbed.1082948

Cited by 4 publications

(1 citation statement)

References 18 publications

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“…In Hakkari province, a study was conducted to investigate 184 tomato and pepper plants exhibiting viral symptoms of AMV infection using DAS-ELISA. The diagnosis of AMV was confirmed in two tomato samples (Akdura and Kılıç, 2022). In another study using DAS-ELISA, single and mixed infections of three viruses, including AMV, were detected in bean plants in Muğla province.…”

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confidence: 69%

Coat protein of alfalfa mosaic alfamovirus (AMV) from Türkiye: genetic inference and in silico docking analysis for potential antiphytoviral purposes

DEMİREL,

GÜLLER,

USTA

et al. 2024

Not Bot Horti Agrobo

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In 2021, a study was conducted in the Denizli region of Türkiye to investigate the phylogenetic relationship and presence of alfalfa mosaic alfamovirus (AMV) infecting pepper plants exhibiting viral disease symptoms. A total of 57 samples were collected, of which twenty-four tested positive for AMV with reverse transcriptase polymerase chain reaction (RT-PCR) assays. Samples from pepper plants displaying virus symptoms gave positive bands on the agarose gel, while healthy plants yielded negative results. One of the positive samples was randomly selected, cloned and sequenced. This sequence of the Denizli AMV isolate (753 bp) was recorded in the GenBank database with accession number OQ845956. The nucleotide sequence showed a high nucleotide consensus of 97%-99% compared with the nucleotide sequences of the same variants from different origins in GenBank. According to the phylogenetic tree generated through the Neighbour Joining (NJ) method, this AMV isolate belongs to the same group as Iranian isolates from various of hosts. Furthermore, in silico docking analysis of the coat protein (CP) of the AMV isolate and promising 12 essential oil compounds was performed to enable potential antiviral drug development. Docking study showed that eucalyptol, eugenol and carvacrol can make important contributions to the advancement of drug-based strategies for the managing of plant viruses by interacting with the virus coat protein of high binding energies, -5.3, -5.2 and -5.0 kcal mol-1, respectively. Although the presence of AMV in Denizli province has been reported previously, this study reports the phylogenetic relationships and docking analysis of the new AMV isolate in pepper crops.

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Section: Discussion Discussion Discussionmentioning

confidence: 69%

Coat protein of alfalfa mosaic alfamovirus (AMV) from Türkiye: genetic inference and in silico docking analysis for potential antiphytoviral purposes

DEMİREL,

GÜLLER,

USTA

et al. 2024

Not Bot Horti Agrobo

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Bean Common Mosaic Potyvirus (BCMV) Characterized from Bean (Phaseolus vulgaris L.) Crops Affected by Mosaic Disease in Denizli Province, Türkiye

Usta

Güller

2023

Türkiye Tarımsal Araştırmalar Dergisi

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Bean (Phaseolus vulgaris) are one of the world's oldest crops with both financial and nutritional importance. Bean health is influenced by numerous biotic and abiotic factors, which can lead to significant crop losses. In the plant world, viruses are a challenging group of plant pathogens to combat, due to the difficulty of controlling them. BCMV is one of the prevalent viral agents that affects beans across the globe. Determining the presence of the agent in the relevant region is critical for minimizing crop losses by implementing appropriate preventive and control measures. In this study, 73 bean leaf samples were collected from bean growing areas in Denizli province of Turkey in 2022. The samples were screened for the presence of viral agents using Polymerase Chain Reaction (PCR) with specific primers targeting the polypeptide gene. 26 of the bean samples were found to be positive for BCMV. The coat protein gene sequences of two randomly selected positive isolates were sequenced and deposited in the GenBank with accession numbers OQ910196 and OQ910197. The nucleotide sequences of isolates were found to have high similarity with those of isolates identified in various regions of the world. Phylogenetic analysis indicated that these isolates from Denizli, Turkey were closely related to other Turkish isolates. However, since some Turkish isolates in the cluster associated with the Denizli isolates were identified as belonging to the US-5 or NL-6 strain, the current sequences may be related to these strains. Further research is necessary to identify the exact strain of the Denizli isolates, which could be achieved through the use of a strain differentiation set.

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Investigation of viruses and phytoplasma infections in tomato plantations in Bilecik province, Türkiye

Randa Zelyüt,

Karanfil,

Santosa

2024

int. j. agric. environ. food sci.

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In this study, the status of infections caused by viruses and phytoplasmas in tomato production areas of Bilecik province was determined using conventional molecular methods. During the 2022 tomato production season, 93 plants exhibiting symptoms such as mosaic, leaf and fruit deformations, flower anomalies, and necrotic spots were collected. Viral agents such as tomato spotted wilt virus (TSWV), cucumber mosaic virus (CMV), southern tomato virus (STV), tobamoviruses, and potyviruses were screened by RT-PCR, while phytoplasmas were detected by nested-PCR. Single, double, and triple infections were detected in 50 of the 93 plants. 17, 5, and 21 plants were infected by a single pathogen for TSWV, STV, and phytoplasmas, respectively. 1, 3, and 2 plants were infected by two pathogens for STV+TSWV, STV+phytoplasma, and TSWV+phytoplasma, respectively. Only one plant detected a triple infection caused by STV, TSWV, and phytoplasmas. The phytoplasma genetic group was determined as 16Sr XII-A by PCR RFLP in-silico and in-vitro methods. Sequencing studies revealed that TSWV had high nucleotide sequence similarity with other Türkiye isolates for the NSs partial gene and STV entire CP gene region. For phytoplasmas, sequencing studies showed that the obtained tomato strains overlapped one-to-one with stolbur strains. Phylogenetic analyses applied with global isolates for TSWV NSs and STV CP gene regions showed the existence of 2 main groups (Clade I and Clade II). TSWV and STV isolates obtained from this study clustered in large main branches (Clade I).

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Hakkari İli Domates ve Biber Üretim Alanlarında Yonca Mozaik Virüsü ve Domates Lekeli Solgunluk Virüsü’nün Belirlenmesi

Cited by 4 publications

References 18 publications

Coat protein of alfalfa mosaic alfamovirus (AMV) from Türkiye: genetic inference and in silico docking analysis for potential antiphytoviral purposes

Coat protein of alfalfa mosaic alfamovirus (AMV) from Türkiye: genetic inference and in silico docking analysis for potential antiphytoviral purposes

Bean Common Mosaic Potyvirus (BCMV) Characterized from Bean (Phaseolus vulgaris L.) Crops Affected by Mosaic Disease in Denizli Province, Türkiye

Investigation of viruses and phytoplasma infections in tomato plantations in Bilecik province, Türkiye

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