Molecular Characterization of the Coat Protein Genome of Alfalfa Mosaic Virus (AMV) Isolates from Alfalfa in Van Province

Usta, Mustafa; Güller, Abdullah

doi:10.21597/jist.719099

Cited by 5 publications

(7 citation statements)

References 50 publications

(60 reference statements)

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“…isolates. This result is in agreement with the findings reported by various researchers using the same primer set in alfalfa and other plant species (Al-Saleh and Amer, 2013; Abdalla et al, 2019;Usta and Güller, 2020). Different primers can also be used in the diagnosis of AMV.…”

Section: Resultssupporting

confidence: 92%

“…The homology of CP gene sequences of both AMV isolates ranged from 97 to 99.37% with that of other members of the Alfamovirus genus. The phylogenetic interrelationship created from 21 CP sequences of AMV using the Neighbor-Joining algorithm indicated that both AMV sequences are closely related to alfalfa isolates from Van province (MT210179 and MT210178) and Iğdır province of Turkey (MW882262 and MW882261) ( Earlier literature suggested that AMV has existed for forty years in Turkey and various crops are highly susceptible to this infection (Erdiller and Lesemann, 1985;Çalı, 1990;Yardımcı and Açıkgöz, 1997;Çıtır, 1982;Usta and Güller, 2020). The presence of AMV has been reported in agroeconomic crops and weed such as potato, eggplant, Datura stramonium, bean, alfalfa, husk tomato, and pepper from agricultural region nationwide (Özdemir and Erilmez, 2007;Sertkaya et al, 2017;Ozdemir et al, 2011;Çulal Kılıç and Yardımcı, 2015;Çetinkıran and Baloğlu, 2011;Topkaya, 2020).…”

Section: Resultsmentioning

confidence: 99%

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Phylogenetic Relationship of Alfalfa Mosaic Virus (AMV) Isolate Identified in Bingöl Province of Turkey

Güller

Usta

KORKMAZ

2022

Türk Tarım Ve Doğa Bilimleri Dergisi

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Alfalfa mosaic virus (AMV) is one of the most important viral diseases of alfalfa plant among the forage crop, causing significant annual economic losses. The agent is also of potential importance to other cultivars such as tomatoes, potatoes, and peppers in most cases. The identification and phylogenetic relationships of AMV were carried out by reverse-transcription polymerase chain reaction (RT-PCR), following by bacterial cloning. The cDNA of alfalfa samples (12) were subjected to RT-PCR tests using primer pairs, specific for the capsid protein gene (CP) of AMV, resulting in a DNA fragment of approximately 700 bp as expected. The amplicons were directly cloned and then resulting sequences were deposited in GenBank (Acc. No: MW962977, MW962976). The BLASTn analysis of both sequences demonstrated that AMV virus isolates from alfalfa were highly similar to other AMV isolates from various crops in the world, with nucleotide identity ranging from 97 to 99.37%. The results of phylogenetic dendrogram based on CP gene sequences clearly suggested that our isolates are closely related to four AMV isolates from alfalfa in Turkey. To our knowledge, this study is the first report of molecular phylogeny and AMV presence in alfalfa exhibiting yellowing, mottling, and leaves abnormalities in Bingöl province, Turkey.

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Section: Resultssupporting

confidence: 92%

Section: Resultsmentioning

confidence: 99%

Phylogenetic Relationship of Alfalfa Mosaic Virus (AMV) Isolate Identified in Bingöl Province of Turkey

Güller

Usta

KORKMAZ

2022

Türk Tarım Ve Doğa Bilimleri Dergisi

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“…AMV-infected pepper plants were reported in Samsun by Arli-Sökmen et al (2005), in Adana by Çetinkıran and Baloğlu (2011), and in Kahramanmaraş by Demir (2005). In addition, the presence of AMV in Türkiye was molecularly shown with RT-PCR in parsley in Konya , potato in Tokat (Topkaya, 2022), and alfalfa in Bingöl and Van (Usta and Güller, 2020;Güller et al, 2022). AMV was also reported in the provinces of Manisa, Balıkesir, and Burdur from different plant origins Kılıç and Yardımcı, 2015).…”

Section: Discussion Discussion Discussionmentioning

confidence: 94%

“…AMV has been detected in many plant species worldwide, not just in one region. It has been found in vegetable and forage crops, including alfalfa in Saudi Arabia (Al-Shahwan, 2002), soybean in China (Che et al, 2020), pea in Iran (Esfandiari et al, 2005), natural tobacco, alfalfa and pepper plants in Türkiye (Arli-Sökmen et al, 2005;Erdem, 2010;Usta et al, 2020;), potatoes in Canada (Xu and Nie, 2006), tomatoes in Lithuania (Zitikaitė and Samuitienė, 2008), and in many other studies. AMV is infectious to weeds, spice and ornamental plants, and various fruit trees; it has been detected in basil in Egypt, ornamental plants (Narcissus) and Campsis radicans known as trumpet creeper in Iran, Lavandula × Intermedia in Croatia, eggplant in Egypt, and medicinal plants (Gynostemma pentaphyllum) in China (Vrandečić et al, 2013;Pourrahim and Farzadfar, 2015;Al-Shahwan et al, 2017;El-Attar et al, 2019;Song et al, 2019).…”

Section: Introduction Introduction Introduction Introductionmentioning

confidence: 98%

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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“…Ülkemizde de yonca mozaik virüsü başta yoncalarda olmak üzere farklı kültür bitkilerinde rapor edilmiştir [12,[35][36][37][38][39][40][41].…”

Section: Virüslerden Kaynaklanan Zararın En Alt Düzeye Indirilebilmes...unclassified

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

AKDURA

Kiliç

2022

Süleyman Demirel Üniversitesi Fen Bilimleri Enstitüsü Dergisi

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Hakkari ili domates ve biber üretim alanlarında domates lekeli solgunluk virüsü (Tomato spotted wilt virus, TSWV) ve yonca mozaik virüsü (Alfalfa mosaic virus, AMV)’nün belirlenmesi için yapılan sürveyler 2020 üretim döneminde gerçekleştirilmiştir. Domates ve biber üretim alanlarında sararma, nekroz, mozaik ve şekil bozukluğu simptomu gösteren 184 bitkiden yaprak örneği toplanmıştır. Toplanan yaprak örneklerinde TSWV ve AMV’nin belirlenmesi için Double antibody sandwich enzyme linked immunosorbent assay (DAS-ELISA) yöntemi kullanılmıştır. DAS-ELISA yöntemine göre toplam 184 yaprak örneğinden 26 adedinin TSWV ve 2 adedinin AMV ile enfekteli olduğu saptanmıştır. Toplanan örneklerde karışık enfeksiyona rastlanmamıştır. Bu çalışma Hakkari ili domates ve biber alanlarında TSWV ve AMV’nin tanılanması bakımından yapılan ilk çalışmadır.

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Molecular Characterization of the Coat Protein Genome of Alfalfa Mosaic Virus (AMV) Isolates from Alfalfa in Van Province

Cited by 5 publications

References 50 publications

Phylogenetic Relationship of Alfalfa Mosaic Virus (AMV) Isolate Identified in Bingöl Province of Turkey

Phylogenetic Relationship of Alfalfa Mosaic Virus (AMV) Isolate Identified in Bingöl Province of Turkey

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

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

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