Identification and characterization of Ageratum yellow vein Malaysia virus (AYVMV) and an associated betasatellite among begomoviruses infecting Solanum lycopersicum in Malaysia

Mahmoudieh, Mohtaram; Noor, Mohamad Roff Mohd; Harikrishna, Jennifer Ann; Othman, Rofina Yasmin

doi:10.1007/s13353-020-00574-4

Cited by 3 publications

(4 citation statements)

References 37 publications

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“…In cells of OxYVV-infected plants, electron-dense regions were observed inside the nucleus that resemble the aggregates of viral particles encountered in begomovirus infections (Mahmoudieh et al, 2020;Morales et al, 1990). These electron-dense regions appear to have a honeycomb shape as observed in bean golden mosaic virus (BGMV)-infected common bean cells , although we could not see a clear delimitation between the putative particles or an individual geminate particle.…”

Section: Discussioncontrasting

confidence: 52%

Study of sida yellow spot virus, a begomovirus with a divergent coat protein

Lima

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Viruses of the genus Begomovirus (family Geminiviridae) are considered one of the most relevant plant pathogens due to the severe losses that they cause in economically important crops. Begomoviruses are transmitted by the whitefly Bemisia tabaci in a persistent- circulative manner, and the only viral protein required for acquisition and transmission by the insect vector is the capsid protein (CP). The CP mediates vector specificity and controls virus transport through the whitefly gut, protecting the virus from degradation, through interaction with a GroEL homologue produced by endosymbiotic bacteria. Although the CP is the most conserved begomovirus protein, we have described a bipartite begomovirus with a highly divergent CP, named Sida yellow spot virus (SiYSV), infecting the non-cultivated plant Sida acuta (Malvaceae). The objectives of this work were to determine whether SiYSV is capable of forming geminate particles, and to carry out the biological and molecular characterization of SiYSV. For the first objective, the 3D structure of the SiYSV CP was predicted using AlphaFold and compared with other typical begomovirus CP's by mTM-align. Then, ultrathin sections of infected plants were observed under a transmission electron microscope for detection of viral particles. Although very different in sequence, the SiYSV CP assumes a 3D conformation similar to that of other begomoviruses. However, particles were not observed under the TEM. For the second objective, the SiYSV host range was assessed, and a whitefly transmission assay was performed. B. tabaci MEAM1 was not able to transmit SiYSV, and an interaction between the CP and GroEL was not observed by BiFC. Furthermore, the subcellular localization of SiYSV-encoded proteins was observed on a confocal microscope and their ability to suppress RNA silencing was analyzed. The results indicate that these proteins had the same pattern of localization expected for typical begomoviruses, but we could not observe any strong silencing suppression activity. Together, these results indicate that the SiYSV-encoded proteins can function just as those of other begomoviruses, thus the possibility that SiYSV forms its capsid cannot be discarded even though we have not yet observed its particles. Also, the inability of B. tabaci to transmit SiYSV may not be related to the inability to form viral particles, but rather to the lack of interaction between CP and GroEL.Keywords: Geminivirus. Coat protein. Bemisia tabaci.

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Section: Discussioncontrasting

confidence: 52%

Study of sida yellow spot virus, a begomovirus with a divergent coat protein

Lima

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“…This particular aspect of AYVMV has been determined in this study. The AYVMV is a begomovirus known to infect Ageratum conyzoides and some other hosts (Choi et al 2019;Mahmoudieh et al 2020;Mo et al 2023).…”

Section: Discussionmentioning

confidence: 99%

Cap-snatching mechanism-mediated unveiling of the transcriptional initiation sites of two distinct begomoviruses

Arif

2024

J Plant Dis Prot

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Significant economic losses are inflicted by plant viruses, which pose a risk to sustainable agriculture. The proliferation of novel viral diseases is predominantly attributable to factors such as climate change, international trade, and the rapid evolutionary capabilities of viruses. Begomoviruses are a major group of plant-infecting viruses that pose an imminent threat to global agriculture by causing devastating viral diseases in many crop species. The transcriptional start sites (TSSs) of many plant viruses are typically found in the intergenic region (IR), which is the non-coding (NC) area between the viral genes. The promoters play a crucial role in initiating the transcription process by aiding in the recruitment of cellular transcription machinery. The TSSs are precise nucleotide sequences where RNA polymerase initiates the transcription process. The primary objective of this study was to determine the total number of TSSs for two devastating begomoviruses, family: Geminiviridae, Cotton leaf curl Multan virus (CLCuMuV) and Ageratum yellow vein mosaic virus (AYVMV), using the cap-snatching method in conjunction with one heterologous plant virus. These two begomoviruses, along with their infectious clones, were intentionally infected with selected heterologous plant virus in N. benthamiana plants. The identification of the 5′ ends of heterologous viral mRNA was accomplished by employing high-throughput sequencing to assess the capped RNA leaders (CRLs). The determination of the 5′ termini of suspected begomoviral mRNAs was achieved by aligning the collected CRLs of heterologous virus with the genome of each begomovirus, taking into account only those that were a perfect match with the begomoviral genome. In this study, the TSSs of both begomoviruses were identified via complementary approach. The utilization of high-throughput sequencing for both begomoviruses has facilitated the acquisition of millions of sequences. Comprehending the TSSs and promoter components of begomoviruses is crucial for understanding their ability to cause disease, their interactions with host organisms, and for developing effective methods to manage and control the diseases, they inflict on economically significant crop plants.

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“…Other studies employing NGS for tomato crops have been reported. Mahmoudieh et al (2020) NGS discovered four new viruses, namely Camellia yellow ringspot virus (CaYRSV), Camellia chlorotic ringspot viruses (CaCRSVs), Camellia-associated marafivirus (CaMaV), and Camellia-associated badnavirus (CaBaV) in Chinese Camellia japonica plants. These studies led to the validation of CaCRSVs as a novel genus belonging to family Fimoviridae.…”

Section: Next-generation Sequencing Technologies As Go-to Tool For Plant Virologymentioning

confidence: 99%

“…Other studies employing NGS for tomato crops have been reported. Mahmoudieh et al (2020) surveyed tomato fields from different Peninsular Malaysian regions for the presence and distribution of begomoviruses, Tomato yellow leaf curl Kanchanaburi virus and Pepper yellow leaf curl Indonesia virus by an ORF-based study. They also recognized a novel virus, Ageratum yellow vein Malaysia virus, and its genome of single-stranded DNA and betasatellite component obtained by using NGS showed the maximum sequence similarity with Ageratum yellow vein virus (99%) and Pepper yellow leaf curl betasatellite (91%), respectively.…”

Section: Next-generation Sequencing Technologies As Go-to Tool For Plant Virologymentioning

confidence: 99%

Integrating CRISPR-Cas and Next Generation Sequencing in Plant Virology

et al. 2021

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Plant pathology has been revolutionized by the emergence and intervention of next-generation sequencing technologies (NGS) which provide a fast, cost-effective, and reliable diagnostic for any class of pathogens. NGS has made tremendous advancements in the area of research and diagnostics of plant infecting viromes and has bridged plant virology with other advanced research fields like genome editing technologies. NGS in a broader perspective holds the potential for plant health improvement by diagnosing and mitigating the new or unusual symptoms caused by novel/unidentified viruses. CRISPR-based genome editing technologies can enable rapid engineering of efficient viral/viroid resistance by directly targeting specific nucleotide sites of plant viruses and viroids. Critical genes such as eIf (iso) 4E or eIF4E have been targeted via the CRISPR platform to produce plants resistant to single-stranded RNA (ssRNA) viruses. CRISPR/Cas-based multi-target DNA or RNA tests can be used for rapid and accurate diagnostic assays for plant viruses and viroids. Integrating NGS with CRISPR-based genome editing technologies may lead to a paradigm shift in combating deadly disease-causing plant viruses/viroids at the genomic level. Furthermore, the newly discovered CRISPR/Cas13 system has unprecedented potential in plant viroid diagnostics and interference. In this review, we have highlighted the application and importance of sequencing technologies on covering the viral genomes for precise modulations. This review also provides a snapshot vision of emerging developments in NGS technologies for the characterization of plant viruses and their potential utilities, advantages, and limitations in plant viral diagnostics. Furthermore, some of the notable advances like novel virus-inducible CRISPR/Cas9 system that confers virus resistance with no off-target effects have been discussed.

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Identification and characterization of Ageratum yellow vein Malaysia virus (AYVMV) and an associated betasatellite among begomoviruses infecting Solanum lycopersicum in Malaysia

Cited by 3 publications

References 37 publications

Study of sida yellow spot virus, a begomovirus with a divergent coat protein

Study of sida yellow spot virus, a begomovirus with a divergent coat protein

Cap-snatching mechanism-mediated unveiling of the transcriptional initiation sites of two distinct begomoviruses

Integrating CRISPR-Cas and Next Generation Sequencing in Plant Virology

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