Identification and molecular characterization of a new recombinant begomovirus and associated betasatellite DNA infecting Capsicum annuum in India

Bhatt, Bhavin S.; Chahwala, Fenisha D.; Rathod, Sangeeta; Singh, AK

doi:10.1007/s00705-016-2769-z

Cited by 17 publications

(4 citation statements)

References 24 publications

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“…The replication-associated protein is encoded by the AC1 ORF which serves as the origin of replication and is expressed under the control of a bidirectional promoter (Bhatt et al, 2016 ). This Rep protein commences replication via the rolling-circle (RCR) mode of replication by introducing a nick at the phosphodiester bond of the seventh and eighth residues of non-nucleotide sequence.…”

Section: Genome Organizationmentioning

confidence: 99%

An Overview of Chili Leaf Curl Disease: Molecular Mechanisms, Impact, Challenges, and Disease Management Strategies in Indian Subcontinent

et al. 2022

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Leaf curl disease in a chili plant is caused mainly by Chili leaf curl virus (ChiLCV) (Family: Geminiviridae, Genus: Begomovirus). ChiLCV shows a widespread occurrence in most of the chili (Capsicum spp.) growing regions. ChiLCV has a limited host range and infects tomatoes (Solanum lycopersicum), potatoes (S. tuberosum), and amaranth (Amaranthus tricolor). The virus genome is a monopartite circular single-stranded DNA molecule of 2.7 kb and associated with α and β-satellites of 1.3 and 1.4 kb, respectively. The virus genome is encapsulated in distinct twinned icosahedral particles of around 18–30 nm in size and transmitted by Bemisia tabaci (Family: Aleyrodidae, Order: Hemiptera). Recently, bipartite begomovirus has been found to be associated with leaf curl disease. The leaf curl disease has a widespread distribution in the major equatorial regions viz., Australia, Asia, Africa, Europe, and America. Besides the PCR, qPCR, and LAMP-based detection systems, recently, localized surface-plasmon-resonance (LPSR) based optical platform is used for ChiLCV detection in a 20–40 μl of sample volume using aluminum nanoparticles. Management of ChiLCV is more challenging due to the vector-borne nature of the virus, therefore integrated disease management strategies need to be followed to contain the spread and heavy crop loss. CRISPR/Cas-mediated virus resistance has gained importance in disease management of DNA and RNA viruses due to certain advantages over the conventional approaches. Therefore, CRISPR/Cas system-mediated resistance needs to be explored in chili against ChiLCV.

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Section: Genome Organizationmentioning

confidence: 99%

An Overview of Chili Leaf Curl Disease: Molecular Mechanisms, Impact, Challenges, and Disease Management Strategies in Indian Subcontinent

et al. 2022

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“…The ChiLCV is a monopartite begomovirus that has a DNA-A of 2.7 kb and associated betasatellite of 1.3 kb size. The ChiLCV is one of the most prevalent viruses in chilli crops, leading to severe leaf curl symptoms in the Indian subcontinent [ 44 , 46 ]. The emergence of pathogenically and genetically diverse chilli begomoviruses through recombination is common [ 47 ].…”

Section: Introductionmentioning

confidence: 99%

A Simplified Multiplex PCR Assay for Simultaneous Detection of Six Viruses Infecting Diverse Chilli Species in India and Its Application in Field Diagnosis

et al. 2022

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Chilli is infected by at least 65 viruses globally, with a mixed infection of multiple viruses leading to severe losses being a common occurrence. A simple diagnostic procedure that can identify multiple viruses at once is required to track their spread, initiate management measures and manage them using virus-free planting supplies. The present study, for the first time, reports a simplified and robust multiplex PCR (mPCR) assay for the simultaneous detection of five RNA viruses, capsicum chlorosis orthotospovirus (CaCV), chilli veinal mottle virus (ChiVMV), large cardamom chirke virus (LCCV), cucumber mosaic virus (CMV), and pepper mild mottle virus (PMMoV), and a DNA virus, chilli leaf curl virus (ChiLCV) infecting chilli. The developed mPCR employed six pairs of primer from the conserved coat protein (CP) region of the respective viruses. Different parameters viz., primer concentration (150–450 nM) and annealing temperature (50 °C), were optimized in order to achieve specific and sensitive amplification of the target viruses in a single reaction tube. The detection limit of the mPCR assay was 5.00 pg/µL to simultaneously detect all the target viruses in a single reaction, indicating a sufficient sensitivity of the developed assay. The developed assay showed high specificity and showed no cross-amplification. The multiplex PCR assay was validated using field samples collected across Northeast India. Interestingly, out of 61 samples collected across the northeastern states, only 22 samples (36%) were positive for single virus infection while 33 samples (54%) were positive for three or more viruses tested in mPCR, showing the widespread occurrence of mixed infection under field conditions. To the best of our knowledge, this is the first report on the development and field validation of the mPCR assay for six chilli viruses and will have application in routine virus indexing and virus management.

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“…Around 65 viruses are known to cause leaf curl disease in chilies (ChiLCD) throughout the world, among which begomoviruses (family-Geminiviridae) are one of the most destructive plant viruses [4]. ChiLCD is characterized by curling of leaves, thickening, and swelling of veins, reduced leaf size, and stunted plant growth [5,6]. Geminiviruses are non-enveloped, circular, single-stranded DNA viruses having one (DNA-A, monopartite) or two (DNA-A and B, bipartite) DNA molecule of 2.5-3.0 kb size with nine genus, namely, Becurtovirus, Begomovirus, Capulavirus, Curtovirus, Eragrovirus, Grablovirus, Mastrevirus, Topocuvirus, and Turncurtovirus [7].…”

Section: Introductionmentioning

confidence: 99%

In silico analysis of chili encoded miRNAs targeting Chili leaf curl begomovirus and its associated satellite

Mishra¹,

Kumar²,

Gaur³

et al. 2020

jabb

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Chili leaf curl virus (ChiLCV), a member of the Geminiviridae family (Genus: Begomovirus), is one of the most destructive plant viruses. Micro (mi) RNAs (miRNAs) are the endogenous non-coding small RNAs that play significant roles in plant growth and stress resistance by degrading targeted mRNA or repressing mRNA translation. Computational methods have identified numerous miRNAs in many plant species, whereas there is no report of chili miRNAs targeting essential genes of the ChiLCV genome and associated satellites. In this study, we have predicted chili-encoded miRNAs that could be used for silencing against chili leaf curl virus (Accession no. MF737343) infection. We predicted several potential mir-miRNAs, exhibited high complementarities with V1 coat protein and C1 (Rep) genes of ChiLCV. Other overlapping genes, such as V2, C2, and C3 were also targeted by mir-miRNAs.

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Identification and molecular characterization of a new recombinant begomovirus and associated betasatellite DNA infecting Capsicum annuum in India

Cited by 17 publications

References 24 publications

An Overview of Chili Leaf Curl Disease: Molecular Mechanisms, Impact, Challenges, and Disease Management Strategies in Indian Subcontinent

An Overview of Chili Leaf Curl Disease: Molecular Mechanisms, Impact, Challenges, and Disease Management Strategies in Indian Subcontinent

A Simplified Multiplex PCR Assay for Simultaneous Detection of Six Viruses Infecting Diverse Chilli Species in India and Its Application in Field Diagnosis

In silico analysis of chili encoded miRNAs targeting Chili leaf curl begomovirus and its associated satellite

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