Discovery of a novel mastrevirus and alphasatellite-like circular DNA in dragonflies (Epiprocta) from Puerto Rico

Rosario, Karyna; Padilla‐Rodriguez, Marco; Kraberger, Simona; Stainton, Daisy; Martin, Darren P.; Breitbart, Mya; Varsani, Arvind

doi:10.1016/j.virusres.2012.10.017

Cited by 49 publications

(30 citation statements)

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“…The SWSV isolate from the Sudanese sugarcane plant that had been propagated in Barbados represents only the third instance of discovery of mastreviruses in the New World [16], [48], and suggests that there may have been other undetected recent introductions of mastreviruses to the Americas. Although insect transmission of mastreviruses in the New World remains to be reported, it is noteworthy that one of the three mastrevirus species that has so far been detected in the Americas was isolated from a dragonfly which had possibly eaten a plant feeding insect that was carrying the virus [48]. The presence of SWSV in Barbados offers an opportunity to investigate possible natural transmission of the virus by screening sugarcane planted near the SWSV infected E0144 accessions.…”

Section: Discussionmentioning

confidence: 99%

Appearances Can Be Deceptive: Revealing a Hidden Viral Infection with Deep Sequencing in a Plant Quarantine Context

et al. 2014

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Comprehensive inventories of plant viral diversity are essential for effective quarantine and sanitation efforts. The safety of regulated plant material exchanges presently relies heavily on techniques such as PCR or nucleic acid hybridisation, which are only suited to the detection and characterisation of specific, well characterised pathogens. Here, we demonstrate the utility of sequence-independent next generation sequencing (NGS) of both virus-derived small interfering RNAs (siRNAs) and virion-associated nucleic acids (VANA) for the detailed identification and characterisation of viruses infecting two quarantined sugarcane plants. Both plants originated from Egypt and were known to be infected with Sugarcane streak Egypt Virus (SSEV; Genus Mastrevirus, Family Geminiviridae), but were revealed by the NGS approaches to also be infected by a second highly divergent mastrevirus, here named Sugarcane white streak Virus (SWSV). This novel virus had escaped detection by all routine quarantine detection assays and was found to also be present in sugarcane plants originating from Sudan. Complete SWSV genomes were cloned and sequenced from six plants and all were found to share >91% genome-wide identity. With the exception of two SWSV variants, which potentially express unusually large RepA proteins, the SWSV isolates display genome characteristics very typical to those of all other previously described mastreviruses. An analysis of virus-derived siRNAs for SWSV and SSEV showed them to be strongly influenced by secondary structures within both genomic single stranded DNA and mRNA transcripts. In addition, the distribution of siRNA size frequencies indicates that these mastreviruses are likely subject to both transcriptional and post-transcriptional gene silencing. Our study stresses the potential advantages of NGS-based virus metagenomic screening in a plant quarantine setting and indicates that such techniques could dramatically reduce the numbers of non-intercepted virus pathogens passing through plant quarantine stations.

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Section: Discussionmentioning

confidence: 99%

Appearances Can Be Deceptive: Revealing a Hidden Viral Infection with Deep Sequencing in a Plant Quarantine Context

et al. 2014

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“…Mastreviruses (type species Maize streak virus , MSV) are transmitted by leafhoppers (order Hemiptera, family Cicadellidae) and have a single genome component. Except for a recent identification of mastreviruses in sweet potato in Peru (Kreuze et al ., ) and in dragonflies (suborder Anisoptera) in Puerto Rico (Rosario et al ., ), these viruses have been found only in the Old World, where they infect a range of monocotyledonous plants (reviewed in Brown et al ., ) and, from recent reports, dicotyledonous plants (Hadfield et al ., ; Liu et al ., ; Nahid et al ., ). Mastreviruses have four ORFs, V1 and V2 on the virion‐sense strand, and C1 and C2 on the complementary‐sense strand, separated by two IRs on opposite sides of the genome, designated as large (LIR) and small (SIR) (Kammann et al ., ) (Fig.…”

Section: Introductionmentioning

confidence: 99%

Geminivirus protein structure and function

Fondong

2013

Molecular Plant Pathology

229

137

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Geminiviruses are a family of plant viruses that cause economically important plant diseases worldwide. These viruses have circular single-stranded DNA genomes and four to eight genes that are expressed from both strands of the double-stranded DNA replicative intermediate. The transcription of these genes occurs under the control of two bidirectional promoters and one monodirectional promoter. The viral proteins function to facilitate virus replication, virus movement, the assembly of virus-specific nucleoprotein particles, vector transmission and to counteract plant host defence responses. Recent research findings have provided new insights into the structure and function of these proteins and have identified numerous host interacting partners. Most of the viral proteins have been shown to be multifunctional, participating in multiple events during the infection cycle and have, indeed, evolved coordinated interactions with host proteins to ensure a successful infection. Here, an up-to-date review of viral protein structure and function is presented, and some areas requiring further research are identified.

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“…Enriching viral sequences in preparations of extracted nucleic acids is thus critical. Plant DNA viruses have circular (Geminiviridae and Nanoviridae) or pseudocircular (Caulimoviridae) genomes, and rolling‐circle amplification (RCA) (Inoue‐Nagata et al ., ) is often a good choice for sample preparation (Rosario et al ., ; Idris et al ., ). The caulimoviral genome contains discontinuities in both strands but can also be amplified by RCA because replicative forms are closed circles and can serve as templates for exponential amplification reactions.…”

Section: Steps For Discovering New Plant Viruses and Sequencing Theirmentioning

confidence: 99%

Discovering and sequencing new plant viral genomes by next‐generation sequencing: description of a practical pipeline

Blawid

Silva

Nagata

2017

Annals of Applied Biology

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Small-scale sequencing has improved substantially in recent decades, culminating in the development of next-generation sequencing (NGS) technologies. Modern NGS methods have helped the discovery of many new plant viruses. Nevertheless, there is still a need to establish solid assembly pipelines targeting small genomes characterised by low identities to known viral sequences. Here, we describe and discuss the fundamental steps required for discovering and sequencing new plant viral genomes by NGS. A practical pipeline and standard alternative tools used in NGS analysis are presented.

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Discovery of a novel mastrevirus and alphasatellite-like circular DNA in dragonflies (Epiprocta) from Puerto Rico

Cited by 49 publications

References 40 publications

Appearances Can Be Deceptive: Revealing a Hidden Viral Infection with Deep Sequencing in a Plant Quarantine Context

Appearances Can Be Deceptive: Revealing a Hidden Viral Infection with Deep Sequencing in a Plant Quarantine Context

Geminivirus protein structure and function

Discovering and sequencing new plant viral genomes by next‐generation sequencing: description of a practical pipeline

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