Advances in Small Isometric Multicomponent ssDNA Viruses Infecting Plants

Mandal, Bikash

doi:10.1007/s13337-010-0010-3

Cited by 21 publications

(12 citation statements)

References 76 publications

(127 reference statements)

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“…The International Committee on Taxonomy of Viruses (ICTV) categorized the Nanoviridae family into two genera, Nanovirus and Babuvirus, based on their genome organization and transmission vectors, along with categorization of coconut foliar decay virus (CFDV) as an unassigned species (Mandal, 2010; Table 1). Nanoviruses are non-enveloped with icosahedral and round geometries, and T = 1 symmetry with a diameter of 18-19 nm (Figures 1A,B).…”

Section: Nanoviridae Family: Classification Genomic-structure and Fmentioning

confidence: 99%

“…Nanoviridae, the focal point of this study, comprises plant viruses possessing very small virions which contain a multipartite (6-8), circular, single stranded DNA genome of approximately 1 kb in length, along with a few satellite molecules, each possessing a specific function (Vetten et al, 2012;Briddon et al, 2018;Malathi and Dasgupta, 2019a). Highly diversified host ranges are ascribed to Nanoviridae members which induce symptoms such as stunting, dwarfism, necrosis, mosaic, and leaf rolling in host plants and may eventually lead to plant death as well (Mandal, 2010;Grigoras et al, 2014;Hull, 2014;Gaafar et al, 2017Gaafar et al, , 2018. Viral replication occurs in the nucleus of infected cells via ssDNA rolling circle amplification (Rosario et al, 2012;Jeske, 2018).…”

Section: Introductionmentioning

confidence: 99%

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Nanovirus Disease Complexes: An Emerging Threat in the Modern Era

Lal

Sanjaya

et al. 2020

Front. Plant Sci.

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Multipartite viruses package their genomic segments independently and mainly infect plants; few target animals. Nanoviridae is a family of multipartite single-stranded DNA plant viruses that individually encapsidate single-stranded DNAs of approximately 1 kb and transmit them through aphids without replication in the aphid vectors, thereby causing important diseases of leguminous crops and banana. Significant findings regarding nanoviruses have recently been made on important features, such as their multicellular way of life, the transmission of distinct encapsidated genome segments through the vector body, evolutionary ambiguities, mode of infection, host range and geographical distribution. This review deals with all the above-mentioned features in view of recent advances with special emphasis on the emergence of new species and recognition of new host range of nanoviruses and aims to shed light on the evolutionary linkages, the potentially devastating impact on the world economy, and the future challenges imposed by nanoviruses.

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Section: Nanoviridae Family: Classification Genomic-structure and Fmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Nanovirus Disease Complexes: An Emerging Threat in the Modern Era

Lal

Sanjaya

et al. 2020

Front. Plant Sci.

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“…In the case of multipartite circular ssDNA viruses of the family Nanoviridae , very little information is available on viral siRNAs (see Supplementary Table S1 and references therein). It is conceivable that all four DCLs including DCL3 are involved in viral siRNA biogenesis and defense against Nanoviridae , because of their similarities to Geminiviridae in nucleus-based rolling circle replication and to betasatellites of Geminiviridae in small size and monodirectional transcription (reviewed in Gronenborn, 2004 ; Mandal, 2010 ). Indeed, 21-nt, 22-nt, and 24-nt siRNAs represent both virion and complementary strands of tomato yellow leaf curl China betasatellite ( Tolecusatellitidae ) and cotton leaf curl Multan betasatellite ( Tolecusatellitidae ), similar to their helper viruses of Geminiviridae ( Yang et al, 2011 ; Wang J. et al, 2016 ; see Supplementary Table S1 ).…”

Section: Biogenesis and Function Of Viral Sirnasmentioning

confidence: 99%

Small RNA-Omics for Plant Virus Identification, Virome Reconstruction, and Antiviral Defense Characterization

Pooggin

2018

Front. Microbiol.

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RNA interference (RNAi)-based antiviral defense generates small interfering RNAs that represent the entire genome sequences of both RNA and DNA viruses as well as viroids and viral satellites. Therefore, deep sequencing and bioinformatics analysis of small RNA population (small RNA-ome) allows not only for universal virus detection and genome reconstruction but also for complete virome reconstruction in mixed infections. Viral infections (like other stress factors) can also perturb the RNAi and gene silencing pathways regulating endogenous gene expression and repressing transposons and host genome-integrated endogenous viral elements which can potentially be released from the genome and contribute to disease. This review describes the application of small RNA-omics for virus detection, virome reconstruction and antiviral defense characterization in cultivated and non-cultivated plants. Reviewing available evidence from a large and ever growing number of studies of naturally or experimentally infected hosts revealed that all families of land plant viruses, their satellites and viroids spawn characteristic small RNAs which can be assembled into contigs of sufficient length for virus, satellite or viroid identification and for exhaustive reconstruction of complex viromes. Moreover, the small RNA size, polarity and hotspot profiles reflect virome interactions with the plant RNAi machinery and allow to distinguish between silent endogenous viral elements and their replicating episomal counterparts. Models for the biogenesis and functions of small interfering RNAs derived from all types of RNA and DNA viruses, satellites and viroids as well as endogenous viral elements are presented and discussed.

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“…These findings indicated that movement gene modules composed of two or more cistrons may encode at least one nucleic acid-binding protein and at least one trans-membrane movement protein, which can be rather small. Further studies revealed that, in some cases, multi-component transport modules do not encode dedicated nucleic acid-binding MP, and this function can be performed by viral capsid proteins, as in RNA-containing viruses of the families Closteroviridae and Potyviridae, which employ their flexuous filamentous virions as a transport form of viral genome ( Rodríguez-Cerezo et al, 1997 ; Roberts et al, 1998 ; Dolja et al, 2006 ; Solovyev and Makarov, 2016 ) and DNA-containing viruses of genus Mastrevirus (family Geminiviridae) and the family Nanoviridae ( Mandal, 2010 ; Fondong, 2013 ). On the other hand, membrane proteins are always found among MPs of multicomponent viral transport systems.…”

Section: Introductionmentioning

confidence: 99%

Non-replicative Integral Membrane Proteins Encoded by Plant Alpha-Like Viruses: Emergence of Diverse Orphan ORFs and Movement Protein Genes

Solovyev

Morozov

2017

Front. Plant Sci.

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Fast accumulation of sequencing data on plant virus genomes and plant transcriptomes demands periodic re-evaluation of current views on the genome evolution of viruses. Here, we substantiate and further detail our previously mostly speculative model on the origin and evolution of triple gene block (TGB) encoding plant virus movement proteins TGB1, TGB2, and TGB3. Recent experimental data on functional competence of transport gene modules consisting of two proteins related to TGB1 and TGB2, as well as sequence analysis data on similarity of TGB2 and TGB3 encoded by a viral genome and virus-like RNAs identified in a plant transcriptomes, suggest that TGB evolution involved events of gene duplication and gene transfer between viruses. In addition, our analysis identified that plant RNA-seq data assembled into RNA virus-like contigs encode a significant variety of hydrophobic proteins. Functions of these orphan proteins are still obscure; however, some of them are obviously related to hydrophobic virion proteins of recently sequenced invertebrate (mostly insect) viruses, therefore supporting the current view on a common origin for many groups of plant and insect RNA-containing viruses. Moreover, these findings may suggest that the function of at least some orphan hydrophobic proteins is to provide plant viruses with the ability to infect insect hosts. In general, our observations emphasize that comparison of RNA virus sequences in a large variety of land plants and algae isolated geographically and ecologically may lead to experimental confirmation of previously purely speculative schemes of evolution of single genes, gene modules, and whole genomes.

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Advances in Small Isometric Multicomponent ssDNA Viruses Infecting Plants

Abstract: Multicomponent ssDNA plant viruses were discovered during 1990s.

Cited by 21 publications

References 76 publications

Nanovirus Disease Complexes: An Emerging Threat in the Modern Era

Nanovirus Disease Complexes: An Emerging Threat in the Modern Era

Small RNA-Omics for Plant Virus Identification, Virome Reconstruction, and Antiviral Defense Characterization

Non-replicative Integral Membrane Proteins Encoded by Plant Alpha-Like Viruses: Emergence of Diverse Orphan ORFs and Movement Protein Genes

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