Mapping of viral RNA sequences required for assembly of peanut clump virus particles

Hemmer, O.; Dunoyer, Patrice; Richards, K.; Fritsch, C.

doi:10.1099/vir.0.19247-0

Cited by 8 publications

(4 citation statements)

References 21 publications

(31 reference statements)

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“…PCV that causes clump disease is characterized by straight tubular particles of two lengths, contain ing single-stranded RNA, precisely termed as RNA-1 and RNA-2 (Thouvenel et al 1976, Thouvenel and Fauquet 1981a, Hemmer et al 2003. However, isolates of the virus (PCV) causing the clump disease in West Africa are serologically distinct from the isolates that cause the clump disease in India and are referred to as isolates of IPCV.…”

Section: Causal Virus: Peanut Clump Virusmentioning

confidence: 99%

Diseases of Edible Oilseed Crops

Chattopadhyay¹,

Kolte²,

Waliyar³

2015

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AgriculturalSciences. He has more than 22 years of research experience in oilseed crop disease management and has significantly contributed in the areas of understanding the host-pathogen interactions, epi demiology, and integrated disease management in sunflower, safflower, sesame, peanut, and rape seed-mustard crops. He has published more than 70 peer-reviewed research papers and 4 books. Dr. Chattopadhyay has to his credit several academic awards and one patent. His significant research achievements include the development of Fusarium wilt-resistant genotypes in safflower, the iden tification of genotypes of Brassica juncea resistant to a mixture of isolates of Albugo candida, the development of a biocontrol agent formulation to reduce the use of fungicides in the management of major diseases of oilseeds (Brassica), and seed treatment (and foliar application) of aqueous bulb extract of Allium sativum for the management of major foliar diseases (Alternaria blight, white rust, powdery mildew, and Sclerotinia stem rot) of mustard. S.J. Kolte, professor of plant pathology (Retd.

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Section: Causal Virus: Peanut Clump Virusmentioning

confidence: 99%

Diseases of Edible Oilseed Crops

Chattopadhyay¹,

Kolte²,

Waliyar³

2015

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“…In several cases, specific sequences and/or structures that act as packaging signals (PSs) have been identified in viral RNAs. Removal of the PSs adversely affects RNA packaging in vivo , and their addition to unrelated RNAs can lead to their encapsidation (see, e.g., references 5 to 9). In the case of STNV-1, no such well-defined PS has been identified, and no obvious sequence specificity in the interactions between the STNV-1 CP and its RNA has been reported.…”

Section: Introductionmentioning

confidence: 99%

Investigating the Biological Relevance of In Vitro -Identified Putative Packaging Signals at the 5′ Terminus of Satellite Tobacco Necrosis Virus 1 Genomic RNA

Kotta‐Loizou

Peyret

Saunders

et al. 2019

J Virol

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Satellite tobacco necrosis virus 1 (STNV-1) is a model system for in vitro RNA encapsidation studies (N. Patel, E. C. Dykeman, R. H. A. Coutts, G. P. Lomonossoff, et al., Proc Natl Acad Sci U S A 112:2227–2232, 2015, https://doi.org/10.1073/pnas.1420812112; N. Patel, E. Wroblewski, G. Leonov, S. E. V. Phillips, et al., Proc Natl Acad Sci U S A 114:12255–12260, 2017, https://doi.org/10.1073/pnas.1706951114), leading to the identification of degenerate packaging signals (PSs) proposed to be involved in the recognition of its genome by the capsid protein (CP). The aim of the present work was to investigate whether these putative PSs can confer selective packaging of STNV-1 RNA in vivo and to assess the prospects of using decoy RNAs in antiviral therapy. We have developed an in planta packaging assay based on the transient expression of STNV-1 CP and have assessed the ability of the resulting virus-like particles (VLPs) to encapsidate mutant STNV-1 RNAs expected to have different encapsidation potential based on in vitro studies. The results revealed that >90% of the encapsidated RNAs are host derived, although there is some selectivity of packaging for STNV-1 RNA and certain host RNAs. Comparison of the packaging efficiencies of mutant STNV-1 RNAs showed that they are encapsidated mainly according to their abundance within the cells, rather than the presence or absence of the putative PSs previously identified from in vitro studies. In contrast, subsequent infection experiments demonstrated that host RNAs represent only <1% of virion content. Although selective encapsidation of certain host RNAs was noted, no direct correlation could be made between this preference and the presence of potential PSs in the host RNA sequences. Overall, the data illustrate that the differences in RNA packaging efficiency identified through in vitro studies are insufficient to explain the specific packaging of STNV-1 RNA. IMPORTANCE Viruses preferentially encapsidate their own genomic RNA, sometimes as a result of the presence of clearly defined packaging signals (PSs) in their genome sequence. Recently, a novel form of short degenerate PSs has been proposed (N. Patel, E. C. Dykeman, R. H. A. Coutts, G. P. Lomonossoff, et al., Proc Natl Acad Sci U S A 112:2227–2232, 2015, https://doi.org/10.1073/pnas.1420812112; N. Patel, E. Wroblewski, G. Leonov, S. E. V. Phillips, et al., Proc Natl Acad Sci U S A 114:12255–12260, 2017, https://doi.org/10.1073/pnas.1706951114) using satellite tobacco necrosis virus 1 (STNV-1) as a model system for in vitro studies. It has been suggested that competing with these putative PSs may constitute a novel therapeutic approach against pathogenic single-stranded RNA viruses. Our work demonstrates that the previously identified PSs have no discernible significance for the selective packaging of STNV-1 in vivo in the presence and absence of competition or replication: viral sequences are encapsidated mostly on the basis of their abundance within the cell, while encapsidation of host RNAs also occurs. Nevertheless, the putative PSs identified in STNV-1 RNA may still have applications in bionanotechnology, such as the in vitro selective packaging of RNA molecules.

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“…In many cases, virus capsid proteins have been found to bind specific high-affinity sequences and/or structures on viral RNA, which helps to preclude encapsidation of host RNAs (1)(2)(3)(4)(5)(6)(7)(8)(9)(10)(11)(12)(13)(14)(15)(16)(17). In the case of the satellite tobacco necrosis virus (STNV) and MS2 bacteriophage, specific RNA sequences may not exist; rather, the genome may contain numerous distinct but functionally similar packaging sites (e.g., small stem-loops) that are bound simultaneously but independently by multiple coat protein (CP) subunits (4,18,19).…”

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confidence: 99%