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Plant Virus Spillovers

A special issue of Viruses (ISSN 1999-4915). This special issue belongs to the section "Viruses of Plants, Fungi and Protozoa".

Deadline for manuscript submissions: 30 June 2025 | Viewed by 3416

Special Issue Editors


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Guest Editor
State Agricultural Biotechnology Centre, Murdoch University, Perth, Australia
Interests: plant and fungal viruses; wild plant viruses; spillover; virus evolution
Special Issues, Collections and Topics in MDPI journals

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Guest Editor
Visiting Research Fellow, The University of Adelaide, and Senior Research Scientist with the Australian Wine Research Institute, P.O. Box 197, Glen Osmond, Adelaide 5064, SA, Australia
Interests: grapevine viruses; viroids and phytoplasmas; molecular diagnosis; emerging viruses of the grapevine; elimination of viruses from the grapevine by thermotherapy and chemotherapy; molecular diagnosis of Grapevine Trunk Diseases (GTD)
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Most previous plant virus research focused on viruses that damage economically important plants. Wild plant viruses are largely unknown to science, yet those that appear in crops have wild plant origins.

Some plant viruses that infect domesticated plants cause great economic losses, while others, probably the majority, cause negligible economic costs. Some of the most damaging plant viruses, ones that cost growers millions of dollars, include tobacco mosaic virus (TMV), cucumber mosaic virus (CMV), African cassava mosaic virus, and citrus tristeza virus. Every year, several papers are published that announce a ‘new’ virus discovered in a valuable crop species. Some of these viruses go on to wreak havoc across a region or the world, while others are never mentioned again. A recent example of the former is tomato brown rugose fruit virus that appeared for the first time in Israel in tomatoes in 2014 and has since travelled across the globe depleting tomato and capsicum harvests. Such viruses are not ‘new’ in the strictest sense of the word, they are old viruses that have emerged from wild plants growing at the interface between wild and cultivated plant communities. Less well known, but perhaps occurring just as frequently, are spillovers of viruses in the opposite direction—from crops to wild plant communities. And, of course, viruses also spillover from a wild species to another wild species and from one domestic species to another domestic species. 

Spillover and emergence are terms used to describe the process by which a virus successfully undertakes the colonization of a new host species. A challenging number of barriers must be negotiated before this is achieved: breaching the physical distance between the original and new hosts, gaining access to the appropriate cell type, successful interactions with the new cellular machinery, successful replication while not inducing apoptosis, cell to cell and systemic movement within the plant, and transmission to other individuals of the same species. Viruses such as TMV and CMV have successfully negotiated this process hundreds of times and are thereby referred to as ‘broad host-range’ viruses. Many other viruses remain marooned within a single host species and appear to pose a negligible risk of spillover. Why this is so is not clearly understood, but it may relate to an inability to negotiate one or more of the potential barriers listed above.

Wide spillovers of viruses between kingdoms have occurred over evolutionary time, such as with the endornaviruses that infect fungi, oomycetes, and plants. It is probable that ongoing human encroachment into the remaining wild communities, and the ecological changes wrought by a heating climate and the extinction crisis, may trigger further spillovers.

This Special Issue welcomes papers that describe new spillover events by plant, fungal, and oomycete viruses in wild and/or domesticated systems, those that increase our understanding of spillover mechanisms, and reviews addressing the relevant aspects of this topic.

Dr. Steve Wylie
Dr. Nuredin Habili
Guest Editors

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Keywords

  • spillover
  • emergence
  • replication
  • wild-plant virus
  • transmission
  • virus-cell interaction
  • vector

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Published Papers (2 papers)

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Research

19 pages, 2897 KiB  
Article
Viral Diversity in Mixed Tree Fruit Production Systems Determined through Bee-Mediated Pollen Collection
by Raj Vansia, Malek Smadi, James Phelan, Aiming Wang, Guillaume J. Bilodeau, Stephen F. Pernal, M. Marta Guarna, Michael Rott and Jonathan S. Griffiths
Viruses 2024, 16(10), 1614; https://doi.org/10.3390/v16101614 - 15 Oct 2024
Viewed by 1706
Abstract
Commercially cultivated Prunus species are commonly grown in adjacent or mixed orchards and can be infected with unique or commonly shared viruses. Apple (Malus domestica), another member of the Rosacea and distantly related to Prunus, can share the same growing [...] Read more.
Commercially cultivated Prunus species are commonly grown in adjacent or mixed orchards and can be infected with unique or commonly shared viruses. Apple (Malus domestica), another member of the Rosacea and distantly related to Prunus, can share the same growing regions and common pathogens. Pollen can be a major route for virus transmission, and analysis of the pollen virome in tree fruit orchards can provide insights into these virus pathogen complexes from mixed production sites. Commercial honey bee (Apis mellifera) pollination is essential for improved fruit sets and yields in tree fruit production systems. To better understand the pollen-associated virome in tree fruits, metagenomics-based detection of plant viruses was employed on bee and pollen samples collected at four time points during the peak bloom period of apricot, cherry, peach, and apple trees at one orchard site. Twenty-one unique viruses were detected in samples collected during tree fruit blooms, including prune dwarf virus (PDV) and prunus necrotic ringspot virus (PNRSV) (Genus Ilarvirus, family Bromoviridae), Secoviridae family members tomato ringspot virus (genus Nepovirus), tobacco ringspot virus (genus Nepovirus), prunus virus F (genus Fabavirus), and Betaflexiviridae family member cherry virus A (CVA; genus Capillovirus). Viruses were also identified in composite leaf and flower samples to compare the pollen virome with the virome associated with vegetative tissues. At all four time points, a greater diversity of viruses was detected in the bee and pollen samples. Finally, the nucleotide sequence diversity of the coat protein regions of CVA, PDV, and PNRSV was profiled from this site, demonstrating a wide range of sequence diversity in pollen samples from this site. These results demonstrate the benefits of area-wide monitoring through bee pollination activities and provide new insights into the diversity of viruses in tree fruit pollination ecosystems. Full article
(This article belongs to the Special Issue Plant Virus Spillovers)
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18 pages, 2375 KiB  
Article
A Genetic Study of Spillovers in the Bean Common Mosaic Subgroup of Potyviruses
by Mohammad Hajizadeh, Karima Ben Mansour and Adrian J. Gibbs
Viruses 2024, 16(9), 1351; https://doi.org/10.3390/v16091351 - 23 Aug 2024
Cited by 1 | Viewed by 1007
Abstract
Nine viruses of the bean common mosaic virus subgroup of potyviruses are major international crop pathogens, but their phylogenetically closest relatives from non-crop plants have mostly been found only in SE Asia and Oceania, which is thus likely to be their “centre of [...] Read more.
Nine viruses of the bean common mosaic virus subgroup of potyviruses are major international crop pathogens, but their phylogenetically closest relatives from non-crop plants have mostly been found only in SE Asia and Oceania, which is thus likely to be their “centre of emergence”. We have compared over 700 of the complete genomic ORFs of the crop pandemic and the non-crop viruses in various ways. Only one-third of crop virus genomes are non-recombinant, but more than half the non-crop virus genomes are. Four of the viruses were from crops domesticated in the Old World (Africa to SE Asia), and the other five were from New World crops. There was a temporal signal in only three of the crop virus datasets, but it confirmed that the most recent common ancestors of all the crop viruses were before inter-continental marine trade started after 1492 CE, whereas all the crown clusters of the phylogenies are from after that date. The non-crop virus datasets are genetically more diverse than those of the crop viruses, and Tajima’s D analyses showed that their populations were contracting, and only one of the crop viruses had a significantly expanding population. dN/dS analyses showed that most of the genes and codons in all the viruses were under significant negative selection, and the few that were under significant positive selection were mostly in the PIPO-encoding region of the P3 protein, or the PIPO protein itself. Interestingly, more positively selected codons were found in non-crop than in crop viruses, and, as the hosts of the former were taxonomically more diverse than the latter, this may indicate that the positively selected codons are involved in host range determination; AlphaFold3 modelling was used to investigate this possibility. Full article
(This article belongs to the Special Issue Plant Virus Spillovers)
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