Resistance to Squash Mosaic Comovirus in Transgenic Squash Plants Expressing Its Coat Protein Genes
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Genome Sequence and Phylogenetic Analysis of a Novel Comovirus from Tabasco Pepper (Capsicum Frutescens)
Virus Genes (2019) 55:854–858 https://doi.org/10.1007/s11262-019-01707-6 SHORT REPORT Genome sequence and phylogenetic analysis of a novel comovirus from tabasco pepper (Capsicum frutescens) Ricardo Iván Alcalá‑Briseño1 · Pongtharin Lotrakul2 · Rodrigo A. Valverde3 Received: 12 June 2019 / Accepted: 28 September 2019 / Published online: 11 October 2019 © Springer Science+Business Media, LLC, part of Springer Nature 2019 Abstract A virus isolate from tabasco pepper (Capsicum frutescens) has been reported as a strain of the comovirus Andean potato mottle virus (APMoV). Using the replicative intermediate viral dsRNA, the pepper virus strain was sequenced by Illumina MiSeq. The viral genome was de novo assembled resulting in two RNAs with lengths of 6028 and 3646 nt. Nucleotide sequence analysis indicated that they corresponded to the RNA-1 and RNA-2 of a novel comovirus which we tentatively named pepper mild mosaic virus (PepMMV). Predictions of the open reading frame (ORF) of RNA-1 resulted in a single ORF of 5871 nt with fve cistrons typical of comoviruses, cofactor proteinase, helicase, viral protein genome-linked, 3C-like proteinase (Pro), and RNA-dependent RNA polymerase (RdRP). Similarly, sequence analysis of RNA-2 resulted in a single ORF of 3009 nt with two cistrons typical of comoviruses: movement protein and coat protein (large coat protein and small coat proteins). In pairwise amino acid sequence alignments using the Pro-Pol protein, PepMMV shared the closest identities with broad bean true mosaic virus and cowpea mosaic virus, 56% and 53.9% respectively. In contrast, in alignments of the amino acid sequence of the coat protein (small and large coat proteins) PepMMV shared the closest identities to APMoV and red clover mottle virus, 54% and 40.9% respectively. -
Virus Particle Structures
Virus Particle Structures Virus Particle Structures Palmenberg, A.C. and Sgro, J.-Y. COLOR PLATE LEGENDS These color plates depict the relative sizes and comparative virion structures of multiple types of viruses. The renderings are based on data from published atomic coordinates as determined by X-ray crystallography. The international online repository for 3D coordinates is the Protein Databank (www.rcsb.org/pdb/), maintained by the Research Collaboratory for Structural Bioinformatics (RCSB). The VIPER web site (mmtsb.scripps.edu/viper), maintains a parallel collection of PDB coordinates for icosahedral viruses and additionally offers a version of each data file permuted into the same relative 3D orientation (Reddy, V., Natarajan, P., Okerberg, B., Li, K., Damodaran, K., Morton, R., Brooks, C. and Johnson, J. (2001). J. Virol., 75, 11943-11947). VIPER also contains an excellent repository of instructional materials pertaining to icosahedral symmetry and viral structures. All images presented here, except for the filamentous viruses, used the standard VIPER orientation along the icosahedral 2-fold axis. With the exception of Plate 3 as described below, these images were generated from their atomic coordinates using a novel radial depth-cue colorization technique and the program Rasmol (Sayle, R.A., Milner-White, E.J. (1995). RASMOL: biomolecular graphics for all. Trends Biochem Sci., 20, 374-376). First, the Temperature Factor column for every atom in a PDB coordinate file was edited to record a measure of the radial distance from the virion center. The files were rendered using the Rasmol spacefill menu, with specular and shadow options according to the Van de Waals radius of each atom. -
Cucumber Green Mottle Mosaic Virus Keep an “Open Mind” and Question Your Observations Disease Cycle 2
Cucumber green mottle mosaic virus Keep an “Open Mind” and Question Your Observations Disease Cycle 2. CGMMV cross-contaminated via mechanical transmission – people/equipment, debris and soil 1. Bees and other insects potentially disperse CGMMV in the field CGMMV-contaminated seed 3. Weeds around fields can be hosts/reservoirs for CGMMV direct sown / transplants Cucumber Green Mottle Mosaic Virus (CGMMV) Older leaves silver leaf flecks • Very stable and easily transmissible by mechanically and by plant debris in soil. • Distribution: Worldwide - thought to originate in Asia • Other Cucurbit Tobamoviruses (ZGMMV, KGMMV) distribution– Korea, ?? • Seed transmission has been reported most frequently in cucumber. Although Watermelon appears to be on the increase (Australia, CA,USA). CGMMV Host Range • Cucumber Melon Watermelon Bitter gourd Bitter gourd Gherkin CGMMV outbreak in Fresno area 2017 • Bottle gourd ; Opo round • Squash (pumpkin type; C moschata-C. maxima) • Korean melon • Japanese cucumber • Chinese bitter melon Weeds identified as Potential Hosts to CGMMV Family Scientific name Common name Apiaceae Heracleum moellendorffii Eosuri Boraginaceae Heliotropium europaeum Common heliotrope Lamiaceae Moluccella laevis Bells of Ireland Solanaceae Solanum nigrum Black nightshade Withania somnifera Indian ginseng Amaranthaceae Amaranthus blitoides Prostrate amaranth Amaranthus graecizans Mediterranean amaranth Amaranthus muricatus Rough-fruit amaranth Amaranthus retroflexus Redroot amaranth Amaranthus viridis Green amaranth Chenopodiaceae -
Viral Nanoparticles and Virus-Like Particles: Platforms for Contemporary Vaccine Design Emily M
Advanced Review Viral nanoparticles and virus-like particles: platforms for contemporary vaccine design Emily M. Plummer1,2 and Marianne Manchester2∗ Current vaccines that provide protection against infectious diseases have primarily relied on attenuated or inactivated pathogens. Virus-like particles (VLPs), comprised of capsid proteins that can initiate an immune response but do not include the genetic material required for replication, promote immunogenicity and have been developed and approved as vaccines in some cases. In addition, many of these VLPs can be used as molecular platforms for genetic fusion or chemical attachment of heterologous antigenic epitopes. This approach has been shown to provide protective immunity against the foreign epitopes in many cases. A variety of VLPs and virus-based nanoparticles are being developed for use as vaccines and epitope platforms. These particles have the potential to increase efficacy of current vaccines as well as treat diseases for which no effective vaccines are available. 2010 John Wiley & Sons, Inc. WIREs Nanomed Nanobiotechnol 2011 3 174–196 DOI: 10.1002/wnan.119 INTRODUCTION are normally associated with virus infection. PAMPs can be recognized by Toll-like receptors (TLRs) and he goal of vaccination is to initiate a strong other pattern-recognition receptors (PRRs) which Timmune response that leads to the development are present on the surface of host cells.4 The of lasting and protective immunity. Vaccines against intrinsic properties of multivalent display and highly pathogens are the most common, but approaches to ordered structure present in many pathogens also develop vaccines against cancer cells, host proteins, or 1,2 facilitate recognition by PAMPs, resulting in increased small molecule drugs have been developed as well. -
Viral Diseases of Cucurbits
report on RPD No. 926 PLANT December 2012 DEPARTMENT OF CROP SCIENCES DISEASE UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN VIRAL DISEASES OF CUCURBITS Most common viral diseases of cucurbits in Illinois are cucumber mosaic (Cucumber mosaic virus), papaya ringspot (Papaya ringspot virus), squash mosaic (Squash mosaic virus), watermelon mosaic (Watermelon mosaic virus), and zucchini yellow mosaic (Zucchini yellow mosaic virus). Depends on the time of infection, viral diseases could cause up to 100% yield losses in cucurbit fields in Illinois. Statewide surveys and laboratory and greenhouse tests conducted during 2004-2006 showed that Watermelon mosaic virus (WMV) was the most prevalent virus in commercial gourd, pumpkin, and squash fields in Illinois. Squash mosaic virus (SqMV) was the second most prevalent virus in commercial gourd, pumpkin, and squash fields. SqMV was detected in more counties than any other five viruses. Cucumber mosaic virus (CMV), Papaya ringspot virus (PRSV), and Zucchini yellow mosaic virus (ZYMV) were less prevalent in commercial gourd, pumpkin, and squash fields. All of five viruses were present alone and mixed in the samples tested. Earlier in the growing seasons (July and early August), single-virus infections were detected. Mixed infections were more common from mid August until the end of the growing season in October. Dual infection of WMV and SqMV was the most prevalent mixed virus infection detected in the fields. Most viruses infecting pumpkin and squash showed similar symptoms. The most common symptoms observed in the commercial fields and in the greenhouse studies were light- and dark- green mosaic, puckering, veinbanding, veinclearing, and deformation of leaves of gourd, pumpkin, and squash. -
Genome Characterization of Zucchini Yellow Mosaic Virus Infecting Cucurbits Reveals the Presence of a New Genotype in Trinidad & Tobago in the Caribbean Region
Genome characterization of Zucchini yellow mosaic virus infecting cucurbits reveals the presence of a new genotype in Trinidad & Tobago in the Caribbean region Chinnadurai Chinnaraja UWI: The University of the West Indies Mounika Kollam UWI: The University of the West Indies Adesh Ramsubhag UWI: The University of the West Indies Jayaraman Jayaraj ( [email protected] ) UWI: The University of the West Indies https://orcid.org/0000-0001-6961-2548 Original Article Keywords: Zucchini yellow mosaic virus, ZYMV-Trini isolates, Virus recombination, ZYMV genotypes, Phylogenetic analysis, Aphis gossypii Posted Date: February 10th, 2021 DOI: https://doi.org/10.21203/rs.3.rs-203018/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Version of Record: A version of this preprint was published at Archives of Virology on April 3rd, 2021. See the published version at https://doi.org/10.1007/s00705-021-05048-4. Page 1/20 Abstract Zucchini yellow mosaic virus is a potyvirus, which is becoming a serious pathogen of pumpkin and other cucurbits in Trinidad and Tobago and the entire Caribbean region. In this study, four Zucchini yellow mosaic virus (ZYMV) isolates infecting pumpkin in Trinidad and Tobago were characterized by complete genome sequencing for the rst time. Phylogenetic analyses of the isolates showed variability of 5.9–6.0 % nt and 7.7–7.9 % aa sequences with the most closely related isolates NAT and AG (Israel) and SE04T (Slovakia). Based on the variations in complete genome as well as gene sequences, a new genotype designated ZYMV-Trini is proposed for these isolates. -
Derived Vaccine Protects Target Aniinals Against a Viral Disease
© 1997 Nature Publishing Group http://www.nature.com/naturebiotechnology RESEARCH • Plant -derived vaccine protects target aniinals against a viral disease Kristian Dalsgaard*, Ase Uttenthal1•2, Tim D. Jones3, Fan Xu3, Andrew Merryweather3, William D.O. Hamilton3, Jan P.M. Langeveld4, Ronald S. Boshuizen4, S0ren Kamstrup, George P. Lomonossoffe, Claudine Porta8, Carmen Vela5, J. Ignacio Casal5, Rob H. Meloen4, and Paul B. Rodgers3 Danish Veterinary Institute for Virus Research, Lindholm, DK-4771 Kalvehave, Denmark. 'Danish Veterinary Laboratory, Biilowsvej 27, DK-1790 Copenhagen V, Denmark. 'Present address: Danish Fur Breeders Association, Langagervej 74, DK-2600 Glostrup, Denmark.'Axis Genetics pie., Babmham, Cambridge CB2 4AZ, UK. 'Institute for Animal Science and Health (ID-DLO), P.O. Box 65 NL-8200 AB, Lelystad, The Netherlands. 'In~enasa, C Hermanos Garcia Noblejas 41-2, E-28037 Madrid, Spain. 'John Innes Centre, Colney Lane, Norwich NR4 lUH, UK. •corresponding author ( e-mail: [email protected]). Received 29 May 1996; accepted 26 December 1996. The successful expression of animal or human virus epitopes on the surface of plant viruses has recently been demonstrated. These chimeric virus particles (CVPs) could represent a cost-effective and safe alternative to conventional animal cell-based vaccines. We report the insertion of oligonucleotides coding for a short linear epitope from the VP2 capsid protein of mink enteritis virus (MEV) into an infec tious cDNA clone of cowpea mosaic virus and the successful expression of the epitope on the surface of CVPs when propagated in the black-eyed bean, Vigna unguiculata. The efficacy of the CVPs was estab lished by the demonstration that one subcutaneous injection of 1 mg of the CVPs in mink conferred pro tection against clinical disease and virtually abolished shedding of virus after challenge with virulent MEV, demonstrating the potential utility of plant CVPs as the basis for vaccine development. -
Spotted Cucumber Beetle W
W 487 VEGETABLE PESTS EUROPEAN CORN BORER SPOTTED CUCUMBER BEETLE Frank A. Hale, Professor Robert J. Pivar, Graduate Research Assistant Gary Phillips, Graduate Research Assistant Jerome F. Grant, Professor Department of Entomology and Plant Pathology The spotted cucumber beetle, Diabrotica undecimpunctata (L.), is a widely distributed native species, occurring in most areas A east of the Rocky Mountains, in southern Canada, and in Mexico. It is most abundant and destructive in the southern states. The beetle belongs to the family Chrysomelidae, or leaf beetles. The larval (i.e., immature) stage of spotted cucumber beetle is also known as the southern corn rootworm. Adult spotted cucumber beetles are generalists, feeding on more than 250 plant species, especially cucurbits. Some examples of potential host plants include, but are not limited to, corn, cucumber, pumpkin, squash, soybean, sweet potato, peanut and other legumes. Damage Both adults (Fig. 1A) and larvae (Figs. 1B, 2) are destructive to plants. Adults chew holes in foliage of host plants (Fig. 1A); they also will eat flowers, which may result in lower fruit yields, and occasionally feed on the fruit. Larvae feed on roots and tunnel B through stems (Fig. 1B). Younger plants are more susceptible than more mature plants because of their smaller root system. Adult beetles also may transmit the bacterium, Erwinia tracheiphila (Smith), which causes bacterial wilt. Bacterial wilt is a disease of the vascular tissue that affects members of the cucurbit family. Typical disease symptoms include wilting of individual leaves and ultimately shriveled, dead plants. The bacteria can survive in the gut of the adult and be transmitted via feces or through chewing with contaminated mouthparts. -
1 Chapter I Overall Issues of Virus and Host Evolution
CHAPTER I OVERALL ISSUES OF VIRUS AND HOST EVOLUTION tree of life. Yet viruses do have the This book seeks to present the evolution of characteristics of life, can be killed, can become viruses from the perspective of the evolution extinct and adhere to the rules of evolutionary of their host. Since viruses essentially infect biology and Darwinian selection. In addition, all life forms, the book will broadly cover all viruses have enormous impact on the evolution life. Such an organization of the virus of their host. Viruses are ancient life forms, their literature will thus differ considerably from numbers are vast and their role in the fabric of the usual pattern of presenting viruses life is fundamental and unending. They according to either the virus type or the type represent the leading edge of evolution of all of host disease they are associated with. In living entities and they must no longer be left out so doing, it presents the broad patterns of the of the tree of life. evolution of life and evaluates the role of viruses in host evolution as well as the role Definitions. The concept of a virus has old of host in virus evolution. This book also origins, yet our modern understanding or seeks to broadly consider and present the definition of a virus is relatively recent and role of persistent viruses in evolution. directly associated with our unraveling the nature Although we have come to realize that viral of genes and nucleic acids in biological systems. persistence is indeed a common relationship As it will be important to avoid the perpetuation between virus and host, it is usually of some of the vague and sometimes inaccurate considered as a variation of a host infection views of viruses, below we present some pattern and not the basis from which to definitions that apply to modern virology. -
RNA Silencing-Based Improvement of Antiviral Plant Immunity
viruses Review Catch Me If You Can! RNA Silencing-Based Improvement of Antiviral Plant Immunity Fatima Yousif Gaffar and Aline Koch * Centre for BioSystems, Institute of Phytopathology, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26, D-35392 Giessen, Germany * Correspondence: [email protected] Received: 4 April 2019; Accepted: 17 July 2019; Published: 23 July 2019 Abstract: Viruses are obligate parasites which cause a range of severe plant diseases that affect farm productivity around the world, resulting in immense annual losses of yield. Therefore, control of viral pathogens continues to be an agronomic and scientific challenge requiring innovative and ground-breaking strategies to meet the demands of a growing world population. Over the last decade, RNA silencing has been employed to develop plants with an improved resistance to biotic stresses based on their function to provide protection from invasion by foreign nucleic acids, such as viruses. This natural phenomenon can be exploited to control agronomically relevant plant diseases. Recent evidence argues that this biotechnological method, called host-induced gene silencing, is effective against sucking insects, nematodes, and pathogenic fungi, as well as bacteria and viruses on their plant hosts. Here, we review recent studies which reveal the enormous potential that RNA-silencing strategies hold for providing an environmentally friendly mechanism to protect crop plants from viral diseases. Keywords: RNA silencing; Host-induced gene silencing; Spray-induced gene silencing; virus control; RNA silencing-based crop protection; GMO crops 1. Introduction Antiviral Plant Defence Responses Plant viruses are submicroscopic spherical, rod-shaped or filamentous particles which contain different kinds of genomes. -
Cucurbit Seed Production
CUCURBIT SEED PRODUCTION An organic seed production manual for seed growers in the Mid-Atlantic and Southern U.S. Copyright © 2005 by Jeffrey H. McCormack, Ph.D. Some rights reserved. See page 36 for distribution and licensing information. For updates and additional resources, visit www.savingourseeds.org For comments or suggestions contact: [email protected] For distribution information please contact: Cricket Rakita Jeff McCormack Carolina Farm Stewardship Association or Garden Medicinals and Culinaries www.carolinafarmstewards.org www.gardenmedicinals.com www.savingourseed.org www.savingourseeds.org P.O. Box 448, Pittsboro, NC 27312 P.O. Box 320, Earlysville, VA 22936 (919) 542-2402 (434) 964-9113 Funding for this project was provided by USDA-CREES (Cooperative State Research, Education, and Extension Service) through Southern SARE (Sustainable Agriculture Research and Education). Copyright © 2005 by Jeff McCormack 1 Version 1.4 November 2, 2005 Cucurbit Seed Production TABLE OF CONTENTS Scope of this manual .............................................................................................. 2 Botanical classification of cucurbits .................................................................... 3 Squash ......................................................................................................................... 4 Cucumber ................................................................................................................... 15 Melon (Muskmelon) ................................................................................................. -
Sequence Analysis of Hepatitis a Virus Cdna Coding for Capsid Proteins and RNA Polymerase (Hepatitis a Virus RNA/Picornavirus/Sequence Homology) BAHIGE M
Proc. Nati. Acad. Sci. USA Vol. 82, pp. 2143-2147, April 1985 Medical Sciences Sequence analysis of hepatitis A virus cDNA coding for capsid proteins and RNA polymerase (hepatitis A virus RNA/picornavirus/sequence homology) BAHIGE M. BAROUDY*, JOHN R. TICEHURST*, THOMAS A. MIELE*, JACOB V. MAIZEL, JR.t, ROBERT H. PURCELL*, AND STEPHEN M. FEINSTONE* *Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, and tLaboratory of Mathematical Biology, National Cancer Institute, National Institutes of Health, Bethesda, MD 20205 Communicated by Robert M. Chanock, November 19, 1984 ABSTRACT We report here the nucleotide sequence cor- previously determined in other laboratories for other responding to two large regions of the hepatitis A virus (HAV) picornaviruses. genome. These comprise a sequence of 3274 bases correspond- ing to the 5' end of the genome, which includes the putative MATERIALS AND METHODS capsid protein region of this picornavirus, and 1590 bases Plasmid Purification. HAV recombinant plasmids charac- corresponding to the 3' end of the genome, terminating in a terized by Ticehurst et al. (4) were propagated and purified 15-base poly(A) tract. These sequences revealed that HAV had by ethidium bromide/cesium chloride centrifugation (ref. 5, the characteristic genomic organization of picornaviruses: an pp. 86-94). open reading frame beginning approximately 750 bases from End Labeling and Sequencing of DNA Fragments. DNA the 5' end of the RNA and a termination codon 60 bases from fragments (5-15 pmol) were labeled by using the Kleno'w the 3' poly(A) tract. The predicted amino acid sequences of fragment of Escherichia coli DNA polymerase I (6), T4 both regions have been compared to analogous regions previ- polynucleotide kinase (ref.