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Kwon J, Hu R, Penicks AK, Zhang C, Wang Y, Lohry D, Fernandez EJ, Domier LL, Hajimorad MR. Replacement of P1 of soybean mosaic virus with P1 of clover yellow vein virus has no impact on virus viability and host specificity. Arch Virol 2024; 169:143. [PMID: 38864946 DOI: 10.1007/s00705-024-06071-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2024] [Accepted: 05/02/2024] [Indexed: 06/13/2024]
Abstract
Potyvirus genomes are expressed as polyproteins that are autocatalytically cleaved to produce 10 to 12 multifunctional proteins, among which P1 is the most variable. It has long been hypothesized that P1 plays role(s) in host adaptation and host specificity. We tested this hypothesis using two phylogenetically distinct potyviruses: soybean mosaic virus (SMV), with a narrow host range, and clover yellow vein virus (ClYVV), with a broader host range. When the full-length P1 cistron of SMV-N was replaced with P1 from ClYVV-No.30, the chimera systemically infected only SMV-N-permissive hosts. Hence, there were no changes in the host range or host specificity of the chimeric viruses. Despite sharing only 20.3% amino acid sequence identity, predicted molecular models of P1 proteins from SMV-N and ClYVV-No.30 showed analogous topologies. These observations suggest that P1 of ClYVV-No.30 can functionally replace P1 of SMV-N. However, the P1 proteins of these two potyviruses are not determinants of host specificity and host range.
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Affiliation(s)
- Joon Kwon
- Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, 37996, USA
- International Research Center for Agricultural & Environmental Biology, Kumamoto University, Kumamoto, 860-8555, Japan
| | - Rongbin Hu
- Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, 37996, USA
- Department of Chemical and Environmental Engineering, University of California-Riverside, Riverside, CA, 92521, USA
| | - Amanda K Penicks
- Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, 37996, USA
| | - Chunyu Zhang
- Jilin Academy of Agricultural Sciences, Changchun, 130033, Jilin, China
| | - Yongzhi Wang
- Jilin Academy of Agricultural Sciences, Changchun, 130033, Jilin, China
| | - David Lohry
- Department of Biochemistry & Cellular and Molecular Biology, University of Tennessee, Knoxville, TN, 39316, USA
| | - Elias J Fernandez
- Department of Biochemistry & Cellular and Molecular Biology, University of Tennessee, Knoxville, TN, 39316, USA
| | - Leslie L Domier
- Soybean/Maize Germplasm, Pathology, and Genetics Research Unit, USDA-ARS, Urbana, IL, 61801, USA
| | - M R Hajimorad
- Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, 37996, USA.
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Tatineni S, Alexander J, Kovacs F. The HC-Pro cistron of Triticum mosaic virus is dispensable for systemic infection in wheat but is required for symptom phenotype and efficient genome amplification. Virus Res 2024; 339:199277. [PMID: 38008221 PMCID: PMC10730876 DOI: 10.1016/j.virusres.2023.199277] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2023] [Revised: 11/15/2023] [Accepted: 11/16/2023] [Indexed: 11/28/2023]
Abstract
Triticum mosaic virus (TriMV), the type species of the genus Poacevirus in the family Potyviridae, is an economically important wheat curl mite-transmitted wheat-infecting virus in the Great Plains region of the USA. In this study, the functional genomics of helper component-proteinase (HC-Pro) encoded by TriMV was examined using a reverse genetics approach. TriMV with complete deletion of HC-Pro cistron elicited systemic infection in wheat, indicating that HC-Pro cistron is dispensable for TriMV systemic infection. However, TriMV lacking HC-Pro caused delayed systemic infection with mild symptoms that resulted in little or no stunting of plants with a significant reduction in the accumulation of genomic RNA copies and coat protein (CP). Sequential deletion mutagenesis from the 5' end of HC-Pro cistron in the TriMV genome revealed that deletions within amino acids 3 to 25, except for amino acids 3 and 4, elicited mild symptoms with reduced accumulation of genomic RNA and CP. Surprisingly, TriMV with deletion of amino acids 3 to 50 or 3 to 125 in HC-Pro elicited severe symptoms with a substantial increase in genomic RNA copies but a drastic reduction in CP accumulation. Additionally, TriMV with heterologous HC-Pro from other potyvirids produced symptom phenotype and genomic RNA accumulation similar to that of TriMV without HC-Pro, suggesting that HC-Pros of other potyvirids were not effective in complementing TriMV in wheat. Our data indicate that HC-Pro is expendable for replication of TriMV but is required for efficient viral genomic RNA amplification and symptom development. The availability of TriMV with various deletions in the HC-Pro cistron will facilitate the examination of the requirement of HC-Pro for wheat curl mite transmission.
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Affiliation(s)
- Satyanarayana Tatineni
- United States Department of Agriculture-Agricultural Research Service, University of Nebraska-Lincoln, Lincoln, NE 68583, USA; Department of Plant Pathology, University of Nebraska-Lincoln, Lincoln, NE 68503, USA.
| | - Jeffrey Alexander
- United States Department of Agriculture-Agricultural Research Service, University of Nebraska-Lincoln, Lincoln, NE 68583, USA
| | - Frank Kovacs
- Department of Chemistry, University of Nebraska-Kearney, Kearney, NE 68849, USA
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Elmore MG, Groves CL, Hajimorad MR, Stewart TP, Gaskill MA, Wise KA, Sikora E, Kleczewski NM, Smith DL, Mueller DS, Whitham SA. Detection and discovery of plant viruses in soybean by metagenomic sequencing. Virol J 2022; 19:149. [PMID: 36100874 PMCID: PMC9472442 DOI: 10.1186/s12985-022-01872-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Accepted: 08/23/2022] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Viruses negatively impact soybean production by causing diseases that affect yield and seed quality. Newly emerging or re-emerging viruses can also threaten soybean production because current control measures may not be effective against them. Furthermore, detection and characterization of new plant viruses requires major efforts when no sequence or antibody-based resources are available. METHODS In this study, soybean fields were scouted for virus-like disease symptoms during the 2016-2019 growing seasons. Total RNA was extracted from symptomatic soybean parts, cDNA libraries were prepared, and RNA sequencing was performed using high-throughput sequencing (HTS). A custom bioinformatic workflow was used to identify and assemble known and unknown virus genomes. RESULTS Several viruses were identified in single or mixed infections. Full- or nearly full-length genomes were generated for tobacco streak virus (TSV), alfalfa mosaic virus (AMV), tobacco ringspot virus (TRSV), soybean dwarf virus (SbDV), bean pod mottle virus (BPMV), soybean vein necrosis virus (SVNV), clover yellow vein virus (ClYVV), and a novel virus named soybean ilarvirus 1 (SIlV1). Two distinct ClYVV isolates were recovered, and their biological properties were investigated in Nicotiana benthamiana, broad bean, and soybean. In addition to infections by individual viruses, we also found that mixed viral infections in various combinations were quite common. CONCLUSIONS Taken together, the results of this study showed that HTS-based technology is a valuable diagnostic tool for the identification of several viruses in field-grown soybean and can provide rapid information about expected viruses as well as viruses that were previously not detected in soybean.
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Affiliation(s)
- Manjula G Elmore
- Department of Plant Pathology, Entomology, and Microbiology, Iowa State University, 2213 Pammel Drive, Ames, IA, 50011-1101, USA.
| | - Carol L Groves
- Department of Plant Pathology, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - M R Hajimorad
- Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, 37996, USA
| | - Tracey P Stewart
- Roy J. Carver High Resolution Microscopy Facility, Iowa State University, Ames, IA, 50011, USA
| | - Mikaela A Gaskill
- Department of Plant Pathology, Entomology, and Microbiology, Iowa State University, 2213 Pammel Drive, Ames, IA, 50011-1101, USA
| | - Kiersten A Wise
- Department of Plant Pathology, University of Kentucky, Princeton, KY, 43445, USA
| | - Edward Sikora
- Department of Entomology and Plant Pathology, Auburn University, Auburn, AL, 36849, USA
| | | | - Damon L Smith
- Department of Plant Pathology, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Daren S Mueller
- Department of Plant Pathology, Entomology, and Microbiology, Iowa State University, 2213 Pammel Drive, Ames, IA, 50011-1101, USA
| | - Steven A Whitham
- Department of Plant Pathology, Entomology, and Microbiology, Iowa State University, 2213 Pammel Drive, Ames, IA, 50011-1101, USA.
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Rai A, Sivalingam PN, Senthil-Kumar M. A spotlight on non-host resistance to plant viruses. PeerJ 2022; 10:e12996. [PMID: 35382007 PMCID: PMC8977066 DOI: 10.7717/peerj.12996] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2021] [Accepted: 02/02/2022] [Indexed: 01/11/2023] Open
Abstract
Plant viruses encounter a range of host defenses including non-host resistance (NHR), leading to the arrest of virus replication and movement in plants. Viruses have limited host ranges, and adaptation to a new host is an atypical phenomenon. The entire genotypes of plant species which are imperceptive to every single isolate of a genetically variable virus species are described as non-hosts. NHR is the non-specific resistance manifested by an innately immune non-host due to pre-existing and inducible defense responses, which cannot be evaded by yet-to-be adapted plant viruses. NHR-to-plant viruses are widespread, but the phenotypic variation is often not detectable within plant species. Therefore, molecular and genetic mechanisms of NHR need to be systematically studied to enable exploitation in crop protection. This article comprehensively describes the possible mechanisms of NHR against plant viruses. Also, the previous definition of NHR to plant viruses is insufficient, and the main aim of this article is to sensitize plant pathologists to the existence of NHR to plant viruses and to highlight the need for immediate and elaborate research in this area.
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Affiliation(s)
- Avanish Rai
- National Institute of Plant Genome Research, New Delhi, India
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Tatineni S, Stewart LR, Sanfaçon H, Wang X, Navas-Castillo J, Hajimorad MR. Fundamental Aspects of Plant Viruses-An Overview on Focus Issue Articles. PHYTOPATHOLOGY 2020; 110:6-9. [PMID: 31910089 DOI: 10.1094/phyto-10-19-0404-fi] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Given the importance of and rapid research progress in plant virology in recent years, this Focus Issue broadly emphasizes advances in fundamental aspects of virus infection cycles and epidemiology. This Focus Issue comprises three review articles and 18 research articles. The research articles cover broad research areas on the identification of novel viruses, the development of detection methods, reverse genetics systems and functional genomics for plant viruses, vector and seed transmission studies, viral population studies, virus-virus interactions and their effect on vector transmission, and management strategies of viral diseases. The three review articles discuss recent developments in application of prokaryotic clustered regularly interspaced short palindromic repeats/CRISPR-associated genes (CRISPR/Cas) technology for plant virus resistance, mixed viral infections and their role in disease synergism and cross-protection, and viral transmission by whiteflies. The following briefly summarizes the articles appearing in this Focus Issue.
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Affiliation(s)
- Satyanarayana Tatineni
- U.S. Department of Agriculture-Agricultural Research Service and Department of Plant Pathology, University of Nebraska-Lincoln, Lincoln, NE, U.S.A
| | - Lucy R Stewart
- U.S. Department of Agriculture-Agricultural Research Service, Corn, Soybean, and Wheat Quality Research Unit, Wooster, OH, U.S.A
| | - Hélène Sanfaçon
- Summerland Research and Development Centre, Agriculture and Agri-Food Canada, Summerland, BC V0H 1Z0, Canada
| | - Xiaofeng Wang
- School of Plant and Environmental Sciences, Virginia Tech, Blacksburg, VA, U.S.A
| | - Jesús Navas-Castillo
- Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Consejo Superior de Investigaciones Científicas-Universidad de Málaga, 29750 Algarrobo-Costa, Málaga, Spain
| | - M Reza Hajimorad
- Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, U.S.A
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