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Srilatha P, Yousuf F, Methre R, Vishnukiran T, Agarwal S, Poli Y, Raghurami Reddy M, Vidyasagar B, Shanker C, Krishnaveni D, Triveni S, Brajendra, Praveen S, Balachandran S, Subrahmanyam D, Mangrauthia SK. Physical interaction of RTBV ORFI with D1 protein of Oryza sativa and Fe/Zn homeostasis play a key role in symptoms development during rice tungro disease to facilitate the insect mediated virus transmission. Virology 2019; 526:117-124. [DOI: 10.1016/j.virol.2018.10.012] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2018] [Revised: 10/10/2018] [Accepted: 10/11/2018] [Indexed: 10/28/2022]
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Krupovic M, Blomberg J, Coffin JM, Dasgupta I, Fan H, Geering AD, Gifford R, Harrach B, Hull R, Johnson W, Kreuze JF, Lindemann D, Llorens C, Lockhart B, Mayer J, Muller E, Olszewski NE, Pappu HR, Pooggin MM, Richert-Pöggeler KR, Sabanadzovic S, Sanfaçon H, Schoelz JE, Seal S, Stavolone L, Stoye JP, Teycheney PY, Tristem M, Koonin EV, Kuhn JH. Ortervirales: New Virus Order Unifying Five Families of Reverse-Transcribing Viruses. J Virol 2018; 92:e00515-18. [PMID: 29618642 PMCID: PMC5974489 DOI: 10.1128/jvi.00515-18] [Citation(s) in RCA: 74] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Affiliation(s)
- Mart Krupovic
- Department of Microbiology, Institut Pasteur, Paris, France
| | - Jonas Blomberg
- Department of Medical Sciences, Uppsala University, Uppsala, Sweden
| | - John M Coffin
- Department of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, Massachusetts, USA
| | - Indranil Dasgupta
- Department of Plant Molecular Biology, University of Delhi, New Delhi, India
| | - Hung Fan
- Department of Molecular Biology and Biochemistry, University of California, Irvine, California, USA
| | - Andrew D Geering
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, Queensland, Australia
| | - Robert Gifford
- MRC-University of Glasgow Centre for Virus Research, Glasgow, United Kingdom
| | - Balázs Harrach
- Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungarian Academy of Sciences, Budapest, Hungary
| | - Roger Hull
- Child Okeford, Blandford Forum, Dorset, United Kingdom
| | - Welkin Johnson
- Biology Department, Boston College, Chestnut Hill, Massachusetts, USA
| | - Jan F Kreuze
- Crop and System Sciences Division, International Potato Center (CIP), Lima, Peru
| | - Dirk Lindemann
- Institute of Virology, Technische Universität Dresden, Dresden, Germany
| | - Carlos Llorens
- Biotechvana, Parc Cientific, Universitat de Valencia, Valencia, Spain
| | - Ben Lockhart
- Department of Plant Pathology, University of Minnesota, St. Paul, Minnesota, USA
| | - Jens Mayer
- Institute of Human Genetics, University of Saarland, Homburg, Germany
| | - Emmanuelle Muller
- CIRAD, UMR BGPI, Montpellier, France
- BGPI, Université Montpellier, CIRAD, INRA, Montpellier SupAgro, Montpellier, France
| | - Neil E Olszewski
- Department of Microbial and Plant Biology, University of Minnesota, St. Paul, Minnesota, USA
| | - Hanu R Pappu
- Department of Plant Pathology, Washington State University, Pullman, Washington, USA
| | | | - Katja R Richert-Pöggeler
- Julius Kühn-Institut, Institute for Epidemiology and Pathogen Diagnostics, Braunschweig, Germany
| | - Sead Sabanadzovic
- Department of Biochemistry, Molecular Biology, Entomology and Plant Pathology, Mississippi State University, Mississippi State, Mississippi, USA
| | - Hélène Sanfaçon
- Agriculture and Agri-Food Canada, Summerland Research and Development Centre, Summerland, BC, Canada
| | - James E Schoelz
- Division of Plant Sciences, University of Missouri, Columbia, Missouri, USA
| | - Susan Seal
- Natural Resources Institute, University of Greenwich, Chatham, Kent, United Kingdom
| | - Livia Stavolone
- Consiglio Nazionale delle Ricerche, Istituto per la Protezione Sostenibile delle Piante, Bari, Italy
- International Institute of Tropical Agriculture, Ibadan, Nigeria
| | - Jonathan P Stoye
- The Francis Crick Institute and Department of Medicine, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Pierre-Yves Teycheney
- CIRAD, UMR AGAP, Capesterre Belle Eau, Guadeloupe, France
- AGAP, Université Montpellier, CIRAD, INRA, Montpellier SupAgro, Montpellier, France
| | - Michael Tristem
- Imperial College London, Silwood Park Campus, Ascot, Berkshire, United Kingdom
| | - Eugene V Koonin
- National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA
| | - Jens H Kuhn
- Integrated Research Facility at Fort Detrick, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Fort Detrick, Frederick, Maryland, USA
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Rodamilans B, Shan H, Pasin F, García JA. Plant Viral Proteases: Beyond the Role of Peptide Cutters. FRONTIERS IN PLANT SCIENCE 2018; 9:666. [PMID: 29868107 PMCID: PMC5967125 DOI: 10.3389/fpls.2018.00666] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2018] [Accepted: 04/30/2018] [Indexed: 05/23/2023]
Abstract
Almost half of known plant viral species rely on proteolytic cleavages as key co- and post-translational modifications throughout their infection cycle. Most of these viruses encode their own endopeptidases, proteases with high substrate specificity that internally cleave large polyprotein precursors for the release of functional sub-units. Processing of the polyprotein, however, is not an all-or-nothing process in which endopeptidases act as simple peptide cutters. On the contrary, spatial-temporal modulation of these polyprotein cleavage events is crucial for a successful viral infection. In this way, the processing of the polyprotein coordinates viral replication, assembly and movement, and has significant impact on pathogen fitness and virulence. In this mini-review, we give an overview of plant viral proteases emphasizing their importance during viral infections and the varied functionalities that result from their proteolytic activities.
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Affiliation(s)
- Bernardo Rodamilans
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas, Universidad Autónoma de Madrid, Madrid, Spain
| | - Hongying Shan
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas, Universidad Autónoma de Madrid, Madrid, Spain
| | - Fabio Pasin
- Agricultural Biotechnology Research Center, Academia Sinica, Taipei, Taiwan
| | - Juan Antonio García
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas, Universidad Autónoma de Madrid, Madrid, Spain
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Vo JN, Campbell PR, Mahfuz NN, Ramli R, Pagendam D, Barnard R, Geering ADW. Characterization of the banana streak virus capsid protein and mapping of the immunodominant continuous B-cell epitopes to the surface-exposed N terminus. J Gen Virol 2016; 97:3446-3457. [DOI: 10.1099/jgv.0.000643] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Affiliation(s)
- Jenny N. Vo
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, GPO Box 267, Brisbane, Queensland 4001, Australia
- School of Chemistry and Molecular Biosciences, The University of Queensland, St. Lucia, Queensland 4072, Australia
- Plant Biosecurity Cooperative Research Centre, LPO Box 5012, Bruce, Australian Capital Territory 2617, Australia
| | - Paul R. Campbell
- Plant Biosecurity Cooperative Research Centre, LPO Box 5012, Bruce, Australian Capital Territory 2617, Australia
- Queensland Department of Agriculture, Fisheries and Forestry, GPO Box 267, Brisbane, Queensland 4001, Australia
| | - Nur N. Mahfuz
- School of Chemistry and Molecular Biosciences, The University of Queensland, St. Lucia, Queensland 4072, Australia
| | - Ras Ramli
- School of Chemistry and Molecular Biosciences, The University of Queensland, St. Lucia, Queensland 4072, Australia
| | - Daniel Pagendam
- CSIRO Mathematics, Informatics and Statistics, Ecosciences Precinct, 41 Boggo Road, Dutton Park, Queensland 4102, Australia
| | - Ross Barnard
- School of Chemistry and Molecular Biosciences, The University of Queensland, St. Lucia, Queensland 4072, Australia
| | - Andrew D. W. Geering
- Plant Biosecurity Cooperative Research Centre, LPO Box 5012, Bruce, Australian Capital Territory 2617, Australia
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, GPO Box 267, Brisbane, Queensland 4001, Australia
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Borah BK, Sharma S, Kant R, Johnson AMA, Saigopal DVR, Dasgupta I. Bacilliform DNA-containing plant viruses in the tropics: commonalities within a genetically diverse group. MOLECULAR PLANT PATHOLOGY 2013; 14:759-71. [PMID: 23763585 PMCID: PMC6638767 DOI: 10.1111/mpp.12046] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
UNLABELLED Plant viruses, possessing a bacilliform shape and containing double-stranded DNA, are emerging as important pathogens in a number of agricultural and horticultural crops in the tropics. They have been reported from a large number of countries in African and Asian continents, as well as from islands from the Pacific region. The viruses, belonging to two genera, Badnavirus and Tungrovirus, within the family Caulimoviridae, have genomes displaying a common plan, yet are highly variable, sometimes even between isolates of the same virus. In this article, we summarize the current knowledge with a view to revealing the common features embedded within the genetic diversity of this group of viruses. TAXONOMY Virus; order Unassigned; family Caulimoviridae; genera Badnavirus and Tungrovirus; species Banana streak viruses, Bougainvillea spectabilis chlorotic vein banding virus, Cacao swollen shoot virus, Citrus yellow mosaic badnavirus, Dioscorea bacilliform viruses, Rice tungro bacilliform virus, Sugarcane bacilliform viruses and Taro bacilliform virus. MICROBIOLOGICAL PROPERTIES Bacilliform in shape; length, 60-900 nm; width, 35-50 nm; circular double-stranded DNA of approximately 7.5 kbp with one or more single-stranded discontinuities. HOST RANGE Each virus generally limited to its own host, including banana, bougainvillea, black pepper, cacao, citrus species, Dioscorea alata, rice, sugarcane and taro. DISEASE SYMPTOMS Foliar streaking in banana and sugarcane, swelling of shoots in cacao, yellow mosaic in leaves and stems in citrus, brown spot in the tubers in yam and yellow-orange discoloration and stunting in rice. USEFUL WEBSITES http://www.dpvweb.net.
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Affiliation(s)
- Basanta K Borah
- Department of Plant Molecular Biology, Delhi University South Campus, New Delhi 110021, India
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Mathur S, Dasgupta I. Further support of genetic conservation in Indian isolates of Rice tungro bacilliform virus by sequence analysis of an isolate from North-Western India. Virus Genes 2012. [PMID: 23197138 DOI: 10.1007/s11262-012-0857-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The genomic sequence of an isolate of Rice tungro bacilliform virus (RTBV), collected from the state of Punjab (Pb), a non-endemic tungro region from North-Western India was determined. In silico comparison of the 7931-bp sequence with isolates from Southeast Asia and the three previously characterized Indian isolates, revealed not only similar genome size to other Indian isolates but also high degree of homology both at nucleotide (>93 %) and amino acid (>96 %) levels among them. On the other hand, like the other Indian isolates, RTBV-Pb showed much lower nucleotide (<87 %) and amino acid (<90 % in most of the open reading frames) identities with the Southeast Asian isolates owing to several nucleotide substitutions and indels. In-depth annotation comparisons reinforce the hypothesis that Indian isolates of RTBV have diverged sufficiently from the Southeast Asian ones to form a separate group.
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Affiliation(s)
- Saloni Mathur
- Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi 110021, India
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Phylogenetic analysis of Rice tungro bacilliform virus ORFs revealed strong correlation between evolution and geographical distribution. Virus Genes 2011; 43:398-408. [PMID: 21796436 DOI: 10.1007/s11262-011-0647-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2011] [Accepted: 07/15/2011] [Indexed: 10/17/2022]
Abstract
A new isolate of Rice tungro bacilliform virus (RTBV) was collected from Chinsura, West Bengal, India. The full genome was sequenced and deposited to GenBank designating the new one as Chinsura isolate. The four open reading frames (ORFs) of the new isolate were compared with those of previously reported 'South-east Asian' (SEA) and 'South Asian' (SA) isolates emphasizing the ORF3, which is the largest and functionally most important gene of RTBV. In the ORFs, Chinsura isolate shared 90.0-100.0% identity at amino acid level with SA isolates, but only 58.76-88.63% identity with SEA isolates for the same. Similarly, the amino acid identity of ORFs between SEA and SA isolates ranged from 58.77 to 88.64, whereas within each group the corresponding value was >96.0%. The phylogenetic analysis based on nucleotide and amino acid sequences of each ORF made two broad clusters of SEA- and SA-types including Chinsura isolate within SA cluster. Moreover, the relative positions and length of functional domains corresponding to movement protein (MP), coat protein (CP), aspartate protease (PR) and reverse transcriptase/ribonuclease H (RT/RNase H) of ORF3 of Chinsura isolate were completely identical with SA isolates. The clustering pattern indicated strong influence of geographical habitat on genomic evolution. Comparison of ORF3 among all the isolates revealed major variations at non-functional regions in between the functional domains and at the hypervariable 3'-terminal end of ORF3, while PR appeared to have evolved differentially in SA isolates expecting further characterization.
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