Revision of Begomovirus taxonomy based on pairwise sequence comparisons
Judith K. Brown,F. Murilo Zerbini,Jesús Navas-Castillo,Enrique Moriones,Roberto Ramos-Sobrinho,José Cleydson F. Silva,Elvira Fiallo-Olivé,Rob W. Briddon,Cecilia Hernández-Zepeda,Ali M. Idris,V. G. Malathi,Darren P. Martin,Rafael F. Rivera-Bustamante,Shigenori Ueda,Arvind Varsani +14 more
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TLDR
Revised guidelines for the classification and nomenclature of begomoviruses are proposed and genome-wide pairwise identities of 91 % and 94 % are proposed as the demarcation threshold for begomviruses belonging to different species and strains, respectively.Abstract:
Viruses of the genus Begomovirus (family Geminiviridae) are emergent pathogens of crops throughout the tropical and subtropical regions of the world. By virtue of having a small DNA genome that is easily cloned, and due to the recent innovations in cloning and low-cost sequencing, there has been a dramatic increase in the number of available begomovirus genome sequences. Even so, most of the available sequences have been obtained from cultivated plants and are likely a small and phylogenetically unrepresentative sample of begomovirus diversity, a factor constraining taxonomic decisions such as the establishment of operationally useful species demarcation criteria. In addition, problems in assigning new viruses to established species have highlighted shortcomings in the previously recommended mechanism of species demarcation. Based on the analysis of 3,123 full-length begomovirus genome (or DNA-A component) sequences available in public databases as of December 2012, a set of revised guidelines for the classification and nomenclature of begomoviruses are proposed. The guidelines primarily consider a) genus-level biological characteristics and b) results obtained using a standardized classification tool, Sequence Demarcation Tool, which performs pairwise sequence alignments and identity calculations. These guidelines are consistent with the recently published recommendations for the genera Mastrevirus and Curtovirus of the family Geminiviridae. Genome-wide pairwise identities of 91 % and 94 % are proposed as the demarcation threshold for begomoviruses belonging to different species and strains, respectively. Procedures and guidelines are outlined for resolving conflicts that may arise when assigning species and strains to categories wherever the pairwise identity falls on or very near the demarcation threshold value.read more
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Interaction between the New World begomovirus Euphorbia yellow mosaic virus and its associated alphasatellite: effects on infection and transmission by the whitefly Bemisia tabaci.
Talita Bernardon Mar,Igor Rodrigues Mendes,Douglas Lau,Elvira Fiallo-Olivé,Elvira Fiallo-Olivé,Jesús Navas-Castillo,Jesús Navas-Castillo,Murilo S. Alves,F. Murilo Zerbini +8 more
TL;DR: Results indicate that EuYMA is capable of modulating symptoms, viral accumulation and whitefly transmission of EuyMV, potentially interfering with virus dissemination in the field.
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An Insight into Cotton Leaf Curl Multan Betasatellite, the Most Important Component of Cotton Leaf Curl Disease Complex
TL;DR: The role of CLCuMuB βC1 protein has a major role in pathogenicity and symptom determination, and alters several host cellular functions like autophagy, ubiquitination, and suppression of gene silencing, to assist C LCuD infectivity.
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Tweaking genome-editing approaches for virus interference in crop plants.
Muntazir Mushtaq,Shazia Mukhtar,Aafreen Sakina,Aejaz Ahmad Dar,Rohini Bhat,Rupesh Deshmukh,Kutubuddin A. Molla,Ajaz Ahmad Kundoo,Mohd Saleem Dar +8 more
TL;DR: Different approaches and strategies being used to improve plant resistance against devastating viruses are discussed and the major pitfalls of CRISPR/Cas9 system that utilizes highly efficient and novel platforms to engineer interference to single and multiple plant RNA viruses are described.
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Z. Belabess,S. Dallot,S. El-Montaser,Martine Granier,M. Majde,Abdessalem Tahiri,A. Blenzar,Cica Urbino,Michel Peterschmitt +8 more
TL;DR: According to infection profiles of Tylc-associated viruses determined on 879 plant samples collected between 1998 and 2014 and a Bayesian inference applied to genomic sequences of representatives of TYLCV, IS76 emerged in Southern Morocco at the end of the 1990s, replaced the parental viruses between 2004 and 2012 in Souss and is spreading towards the North of Morocco.
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Biological characterization of Tomato leaf curl New Delhi virus from Spain
TL;DR: New full-length sequences from zucchini squash and tomato indicated a high genetic homogeneity (>99% sequence identity) in the ToLCNDV populations in Spain, pointing to a single recent introduction event.
References
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