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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Molecular characterization of ageratum enation virus and beta satellite associated with leaf curl disease of fenugreek in India
P. Swarnalatha,Venkataravanappa Venkataravanappa,C. N. Lakshminarayana Reddy,M. Sunil Kumar,M. Krishna Reddy +4 more
TL;DR: Overall, miR‐638, CCND1 , and FZD7 are candidates for cisplatn biomarker resistance in TNBC.
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First Report of Sweet potato leaf curl Georgia virus in Sweet Potato in Argentina
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Cnidoscolus mosaic leaf deformation virus: a novel begomovirus infecting euphorbiaceous plants in Brazil
Aline M. Melo,Sarah Jacqueline Cavalcanti da Silva,Roberto Ramos-Sobrinho,Mayra Machado de Medeiros Ferro,Iraildes Pereira Assunção,Gaus Silvestre de Andrade Lima +5 more
TL;DR: Pairwise sequence comparisons and phylogenetic analysis showed that the DNA-A genomic component of CnMLDV is most closely related to that of passionfruit severe leaf distortion virus, with 86.3 % nucleotide sequence identity.
Journal ArticleDOI
Begomovirus-Associated Betasatellite Virulence Factor βC1 Attenuates Tobacco Defense to Whiteflies via Interacting With Plant SKP1.
TL;DR: In vitro and in vivo interactions between βC1 and tobacco protein S-phase kinase associated protein 1 (NtSKP1) were found, revealing a novel mechanism underlying the better performance of whiteflies on TYLCCNV/TYLCCNB-infected plants.
Journal ArticleDOI
Diversity, distribution and prevalence of vegetable-infecting geminiviruses in Burkina Faso
A. S. Ouattara,Fidèle Tiendrebeogo,Pierre Lefeuvre,M. Hoareau,Sohini Claverie,Sohini Claverie,Agathe Allibert,Frédéric Chiroleu,Edgar Valentin Traoré,Nicolas Barro,Oumar Traoré,Jean-Michel Lett +11 more
TL;DR: The most severe, prevalent and widely distributed virus on vegetables was PepYVMLV, which was characterized for the first time in combination with a genetically divergent DNA‐B component that may constitute a key factor of PepYvMLV pathogenicity.
References
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