Author
Michele Digiaro
Bio: Michele Digiaro is an academic researcher. The author has contributed to research in topics: Plant virus & Fig mosaic virus. The author has an hindex of 25, co-authored 111 publications receiving 1981 citations.
Papers published on a yearly basis
Papers
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Centers for Disease Control and Prevention1, United States Department of Agriculture2, University of Naples Federico II3, University of Ljubljana4, Mississippi State University5, University of Texas Medical Branch6, Friedrich Loeffler Institute7, Colorado State University8, Columbia University9, University of California, Irvine10, University of the Free State11, Xinjiang University12, Aix-Marseille University13, International Rice Research Institute14, Scripps Research Institute15, Public Health Agency of Canada16, Mayo Clinic17, Hacettepe University18, United States Army Medical Research Institute of Infectious Diseases19, Chinese Center for Disease Control and Prevention20, Kansas State University21, Bernhard Nocht Institute for Tropical Medicine22, Paris Diderot University23, University of Queensland24, University of Zurich25, University of Helsinki26, Public Health England27, Seoul National University28, Charité29, Slovak Academy of Sciences30, Karolinska Institutet31, Katholieke Universiteit Leuven32, University of Washington33, Wuhan University of Science and Technology34, University of Louisville35, University of São Paulo36, University of Bari37, Hokkaido University38, University of Hamburg39, Public Health Agency of Sweden40, Washington State University41, Aristotle University of Thessaloniki42, Oswaldo Cruz Foundation43, University of Brasília44, National University of La Plata45, Pasteur Institute46, University of Maryland, Baltimore47, National Agriculture and Food Research Organization48, University of Glasgow49, University of Tokyo50, University of Oxford51, Korea University52, National Research Council53, Fujian Agriculture and Forestry University54, North Carolina State University55, Universidade Federal de Viçosa56, Fudan University57, National Institutes of Health58
TL;DR: The updated taxonomy of the order Bunyavirales now accepted by the International Committee on Taxonomy of Viruses (ICTV) is presented.
Abstract: In February 2019, following the annual taxon ratification vote, the order Bunyavirales was amended by creation of two new families, four new subfamilies, 11 new genera and 77 new species, merging of two species, and deletion of one species. This article presents the updated taxonomy of the order Bunyavirales now accepted by the International Committee on Taxonomy of Viruses (ICTV).
237 citations
TL;DR: The updated taxonomy of Negarnaviricota is presented, as now accepted by the ICTV, after the phylum was amended and emended in March 2020.
Abstract: In March 2020, following the annual International Committee on Taxonomy of Viruses (ICTV) ratification vote on newly proposed taxa, the phylum Negarnaviricota was amended and emended. At the genus rank, 20 new genera were added, two were deleted, one was moved, and three were renamed. At the species rank, 160 species were added, four were deleted, ten were moved and renamed, and 30 species were renamed. This article presents the updated taxonomy of Negarnaviricota as now accepted by the ICTV.
168 citations
Katholieke Universiteit Leuven1, Chinese Academy of Sciences2, Friedrich Loeffler Institute3, Columbia University4, University of California, Irvine5, Colorado State University6, Aix-Marseille University7, International Rice Research Institute8, Scripps Research Institute9, University of California, San Francisco10, University of Arkansas System11, Oregon State University12, University of Bonn13, Peking Union Medical College14, Mayo Clinic15, Kansas State University16, University of Paris17, University of Helsinki18, University of Zurich19, Huazhong Agricultural University20, Indian Agricultural Research Institute21, Seoul National University22, United States Department of Agriculture23, Systems Research Institute24, National Institutes of Health25, Wageningen University and Research Centre26, Pasteur Institute27, Centers for Disease Control and Prevention28, North Carolina State University29, University of Louisville30, University of Bari31, University of Hamburg32, University of Texas Medical Branch33, United States Army Medical Research Institute of Infectious Diseases34, National University of La Plata35, University of Maryland, Baltimore36, National Agriculture and Food Research Organization37, University of Tokyo38, University of Bristol39, International Crops Research Institute for the Semi-Arid Tropics40, University of Queensland41, Fujian Agriculture and Forestry University42, University of Nebraska Medical Center43, Global Viral44, Chinese Ministry of Agriculture45, Chinese Center for Disease Control and Prevention46, National Chung Hsing University47
TL;DR: The updated taxonomy of the family Arenaviridae and the order Bunyavirales is presented as now accepted by the International Committee on Taxonomy of Viruses (ICTV) and additional taxonomic proposals that may affect the order in the near future are summarized.
Abstract: In 2018, the family Arenaviridae was expanded by inclusion of 1 new genus and 5 novel species. At the same time, the recently established order Bunyavirales was expanded by 3 species. This article presents the updated taxonomy of the family Arenaviridae and the order Bunyavirales as now accepted by the International Committee on Taxonomy of Viruses (ICTV) and summarizes additional taxonomic proposals that may affect the order in the near future.
148 citations
TL;DR: Estimation of genetic diversity and phylogenetic analysis disclosed the possible existence of vines with mixed infections by diverging sequence variants, showing, in some cases, possible recombination events.
Abstract: The genetic variability and population structure of a collection of 45 Grapevine leafroll-associated virus 3 (GLRaV-3) isolates were studied by single-stranded conformation polymorphism (SSCP) and sequence analysis of the RNA-dependent RNA polymerase (RdRp), heat-shock protein 70 homologue (HSP-70) and coat protein (CP) genes. The distribution of SSCP profiles was not correlated with the geographical origin of the isolates, indicating that GLRaV-3 is a single, undifferentiated population. The majority of the isolates showed an SSCP profile and a population structure that were composed of a single predominant variant. However, 10% of the isolates for the RdRp and HSP-70 genes and 15% for the CP gene were composed of a combination of two or more variants. Estimation of genetic diversity and phylogenetic analysis disclosed the possible existence of vines with mixed infections by diverging sequence variants, showing, in some cases, possible recombination events. Furthermore, differences in the genetic diversity and constraints existing in the three regions analysed indicated a higher variability in the CP gene. The epidemiological and biological implications of this finding are discussed.
108 citations
Katholieke Universiteit Leuven1, United States Department of Agriculture2, University of Ljubljana3, Mississippi State University4, University of Texas Medical Branch5, Friedrich Loeffler Institute6, Centers for Disease Control and Prevention7, Colorado State University8, Columbia University9, University of California, Irvine10, National Health Laboratory Service11, University of the Free State12, Aix-Marseille University13, International Rice Research Institute14, Scripps Research Institute15, University of California, San Francisco16, Public Health Agency of Canada17, Mayo Clinic18, Hacettepe University19, United States Army Medical Research Institute of Infectious Diseases20, Chinese Center for Disease Control and Prevention21, Kansas State University22, Fudan University23, Bernhard Nocht Institute for Tropical Medicine24, Paris Diderot University25, University of Queensland26, Public Health England27, Indian Agricultural Research Institute28, Seoul National University29, Slovak Academy of Sciences30, Karolinska Institutet31, Wageningen University and Research Centre32, University of Washington33, University of Louisville34, University of Bari35, University of Hamburg36, Washington State University37, Aristotle University of Thessaloniki38, University of Helsinki39, University of Brasília40, National University of La Plata41, Pasteur Institute42, University of Maryland, Baltimore43, National Agriculture and Food Research Organization44, University of Glasgow45, University of Tokyo46, University of Oxford47, Korea University48, Fujian Agriculture and Forestry University49, North Carolina State University50, National Chung Hsing University51, Universidade Federal de Viçosa52, National Institutes of Health53
TL;DR: The updated taxonomy of the order Bunyavirales is presented as now accepted by the International Committee on Taxonomy of Viruses (ICTV).
Abstract: In October 2018, the order Bunyavirales was amended by inclusion of the family Arenaviridae, abolishment of three families, creation of three new families, 19 new genera, and 14 new species, and renaming of three genera and 22 species. This article presents the updated taxonomy of the order Bunyavirales as now accepted by the International Committee on Taxonomy of Viruses (ICTV).
105 citations
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TL;DR: A detailed phylogenomic reconstruction of the evolution of the dramatically expanded global RNA virome reveals the relationships between different Baltimore classes of viruses and indicates extensive transfer of viruses between distantly related hosts, such as plants and animals.
Abstract: Viruses with RNA genomes dominate the eukaryotic virome, reaching enormous diversity in animals and plants. The recent advances of metaviromics prompted us to perform a detailed phylogenomic reconstruction of the evolution of the dramatically expanded global RNA virome. The only universal gene among RNA viruses is the gene encoding the RNA-dependent RNA polymerase (RdRp). We developed an iterative computational procedure that alternates the RdRp phylogenetic tree construction with refinement of the underlying multiple-sequence alignments. The resulting tree encompasses 4,617 RNA virus RdRps and consists of 5 major branches; 2 of the branches include positive-sense RNA viruses, 1 is a mix of positive-sense (+) RNA and double-stranded RNA (dsRNA) viruses, and 2 consist of dsRNA and negative-sense (-) RNA viruses, respectively. This tree topology implies that dsRNA viruses evolved from +RNA viruses on at least two independent occasions, whereas -RNA viruses evolved from dsRNA viruses. Reconstruction of RNA virus evolution using the RdRp tree as the scaffold suggests that the last common ancestors of the major branches of +RNA viruses encoded only the RdRp and a single jelly-roll capsid protein. Subsequent evolution involved independent capture of additional genes, in particular, those encoding distinct RNA helicases, enabling replication of larger RNA genomes and facilitating virus genome expression and virus-host interactions. Phylogenomic analysis reveals extensive gene module exchange among diverse viruses and horizontal virus transfer between distantly related hosts. Although the network of evolutionary relationships within the RNA virome is bound to further expand, the present results call for a thorough reevaluation of the RNA virus taxonomy.IMPORTANCE The majority of the diverse viruses infecting eukaryotes have RNA genomes, including numerous human, animal, and plant pathogens. Recent advances of metagenomics have led to the discovery of many new groups of RNA viruses in a wide range of hosts. These findings enable a far more complete reconstruction of the evolution of RNA viruses than was attainable previously. This reconstruction reveals the relationships between different Baltimore classes of viruses and indicates extensive transfer of viruses between distantly related hosts, such as plants and animals. These results call for a major revision of the existing taxonomy of RNA viruses.
337 citations
TL;DR: Phylogenetic analyses of their replicative genes as well as the conserved HSP70 demonstrate that closteroviruses co-evolved with their insect vectors, resulting in three major lineages, i.e. aphid-, mealybug-, and whitefly-transmitted viruses.
Abstract: The family Closteroviridae comprises more than 30 plant viruses with flexuous, filamentous virions and includes representatives with either mono- or bipartite positive-strand ssRNA genomes. Closteroviruses are transmitted semipersistently by insects from three families of Homoptera, in infected plants are associated with phloem tissue, and demonstrate an astonishing genetic diversity that suggests extensive, on-going evolution. Phylogenetic analyses of their replicative genes as well as the conserved HSP70 demonstrate that closteroviruses co-evolved with their insect vectors, resulting in three major lineages, i.e. aphid-, mealybug-, and whitefly-transmitted viruses. Closteroviruses apparently represent an ancient and diverse virus family that may pose threats to agriculture and needs serious attention.
315 citations
01 Jan 2007
TL;DR: The plant virus family Flexiviridae as discussed by the authors includes Potexvirus, Mandarivirus, Allexivirus and Carlavirus, with a polyadenylated genome, filamentous virions and a triple gene block of movement proteins.
Abstract: The plant virus family Flexiviridae includes the definitive genera Potexvirus, Mandarivirus, Allexivirus, Carlavirus, Foveavirus, Capillovirus, Vitivirus, Trichovirus, the putative genus Citrivirus, and some unassigned species. Its establishment was based on similarities in virion morphology, common features in genome type and organization, and strong phylogenetic relationships between replicational and structural proteins. In this review, we provide a brief account of the main biological and molecular properties of the members of the family, with special emphasis on the relationships within and among the genera. In phylogenetic analyses the potexvirus-like replicases were more closely related to tymoviruses than to carlaviruses. We postulate a common evolutionary ancestor for the family Tymoviridae and the two distinct evolutionary clusters of the Flexiviridae, i.e., a plant virus with a polyadenylated genome, filamentous virions, and a triple gene block of movement proteins. Subsequent recombination and gene loss would then have generated a very diverse group of plant and fungal viruses.
279 citations
TL;DR: The application of ELISA and monoclonal antibody technologies in plant pathology has greatly improved the ability to detect plant pathogens and is increasing the understanding of, their ecology and epidemiology.
Abstract: Detection and diagnosis of plant viruses has included serological laboratory tests since the 1960s. Relatively little work was done on serological detection of plant pathogenic bacteria and fungi prior to the development of ELISA and monoclonal antibody technologies. Most applications for laboratory-based tests were directed at virus detection with relatively little emphasis on fungal and bacterial pathogens, though there was some good work done with other groups of plant pathogens. With the advent of molecular biology and the ability to compare regions of genomic DNA representing conserved sequences, the development of laboratory tests increased at an amazing rate for all groups of plant pathogens. Comparison of ITS regions of bacteria, fungi, and nematodes has proven useful for taxonomic purposes. Sequencing of conserved genes has been used to develop PCR-based detection with varying levels of specificity for viruses, fungi, and bacteria. Combinations of ELISA and PCR technologies are used to improve sensitivity of detection and to avoid problems with inhibitors or PCR often found in plants. The application of these technologies in plant pathology has greatly improved our ability to detect plant pathogens and is increasing our understanding of, their ecology and epidemiology.
249 citations
Washington University in St. Louis1, Technical University of Madrid2, Beijing Institute of Genomics3, Georgia State University4, United States Army Medical Research Institute of Infectious Diseases5, Commonwealth Scientific and Industrial Research Organisation6, Columbia University7, University of Texas Medical Branch8, Friedrich Loeffler Institute9, National Institutes of Health10, Instituto Biológico11, Albert Einstein College of Medicine12, Erasmus University Rotterdam13, University of Queensland14, University of Marburg15, Humboldt University of Berlin16, Robert Koch Institute17, International Atomic Energy Agency18, University of Pittsburgh19, University of Warwick20, World Health Organization21, Empresa Brasileira de Pesquisa Agropecuária22, Boston University23, Public Health England24, Kyoto University25, Murdoch University26, Huazhong Agricultural University27, University of São Paulo28, Laval University29, Okayama University30, United States Geological Survey31, United States Department of Agriculture32, Northwestern University33, Icahn School of Medicine at Mount Sinai34, Institut de recherche pour le développement35, Ohio State University36, Katholieke Universiteit Leuven37, South Dakota State University38, Novosibirsk State University39, University of Medicine and Health Sciences40, University of Veterinary Medicine Vienna41, University of Bergen42, Texas A&M University43, Queen's University Belfast44, Centers for Disease Control and Prevention45, University of Sydney46, University of Oxford47, Defence Science and Technology Laboratory48, Queensland University of Technology49, Colorado State University50, Hokkaido University51, Pasteur Institute52, National University of Singapore53, North Carolina State University54, Universidade Federal de Viçosa55, Chinese Center for Disease Control and Prevention56, Fudan University57
TL;DR: The updated taxonomy of the order Mononegavirales is presented as now accepted by the International Committee on Taxonomy of Viruses (ICTV).
Abstract: In February 2019, following the annual taxon ratification vote, the order Mononegavirales was amended by the addition of four new subfamilies and 12 new genera and the creation of 28 novel species. This article presents the updated taxonomy of the order Mononegavirales as now accepted by the International Committee on Taxonomy of Viruses (ICTV).
238 citations