High Throughput Sequencing For Plant Virus Detection and Discovery

Phytopathology
D E V VillamorI E Tzanetakis

Abstract

Over the last decade, virologists have discovered an unprecedented number of viruses using high throughput sequencing (HTS), which led to the advancement of our knowledge on the diversity of viruses in nature, particularly unraveling the virome of many agricultural crops. However, these new virus discoveries have often widened the gaps in our understanding of virus biology; the forefront of which is the actual role of a new virus in disease, if any. Yet, when used critically in etiological studies, HTS is a powerful tool to establish disease causality between the virus and its host. Conversely, with globalization, movement of plant material is increasingly more common and often a point of dispute between countries. HTS could potentially resolve these issues given its capacity to detect and discover. Although many pipelines are available for plant virus discovery, all share a common backbone. A description of the process of plant virus detection and discovery from HTS data are presented, providing a summary of the different pipelines available for scientists' utility in their research.

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Citations

Jan 8, 2020·Phytopathology·Satyanarayana TatineniM Reza Hajimorad
Apr 30, 2020·Plant Disease·B A HodgeL R Stewart
May 21, 2020·GigaScience·Morteza HosseiniArmando J Pinho
Jul 3, 2020·Plants·Julia MinickaBeata Hasiów-Jaroszewska
May 8, 2020·The Journal of General Virology·Asimina KatsianiIoannis E Tzanetakis
Aug 9, 2020·Frontiers in Plant Science·Luis RubioInmaculada Ferriol
Aug 1, 2020·Viruses·Luciane de Nazaré Almeida Dos ReisRita de Cássia Pereira-Carvalho
Jun 14, 2020·Scientific Reports·Deepti NigamHernan Garcia-Ruiz
Oct 13, 2020·Frontiers in Microbiology·Nicolas BejermanLev G Nemchinov
Oct 13, 2020·Frontiers in Microbiology·Nicolás BejermanRalf G Dietzgen
Oct 7, 2020·Plants·Michael HalewoodCharlotte Lusty
Jan 5, 2021·Archives of Virology·Stephen BolusDimitre Mollov
Jan 26, 2021·Frontiers in Microbiology·Artemis RumbouCarmen Büttner
Nov 19, 2020·Plants·Félix MoránAna Belén Ruiz-García
Feb 16, 2021·Frontiers in Microbiology·Muhammad Shafiq ShahidAbdullah M Al-Sadi
Sep 17, 2020·Plant Disease·Stephanie PreisingWashington Luís da Silva
Apr 4, 2021·Viruses·Solomon MainaBrendan C Rodoni
Oct 14, 2020·Plant Disease·Maher Al RwahnihDeborah Golino
May 21, 2021·Frontiers in Microbiology·Alejandro Olmedo-VelardeMichael J Melzer
Jun 8, 2021·Frontiers in Microbiology·Mark Paul Selda RivarezDenis Kutnjak
Jul 23, 2021·Archives of Virology·Larissa Carvalho CostaOscar P Hurtado-Gonzales
Aug 11, 2021·Molecular Plant Pathology·Satyanarayana Tatineni, Gary L Hein

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