4.5 Review

Determinants of Virus Variation, Evolution, and Host Adaptation

Related references

Note: Only part of the references are listed.
Article Plant Sciences

Specificity of Resistance and Tolerance to Cucumber Vein Yellowing Virus in Melon Accessions and Resistance Breaking with a Single Mutation in VPg

Cecile Desbiez et al.

Summary: Cucumber vein yellowing virus (CVYV) is an emerging virus on cucurbits in the Mediterranean Basin, and this study identifies new resistance and tolerance sources in melon against CVYV. The resistance is isolate-specific, while the tolerance shows a broader range. A specific mutation in the virus resulted in a severe mosaic symptom on a resistant variety. The study highlights the importance of considering the specificity and durability of resistance or tolerance sources before introducing them into commercial cultivars.

PHYTOPATHOLOGY (2022)

Article Multidisciplinary Sciences

The pollen virome of wild plants and its association with variation in floral traits and land use

Andrea M. Fetters et al.

Summary: Pollen serves as a unique vehicle for viral spread among plants. Through a metagenomic survey of pollen, researchers have identified known and novel pollen-associated viruses, and discovered the influence of landscape and floral features on virus composition. The study also highlights the correlation between floral traits and viral diversity, emphasizing the need to consider plant-pollinator interactions in the study of plant-virus interactions.

NATURE COMMUNICATIONS (2022)

Article Virology

Partial biological and molecular characterization of a novel citrivirus from Nandina domestica

Stella Veerakone et al.

Summary: This study reports the complete genome sequence of a novel virus isolated from Nandina domestica 'Firepower' in Auckland, New Zealand. The virus, closely related to citrus leaf blotch virus, showed symptomless infections in Nicotiana species. Analysis suggests the virus may have resulted from recombination between citrus leaf blotch virus and an unknown virus, underscoring the importance of recombination in betaflexivirus evolution.

ARCHIVES OF VIROLOGY (2021)

Article Microbiology

Recognizing species as a new focus of virus research

Alexander E. Gorbalenya et al.

Summary: Species taxa, which make up over 70% of all virus taxa, are the most suitable units for measuring virus diversity but are often neglected in virus research. To address this disparity, it is proposed that species taxa be prioritized in communicating virus taxonomy in publications to promote research on diverse viruses, including pathogens. This step is seen as crucial in advancing research at the fundamental level of biology.

PLOS PATHOGENS (2021)

Article Virology

Increasing temperature alters the within-host competition of viral strains and influences virus genetic variability

Cristina Alcaide et al.

Summary: This study investigates the interplay between environmental conditions and viral interactions, revealing that temperature can impact the genetic diversity of viral populations, particularly in cases of mixed infections.

VIRUS EVOLUTION (2021)

Article Virology

Perspective on taxonomic classification of uncultivated viruses

Bas E. Dutilh et al.

Summary: The development of virus taxonomy relies on advances in metagenomic analysis and other technologies, which have brought a wealth of previously unknown virus sequence data and provided unprecedented insights into the vastness of the virosphere. Properly classifying viruses is crucial to understanding the diversity of viruses, and the inclusion of uncultivated viruses has already improved this process.

CURRENT OPINION IN VIROLOGY (2021)

Article Microbiology

Historical Perspective on the Discovery of the Quasispecies Concept

Esteban Domingo et al.

Summary: Viral quasispecies are dynamic distributions of nonidentical but closely related mutant and recombinant viral genomes that undergo genetic variation, competition, and selection. The concept originated from a model for the origin of life and experimental evidence from bacteriophage clones. Quasispecies dynamics reveal complexities in viral population behavior with implications for disease mechanisms and control strategies.

ANNUAL REVIEW OF VIROLOGY, VOL 8 (2021)

Article Biochemistry & Molecular Biology

The Tomato Brown Rugose Fruit Virus Movement Protein Overcomes Tm-22 Resistance in Tomato While Attenuating Viral Transport

Hagit Hak et al.

Summary: Tomato brown rugose fruit virus poses a significant threat to tomato crops globally, demonstrating the ability to overcome existing resistance genes. Studies show that the virus can evade the durable Tm-22 resistance gene, leading to widespread outbreaks of the Tomato brown rugose fruit virus.

MOLECULAR PLANT-MICROBE INTERACTIONS (2021)

Article Plant Sciences

Resistance-Breaking Tomato Spotted Wilt Virus Variant that Recently Occurred in Pepper in South Korea is a Genetic Reassortant

Sun-Jung Kwon et al.

Summary: This study identified a breakthrough TSWV variant (TSWV-YI) in pepper crops in South Korea, with phylogenetic and recombination analyses showing it to be a reassortant variant incorporating RNA segments from both local and foreign sources. The emergence of TSWV-YI, which infected previously resistant pepper cultivars, highlights the potential threat of resistance-breaking variants to sustainable pepper production in South Korea, necessitating the development of management strategies.

PLANT DISEASE (2021)

Article Virology

Genetic Diversity of Rice stripe necrosis virus and New Insights into Evolution of the Genus Benyvirus

Issiaka Bagayoko et al.

Summary: This study investigated the genetic diversity of the rice stripe necrosis virus (RSNV) and found unexpected differences with the beet necrotic yellow vein virus (BNYVV), suggesting a complex evolutionary history of the genus Benyvirus. The RSNV molecular diversity had a geographical structure with two main RSNV lineages distributed in America and in Africa.

VIRUSES-BASEL (2021)

Article Microbiology

Virus Host Jumping Can Be Boosted by Adaptation to a Bridge Plant Species

Sandra Martinez-Turino et al.

Summary: Understanding the biological mechanisms that regulate the emergence of viral diseases, especially the events involving cross-species pathogen spillover, is increasingly important in virology. While studies on species barrier jumping in animal viruses have been extensive, research on host jumping involving plant viruses has been focused on shifting intra-species, leaving the potential role of bridge hosts in facilitating interspecies crossing largely unexplored.

MICROORGANISMS (2021)

Article Virology

Changes to virus taxonomy and to the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2021)

Peter J. Walker et al.

Summary: This article reports the changes to virus taxonomy approved and ratified by ICTV in March 2021. All proposals and revisions were passed by an absolute majority of ICTV members. ICTV mandated a new uniform rule for virus species naming, abolished the notion of a type species, and clarified its remit through an official definition of 'virus' and other types of mobile genetic elements.

ARCHIVES OF VIROLOGY (2021)

Article Virology

Interspecies Recombination Has Driven the Macroevolution of Cassava Mosaic Begomoviruses

Alvin Crespo-Bellido et al.

Summary: Begomoviruses significantly impact crop production and food security worldwide by emerging new genotypes through high mutation frequencies and recombination. Recombination has driven speciation in the cassava mosaic begomovirus species complex, significantly impacting genetic diversity. CMD caused by these viruses poses a significant threat to cassava production in Africa and Asia.

JOURNAL OF VIROLOGY (2021)

Article Plant Sciences

Identification of genetic determinants of tomato brown rugose fruit virus that enable infection of plants harbouring the Tm-22 resistance gene

Zhi-Yong Yan et al.

Summary: This study revealed that the virulence determinant for Tomato brown rugose fruit virus (ToBRFV) to overcome Tm-2(2) gene-mediated resistance is the movement protein (MP) with specific amino acid residues. Through chimeric experiments, it was determined that six critical amino acid residues, H-67, N-125, K-129, A(134), I-147, and I-168 of ToBRFV MP, are essential for overcoming Tm-2(2)-mediated resistance.

MOLECULAR PLANT PATHOLOGY (2021)

Article Biochemical Research Methods

Why are viral genomes so fragile? The bottleneck hypothesis

Nono S. C. Merleau et al.

Summary: Viruses experience frequent population bottlenecks when transmitted to new hosts, leading to a fragile genetic structure as an evolutionary response. Increasing the fitness cost of mutations may lower the fixation probability of unfit mutants at each transmission, enhancing survival chances through multiple bottlenecks.

PLOS COMPUTATIONAL BIOLOGY (2021)

Article Microbiology

Completion of Maize Stripe Virus Genome Sequence and Analysis of Diverse Isolates

Stephen Bolus et al.

Summary: This study provided a complete genetic description of the tenuivirus maize stripe virus and identified potential mechanisms underlying its diversity, including evidence for reassortment in RNA3 correlated with the absence of RNA5.

FRONTIERS IN MICROBIOLOGY (2021)

Review Microbiology

Towards the Forest Virome: High-Throughput Sequencing Drastically Expands Our Understanding on Virosphere in Temperate Forest Ecosystems

Artemis Rumbou et al.

Summary: The development of HTS technologies has led to a significant gain in genetic information on the virosphere of temperate forests in the past seven years. HTS methods have made a major contribution to forest virology, allowing for a better understanding of the role viruses play in the holobionts of trees. This new research may have practical applications in forest plant protection and the prevention of emergent infectious diseases in forests.

MICROORGANISMS (2021)

Article Agronomy

Natural resistance to Potato virus Y in Solanum tuberosum Group Phureja

Lesley Torrance et al.

THEORETICAL AND APPLIED GENETICS (2020)

Review Plant Sciences

Deep Roots and Splendid Boughs of the Global Plant Virome

Valerian V. Dolja et al.

ANNUAL REVIEW OF PHYTOPATHOLOGY, VOL 58 (2020)

Article Biochemistry & Molecular Biology

Viral Fitness Determines the Magnitude of Transcriptomic and Epigenomic Reprograming of Defense Responses in Plants

Regis L. Correa et al.

MOLECULAR BIOLOGY AND EVOLUTION (2020)

Article Microbiology

Variation Profile of the Orthotospovirus Genome

Deepti Nigam et al.

PATHOGENS (2020)

Article Multidisciplinary Sciences

Mutations in virus-derived small RNAs

Deepti Nigam et al.

SCIENTIFIC REPORTS (2020)

Review Virology

Climate change and plant virus epidemiology

Piotr Trebicki

VIRUS RESEARCH (2020)

Review Virology

R gene mediated defense against viruses

Peter Palukaitis et al.

CURRENT OPINION IN VIROLOGY (2020)

Article Virology

Impact of Cultivated Hosts on the Recombination of Cucumber Mosa

Rimnoma S. Ouedraogo et al.

JOURNAL OF VIROLOGY (2019)

Article Virology

Evolution of plant-virus interactions: host range and virus emergence

Michael J. McLeish et al.

CURRENT OPINION IN VIROLOGY (2019)

Review Plant Sciences

Host factors against plant viruses

Hernan Garcia-Ruiz

MOLECULAR PLANT PATHOLOGY (2019)

Review Microbiology

Evolution and ecology of plant viruses

Pierre Lefeuvre et al.

NATURE REVIEWS MICROBIOLOGY (2019)

Article Biology

Virus epidemics, plant-controlled population bottlenecks and the durability of plant resistance

Elsa Rousseau et al.

PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2019)

Review Genetics & Heredity

Evolutionary forces at work in partitiviruses

Karel Petrzik

VIRUS GENES (2019)

Article Virology

Global Dimensions of Plant Virus Diseases: Current Status and Future Perspectives

Roger A. C. Jones et al.

ANNUAL REVIEW OF VIROLOGY, VOL 6, 2019 (2019)

Article Biotechnology & Applied Microbiology

Evolving by deleting: patterns of molecular evolution of Apple stem pitting virus isolates from Poland

Beata Komorowska et al.

JOURNAL OF GENERAL VIROLOGY (2019)

Article Plant Sciences

Genome-Wide Variation in Potyviruses

Deepti Nigam et al.

FRONTIERS IN PLANT SCIENCE (2019)

Review Microbiology

Prisoners of war - host adaptation and its constraints on virus evolution

Peter Simmonds et al.

NATURE REVIEWS MICROBIOLOGY (2019)

Review Biotechnology & Applied Microbiology

Implications of segment mismatch for influenza A virus evolution

Maria C. White et al.

JOURNAL OF GENERAL VIROLOGY (2018)

Article Multidisciplinary Sciences

Maize chlorotic mottle virus exhibits low divergence between differentiated regional sub-populations

Luke Braidwood et al.

SCIENTIFIC REPORTS (2018)

Review Virology

Susceptibility Genes to Plant Viruses

Hernan Garcia-Ruiz

VIRUSES-BASEL (2018)

Article Microbiology

It's in the mix: Reassortment of segmented viral genomes

Anice C. Lowen

PLOS PATHOGENS (2018)

Review Plant Sciences

Exploring the Diversity of Mechanisms Associated With Plant Tolerance to Virus Infection

Dinesh Babu Paudel et al.

FRONTIERS IN PLANT SCIENCE (2018)

Article Virology

Molecular characterization of faba bean necrotic yellows viruses in Tunisia

Simona Kraberger et al.

ARCHIVES OF VIROLOGY (2018)

Article Biochemistry & Molecular Biology

Local adaptation of plant viruses: lessons from experimental evolution

Santiago F. Elena

MOLECULAR ECOLOGY (2017)

Article Biotechnology & Applied Microbiology

Determinants of host species range in plant viruses

Benoit Moury et al.

JOURNAL OF GENERAL VIROLOGY (2017)

Article Biochemistry & Molecular Biology

Evolution of rice stripe virus

Mei He et al.

MOLECULAR PHYLOGENETICS AND EVOLUTION (2017)

Article Multidisciplinary Sciences

Phytopathogenic fungus hosts a plant virus: A naturally occurring cross-kingdom viral infection

Ida Bagus Andika et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2017)

Article Multidisciplinary Sciences

Within-host Evolution of Segments Ratio for the Tripartite Genome of Alfalfa Mosaic Virus

Beilei Wu et al.

SCIENTIFIC REPORTS (2017)

Article Virology

A new tobamovirus infecting tomato crops in Jordan

N. Salem et al.

ARCHIVES OF VIROLOGY (2016)

Article Virology

Genetic variation of eggplant mottled dwarf virus from annual and perennial plant hosts

Polyxeni G. Pappi et al.

ARCHIVES OF VIROLOGY (2016)

Article Biochemistry & Molecular Biology

Genetic Determinism and Evolutionary Reconstruction of a Host Jump in a Plant Virus

Nikon Vassilakos et al.

MOLECULAR BIOLOGY AND EVOLUTION (2016)

Review Biochemistry & Molecular Biology

Mechanisms of viral mutation

Rafael Sanjuan et al.

CELLULAR AND MOLECULAR LIFE SCIENCES (2016)

Review Microbiology

The Strange Lifestyle of Multipartite Viruses

Anne Sicard et al.

PLOS PATHOGENS (2016)

Article Biology

Manipulation of hosts and vectors by plant viruses and impact of the environment

Stephane Blanc et al.

CURRENT OPINION IN INSECT SCIENCE (2016)

Article Biotechnology & Applied Microbiology

Methods for virus classification and the challenge of incorporating metagenomic sequence data

P. Simmonds

JOURNAL OF GENERAL VIROLOGY (2015)

Review Virology

Plant virus replication and movement

Manfred Heinlein

VIROLOGY (2015)

Article Virology

Recombination as a motor of host switches and virus emergence: geminiviruses as case studies

Pierre Lefeuvre et al.

CURRENT OPINION IN VIROLOGY (2015)

Article Virology

Recombinant soybean mosaic virus is prevalent in Chinese soybean fields

Yongqing Yang et al.

ARCHIVES OF VIROLOGY (2014)

Article Infectious Diseases

Asymmetric patterns of reassortment and concerted evolution in Cardamom bushy dwarf virus

F. R. Savory et al.

INFECTION GENETICS AND EVOLUTION (2014)

Article Biotechnology & Applied Microbiology

Genome diversity and evidence of recombination and reassortment in nanoviruses from Europe

Ioana Grigoras et al.

JOURNAL OF GENERAL VIROLOGY (2014)

Article Multidisciplinary Sciences

Non-random biodiversity loss underlies predictable increases in viral disease prevalence

Christelle Lacroix et al.

JOURNAL OF THE ROYAL SOCIETY INTERFACE (2014)

Article Virology

Ecological and Genetic Determinants of Pepino Mosaic Virus Emergence

Manuel G. Moreno-Perez et al.

JOURNAL OF VIROLOGY (2014)

Article Multidisciplinary Sciences

The Temporal Evolution and Global Spread of Cauliflower mosaic virus, a Plant Pararetrovirus

Ryosuke Yasaka et al.

PLOS ONE (2014)

Review Plant Sciences

Intracellular coordination of potyviral RNA functions in infection

Kristiina Makinen et al.

FRONTIERS IN PLANT SCIENCE (2014)

Article Virology

Genetic structure of rice black-streaked dwarf virus populations in China

Xiao Yin et al.

ARCHIVES OF VIROLOGY (2013)

Article Biochemistry & Molecular Biology

The Immunity Regulator BAK1 Contributes to Resistance Against Diverse RNA Viruses

Camilla Julie Korner et al.

MOLECULAR PLANT-MICROBE INTERACTIONS (2013)

Article Multidisciplinary Sciences

Phylogenetic and Recombination Analysis of Tomato Spotted Wilt Virus

Sen Lian et al.

PLOS ONE (2013)

Article Multidisciplinary Sciences

Gene copy number is differentially regulated in a multipartite virus

Anne Sicard et al.

NATURE COMMUNICATIONS (2013)

Article Virology

A virocentric perspective on the evolution of life

Eugene V. Koonin et al.

CURRENT OPINION IN VIROLOGY (2013)

Article Biochemistry & Molecular Biology

Multihost Experimental Evolution of a Plant RNA Virus Reveals Local Adaptation and Host-Specific Mutations

Stephanie Bedhomme et al.

MOLECULAR BIOLOGY AND EVOLUTION (2012)

Article Virology

Virus population bottlenecks during within-host progression and host-to-host transmission

Serafin Gutierrez et al.

CURRENT OPINION IN VIROLOGY (2012)

Article Infectious Diseases

Evidence of recombination in the Banana bunchy top virus genome

Muhammad Zeeshan Hyder et al.

INFECTION GENETICS AND EVOLUTION (2011)

Article Biotechnology & Applied Microbiology

Recombination in natural populations of watermelon mosaic virus: new agronomic threat or damp squib?

C. Desbiez et al.

JOURNAL OF GENERAL VIROLOGY (2011)

Review Microbiology

The good viruses: viral mutualistic symbioses

Marilyn J. Roossinck

NATURE REVIEWS MICROBIOLOGY (2011)

Review Microbiology

Why do RNA viruses recombine?

Etienne Simon-Loriere et al.

NATURE REVIEWS MICROBIOLOGY (2011)

Article Biology

98% identical, 100% wrong: per cent nucleotide identity can lead plant virus epidemiology astray

Siobain Duffy et al.

PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2010)

Review Multidisciplinary Sciences

Food Security: The Challenge of Feeding 9 Billion People

H. Charles J. Godfray et al.

SCIENCE (2010)

Article Infectious Diseases

The pleiotropic cost of host-specialization in Tobacco etch potyvirus

Patricia Agudelo-Romero et al.

INFECTION GENETICS AND EVOLUTION (2008)

Article Biotechnology & Applied Microbiology

The promiscuous evolutionary history of the family Bromoviridae

Francisco M. Codoner et al.

JOURNAL OF GENERAL VIROLOGY (2008)

Article Biochemistry & Molecular Biology

Gain of virulence on Rsv1-genotype soybean by an avirulent Soybean mosaic virus requires concurrent mutations in both P3 and HC-Pro

A. L. Eggenberger et al.

MOLECULAR PLANT-MICROBE INTERACTIONS (2008)

Article Biochemistry & Molecular Biology

A single amino acid of NIaPro of Papaya ringspot virus determines host specificity for infection of papaya

Kuan-Chun Chen et al.

MOLECULAR PLANT-MICROBE INTERACTIONS (2008)

Review Genetics & Heredity

Rates of evolutionary change in viruses: patterns and determinants

Siobain Duffy et al.

NATURE REVIEWS GENETICS (2008)

Article Plant Sciences

Virus infection improves drought tolerance

Ping Xu et al.

NEW PHYTOLOGIST (2008)

Article Biotechnology & Applied Microbiology

Adaptation of plum pox virus to a herbaceous host (Pisum sativum) following serial passages

Christopher M. Wallis et al.

JOURNAL OF GENERAL VIROLOGY (2007)

Article Virology

A phylogenetic survey of recombination frequency in plant RNA viruses

ER Chare et al.

ARCHIVES OF VIROLOGY (2006)

Article Biochemistry & Molecular Biology

Natural selection drives extremely rapid evolution in antiviral RNAi genes

DJ Obbard et al.

CURRENT BIOLOGY (2006)

Article Multidisciplinary Sciences

Large-scale sequence analysis of avian influenza isolates

JC Obenauer et al.

SCIENCE (2006)

Article Multidisciplinary Sciences

Viral genetic determinants for thrips transmission of Tomato spotted wilt virus

SH Sin et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Article Virology

Pelargonium necrotic spot virus:: a new member of the genus Tombusvirus

C Heinze et al.

ARCHIVES OF VIROLOGY (2004)

Review Biotechnology & Applied Microbiology

Variation and evolution of plant virus populations

F García-Arenal et al.

INTERNATIONAL MICROBIOLOGY (2003)

Review Plant Sciences

An analysis of the durability of resistance to plant viruses

F García-Arenal et al.

PHYTOPATHOLOGY (2003)

Article Biochemistry & Molecular Biology

Differential virulence by strains of Cucumber mosaic virus is mediated by the 2b gene

BJ Shi et al.

MOLECULAR PLANT-MICROBE INTERACTIONS (2002)

Article Plant Sciences

Diversity among isolates of Bean pod mottle virus

HC Gu et al.

PHYTOPATHOLOGY (2002)

Article Biochemistry & Molecular Biology

The broad-spectrum tospovirus resistance gene Sw-5 of tomato is a homolog of the root-knot nematode resistance gene Mi

SH Brommonschenkel et al.

MOLECULAR PLANT-MICROBE INTERACTIONS (2000)