scholarly journals Analysis of Six DNA Components of the Faba Bean Necrotic Yellows Virus Genome and Their Structural Affinity to Related Plant Virus Genomes

Virology ◽  
1997 ◽  
Vol 233 (2) ◽  
pp. 247-259 ◽  
Author(s):  
Lina Katul ◽  
Edgar Maiss ◽  
Sergey Yu. Morozov ◽  
H.Josef Vetten
Keyword(s):  
Faba Bean ◽  
Plant Virus ◽  
Virus Genome ◽  
Related Plant ◽  
Structural Affinity ◽  
Virus Genomes ◽  
Dna Components

scholarly journals Reconstitution of Authentic Nanovirus from Multiple Cloned DNAs

2009 ◽  
Vol 83 (20) ◽  
pp. 10778-10787 ◽  
Author(s):  
Ioana Grigoras ◽  
Tatiana Timchenko ◽  
Lina Katul ◽  
Ana Grande-Pérez ◽  
Heinrich-Josef Vetten ◽  
...  
Keyword(s):  
Faba Bean ◽  
Acyrthosiphon Pisum ◽  
Rolling Circle Amplification ◽  
Virus Genome ◽  
Biological Properties ◽  
Rolling Circle ◽  
Consensus Sequences ◽  
Circular Dnas ◽  
The Individual ◽  
Dna Components

ABSTRACT We describe a new plant single-stranded DNA (ssDNA) virus, a nanovirus isolate originating from the faba bean in Ethiopia. We applied rolling circle amplification (RCA) to extensively copy the individual circular DNAs of the nanovirus genome. By sequence analyses of more than 208 individually cloned genome components, we obtained a representative sample of eight polymorphic swarms of circular DNAs, each about 1 kb in size. From these heterogeneous DNA populations after RCA, we inferred consensus sequences of the eight DNA components of the virus genome. Based on the distinctive molecular and biological properties of the virus, we propose to consider it a new species of the genus Nanovirus and to name it faba bean necrotic stunt virus (FBNSV). Selecting a representative clone of each of the eight DNAs for transfer by T-DNA plasmids of Agrobacterium tumefaciens into Vicia faba plants, we elicited the development of the typical FBNSV disease symptoms. Moreover, we showed that the virus thus produced was readily transmitted by two different aphid vector species, Aphis craccivora and Acyrthosiphon pisum. This represents the first reconstitution of a fully infectious and sustainably insect-transmissible nanovirus from its cloned DNAs and provides compelling evidence that the genome of a legume-infecting nanovirus is typically comprised of eight distinct DNA components.

A defective interfering RNA that contains a mosaic of a plant virus genome

Cell ◽  
1987 ◽  
Vol 51 (3) ◽  
pp. 427-433 ◽  
Author(s):  
Bradley I. Hillman ◽  
James C. Carrington ◽  
Thomas J. Morris
Keyword(s):  
Plant Virus ◽  
Virus Genome ◽  
Defective Interfering Rna ◽  
Interfering Rna

scholarly journals Proteinases Involved in Plant Virus Genome Expression

1999 ◽  
pp. 233-263
Author(s):  
Juan Antonio García ◽  
María Rosario Fernández-Fernández ◽  
Juan José López-Moya
Keyword(s):  
Plant Virus ◽  
Virus Genome ◽  
Genome Expression

scholarly journals Extensive Recombination-Induced Disruption of Genetic Interactions Is Highly Deleterious but Can Be Partially Reversed by Small Numbers of Secondary Recombination Events

2014 ◽  
Vol 88 (14) ◽  
pp. 7843-7851 ◽  
Author(s):  
Adérito L. Monjane ◽  
Darren P. Martin ◽  
Francisco Lakay ◽  
Brejnev M. Muhire ◽  
Daniel Pande ◽  
...  
Keyword(s):  
Genetic Material ◽  
Evolutionary Process ◽  
Virus Genome ◽  
Maize Streak Virus ◽  
Genetic Interactions ◽  
Streak Virus ◽  
Fitness Costs ◽  
A Genome ◽  
Virus Genomes ◽  
Recombination Breakpoints

ABSTRACTAlthough homologous recombination can potentially provide viruses with vastly more evolutionary options than are available through mutation alone, there are considerable limits on the adaptive potential of this important evolutionary process. Primary among these is the disruption of favorable coevolved genetic interactions that can occur following the transfer of foreign genetic material into a genome. Although the fitness costs of such disruptions can be severe, in some cases they can be rapidly recouped by either compensatory mutations or secondary recombination events. Here, we used a maize streak virus (MSV) experimental model to explore both the extremes of recombination-induced genetic disruption and the capacity of secondary recombination to adaptively reverse almost lethal recombination events. Starting with two naturally occurring parental viruses, we synthesized two of the most extreme conceivable MSV chimeras, each effectively carrying 182 recombination breakpoints and containing thorough reciprocal mixtures of parental polymorphisms. Although both chimeras were severely defective and apparently noninfectious, neither had individual movement-, encapsidation-, or replication-associated genome regions that were on their own “lethally recombinant.” Surprisingly, mixed inoculations of the chimeras yielded symptomatic infections with viruses with secondary recombination events. These recombinants had only 2 to 6 breakpoints, had predominantly inherited the least defective of the chimeric parental genome fragments, and were obviously far more fit than their synthetic parents. It is clearly evident, therefore, that even when recombinationally disrupted virus genomes have extremely low fitness and there are no easily accessible routes to full recovery, small numbers of secondary recombination events can still yield tremendous fitness gains.IMPORTANCERecombination between viruses can generate strains with enhanced pathological properties but also runs the risk of producing hybrid genomes with decreased fitness due to the disruption of favorable genetic interactions. Using two synthetic maize streak virus genome chimeras containing alternating genome segments derived from two natural viral strains, we examined both the fitness costs of extreme degrees of recombination (both chimeras had 182 recombination breakpoints) and the capacity of secondary recombination events to recoup these costs. After the severely defective chimeras were introduced together into a suitable host, viruses with between 1 and 3 secondary recombination events arose, which had greatly increased replication and infective capacities. This indicates that even in extreme cases where recombination-induced genetic disruptions are almost lethal, and 91 consecutive secondary recombination events would be required to reconstitute either one of the parental viruses, moderate degrees of fitness recovery can be achieved through relatively small numbers of secondary recombination events.

scholarly journals Phylogenetic Relationship of the Complete Rauscher Murine Leukemia Virus Genome with Other Murine Leukemia Virus Genomes

Virology ◽  
1997 ◽  
Vol 238 (1) ◽  
pp. 64-67 ◽  
Author(s):  
Anis H Khimani ◽  
Michael Lim ◽  
Thomas G Graf ◽  
Temple F Smith ◽  
Ruth M Ruprecht
Keyword(s):  
Phylogenetic Relationship ◽  
Murine Leukemia Virus ◽  
Leukemia Virus ◽  
Virus Genome ◽  
Virus Genomes ◽  
Relationship Of ◽  
Murine Leukemia

scholarly journals Identification of a New Cotton Disease Caused by an Atypical Cotton Leafroll Dwarf Virus in Argentina

2017 ◽  
Vol 107 (3) ◽  
pp. 369-376 ◽  
Author(s):  
Yamila C. Agrofoglio ◽  
Verónica C. Delfosse ◽  
María F. Casse ◽  
Horacio E. Hopp ◽  
Iván Bonacic Kresic ◽  
...  
Keyword(s):  
Aphis Gossypii ◽  
Virus Genome ◽  
Dwarf Virus ◽  
Resistant Varieties ◽  
Cotton Blue ◽  
Cotton Plants ◽  
Leafroll Disease ◽  
Virus Genomes ◽  
Cotton Blue Disease ◽  
Cotton Leafroll Dwarf Virus

An outbreak of a new disease occurred in cotton (Gossypium hirsutum) fields in northwest Argentina starting in the 2009–10 growing season and is still spreading steadily. The characteristic symptoms of the disease included slight leaf rolling and a bushy phenotype in the upper part of the plant. In this study, we determined the complete nucleotide sequences of two independent virus genomes isolated from cotton blue disease (CBD)-resistant and -susceptible cotton varieties. This virus genome comprised 5,866 nucleotides with an organization similar to that of the genus Polerovirus and was closely related to cotton leafroll dwarf virus, with protein identity ranging from 88 to 98%. The virus was subsequently transmitted to a CBD-resistant cotton variety using Aphis gossypii and symptoms were successfully reproduced. To study the persistence of the virus, we analyzed symptomatic plants from CBD-resistant varieties from different cotton-growing fields between 2013 and 2015 and showed the presence of the same virus strain. In addition, a constructed full-length infectious cDNA clone from the virus caused disease symptoms in systemic leaves of CBD-resistant cotton plants. Altogether, the new leafroll disease in CBD-resistant cotton plants is caused by an atypical cotton leafroll dwarf virus.

scholarly journals A new full-length virus genome sequencing method reveals that antiviral RNAi changes geminivirus populations in field-grown cassava

2017 ◽  
Author(s):  
Devang Mehta ◽  
Matthias Hirsch-Hoffmann ◽  
Mariam Were ◽  
Andrea Patrignani ◽  
Hassan Were ◽  
...  
Keyword(s):  
Single Molecule ◽  
Deep Sequencing ◽  
Cost Effective ◽  
Virus Genome ◽  
Full Length ◽  
Dna Viruses ◽  
Circular Dna ◽  
Sequencing Technologies ◽  
Virus Genomes ◽  
And Control

ABSTRACTDeep-sequencing of virus isolates using short-read sequencing technologies is problematic since viruses are often present in complexes sharing a high-degree of sequence identity. The full-length genomes of such highly-similar viruses cannot be assembled accurately from short sequencing reads. We present a new method, CIDER-Seq (Circular DNA Enrichment Sequencing) which successfully generates accurate full-length virus genomes from individual sequencing reads with no sequence assembly required. CIDER-Seq operates by combining a PCR-free, circular DNA enrichment protocol with Single Molecule Real Time sequencing and a new sequence deconcatenation algorithm. We apply our technique to produce more than 1,200 full-length, highly accurate geminivirus genomes from RNAi-transgenic and control plants in a field trial in Kenya. Using CIDER-Seq we can demonstrate for the first time that the expression of antiviral doublestranded RNA (dsRNA) in transgenic plants causes a consistent shift in virus populations towards species sharing low homology to the transgene derived dsRNA. Our results show that CIDER-seq is a powerful, cost-effective tool for accurately sequencing circular DNA viruses, with future applications in deep-sequencing other forms of circular DNA such as transposons and plasmids.

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