Nudiviruses and other large, double-stranded circular DNA viruses of invertebrates: New insights on an old topic

2009 ◽  
Vol 101 (3) ◽  
pp. 187-193 ◽  
Author(s):  
Yongjie Wang ◽  
Johannes A. Jehle
Keyword(s):  
Dna Viruses ◽  
Circular Dna

Novel circular DNA virus identified in Opuntia discolor (Cactaceae) that codes for proteins with similarity to those of geminiviruses

2021 ◽  
Vol 102 (11) ◽  
Author(s):  
Rafaela S. Fontenele ◽  
Matias Köhler ◽  
Lucas C. Majure ◽  
Jesús A. Avalos-Calleros ◽  
Gerardo R. Argüello-Astorga ◽  
...  
Keyword(s):  
South America ◽  
Rolling Circle Replication ◽  
Dna Virus ◽  
Single Stranded Dna ◽  
Dna Viruses ◽  
Circular Dna ◽  
Rolling Circle ◽  
Rep Protein ◽  
Molecular Features ◽  
Viral Components

Viral metagenomic studies have enabled the discovery of many unknown viruses and revealed that viral communities are much more diverse and ubiquitous than previously thought. Some viruses have multiple genome components that are encapsidated either in separate virions (multipartite viruses) or in the same virion (segmented viruses). In this study, we identify what is possibly a novel bipartite plant-associated circular single-stranded DNA virus in a wild prickly pear cactus, Opuntia discolor, that is endemic to the Chaco ecoregion in South America. Two ~1.8 kb virus-like circular DNA components were recovered, one encoding a replication-associated protein (Rep) and the other a capsid protein (CP). Both of the inferred protein sequences of the Rep and CP are homologous to those encoded by members of the family Geminiviridae. These two putatively cognate components each have a nonanucleotide sequence within a likely hairpin structure that is homologous to the origins of rolling-circle replication (RCR), found in diverse circular single-stranded DNA viruses. In addition, the two components share similar putative replication-associated iterative sequences (iterons), which in circular single-stranded DNA viruses are important for Rep binding during the initiation of RCR. Such molecular features provide support for the possible bipartite nature of this virus, which we named utkilio virus (common name of the Opuntia discolor in South America) components A and B. In the infectivity assays conducted in Nicotiana benthamiana plants, only the A component of utkilio virus, which encodes the Rep protein, was found to move and replicate systemically in N. benthamiana. This was not true for component B, for which we did not detect replication, which may have been due to this being a defective molecule or because of the model plants (N. benthamiana) used for the infection assays. Future experiments need to be conducted with other plants, including O. discolor, to understand more about the biology of these viral components.

scholarly journals Human anelloviruses: diverse, omnipresent and commensal members of the virome

2020 ◽  
Vol 44 (3) ◽  
pp. 305-313 ◽  
Author(s):  
Joanna Kaczorowska ◽  
Lia van der Hoek
Keyword(s):  
Beneficial Effect ◽  
Culture System ◽  
Human Population ◽  
Human Life ◽  
Disease Association ◽  
Viral Clearance ◽  
Early Age ◽  
Dna Viruses ◽  
Circular Dna ◽  
Host Interactions

ABSTRACT Anelloviruses are small, single stranded circular DNA viruses. They are extremely diverse and have not been associated with any disease so far. Strikingly, these small entities infect most probably the complete human population, and there are no convincing examples demonstrating viral clearance from infected individuals. The main transmission could be via fecal-oral or airway route, as infections occur at an early age. However, due to the lack of an appropriate culture system, the virus–host interactions remain enigmatic. Anelloviruses are obviously mysterious viruses, and their impact on human life is not yet known, but, with no evidence of a disease association, a potential beneficial effect on human health should also be investigated.

Novel circular DNA viruses associated with Apiaceae and Poaceae from South Africa and New Zealand

2018 ◽  
Vol 164 (1) ◽  
pp. 237-242 ◽  
Author(s):  
Cécile Richet ◽  
Simona Kraberger ◽  
Denis Filloux ◽  
Pauline Bernardo ◽  
Gordon W. Harkins ◽  
...  
Keyword(s):  
South Africa ◽  
New Zealand ◽  
Dna Viruses ◽  
Circular Dna

scholarly journals Swine torque teno virus detection in pig commercial vaccines, enzymes for laboratory use and human drugs containing components of porcine origin

2009 ◽  
Vol 90 (3) ◽  
pp. 648-653 ◽  
Author(s):  
Tuija Kekarainen ◽  
Laura Martínez-Guinó ◽  
Joaquim Segalés
Keyword(s):  
Virus Detection ◽  
Mycoplasma Hyopneumoniae ◽  
The Other ◽  
Porcine Circovirus ◽  
Respiratory Syndrome Virus ◽  
Dna Viruses ◽  
Circular Dna ◽  
Wasting Syndrome ◽  
High Prevalence ◽  
Porcine Origin

Torque teno viruses (TTVs) are vertebrate infecting, single-stranded circular DNA viruses. Two genetically distinct TTV genogroups (TTV1 and TTV2) infect swine worldwide with high prevalence. Currently, swine TTVs are considered non-pathogenic, although TTV2 has been linked to post-weaning multisystemic wasting syndrome, a porcine circovirus disease. On the other hand, pig materials are an important source of components used in porcine vaccine manufacturing, human drugs and commercial enzyme products. However, there is little information about the possible existence of extraneous viruses in products containing porcine-derived components. In the present study, 26 commercial swine vaccines, seven human drugs and three enzyme products from porcine origin were tested for the presence of TTV1 and TTV2 genomes by PCR. Four vaccines against Mycoplasma hyopneumoniae were positive for TTV2 by PCR. Three M. hyopneumoniae, one porcine parvovirus and one porcine reproductive and respiratory syndrome virus vaccines were PCR positive for TTV1. One human drug contained TTV1 DNA as well as a trypsin enzyme; a porcine-derived elastase product was positive for both TTV genogroups. These results show that swine TTVs are contaminants not only of swine vaccines but also of human drugs containing porcine components and enzymes for laboratory use.

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.

scholarly journals Redondoviridae, a Family of Small, Circular DNA Viruses of the Human Oro-Respiratory Tract Associated with Periodontitis and Critical Illness

2019 ◽  
Vol 26 (2) ◽  
pp. 297 ◽  
Author(s):  
Arwa A. Abbas ◽  
Louis J. Taylor ◽  
Marisol I. Dothard ◽  
Jacob S. Leiby ◽  
Ayannah S. Fitzgerald ◽  
...  
Keyword(s):  
Critical Illness ◽  
Respiratory Tract ◽  
Dna Viruses ◽  
Circular Dna

Diverse replication-associated protein encoding circular DNA viruses in guano samples of Central-Eastern European bats

2017 ◽  
Vol 163 (3) ◽  
pp. 671-678 ◽  
Author(s):  
Gábor Kemenesi ◽  
Kornélia Kurucz ◽  
Brigitta Zana ◽  
Fanni Földes ◽  
Péter Urbán ◽  
...  
Keyword(s):  
Eastern European ◽  
Dna Viruses ◽  
Circular Dna ◽  
Protein Encoding ◽  
Central Eastern

Diverse small circular DNA viruses circulating amongst estuarine molluscs

2015 ◽  
Vol 31 ◽  
pp. 284-295 ◽  
Author(s):  
Anisha Dayaram ◽  
Sharyn Goldstien ◽  
Gerardo R. Argüello-Astorga ◽  
Peyman Zawar-Reza ◽  
Christopher Gomez ◽  
...  
Keyword(s):  
Dna Viruses ◽  
Circular Dna

scholarly journals Genome Analysis of a Glossina pallidipes Salivary Gland Hypertrophy Virus Reveals a Novel, Large, Double-Stranded Circular DNA Virus

2008 ◽  
Vol 82 (9) ◽  
pp. 4595-4611 ◽  
Author(s):  
Adly M. M. Abd-Alla ◽  
François Cousserans ◽  
Andrew G. Parker ◽  
Johannes A. Jehle ◽  
Nicolas J. Parker ◽  
...  
Keyword(s):  
Salivary Gland ◽  
Glossina Pallidipes ◽  
Open Reading Frames ◽  
Tsetse Flies ◽  
Sequence Comparisons ◽  
Dna Viruses ◽  
Circular Dna ◽  
Double Stranded Dna ◽  
Salivary Gland Hypertrophy ◽  
Salivary Gland Hypertrophy Virus

ABSTRACT Several species of tsetse flies can be infected by the Glossina pallidipes salivary gland hypertrophy virus (GpSGHV). Infection causes salivary gland hypertrophy and also significantly reduces the fecundity of the infected flies. To better understand the molecular basis underlying the pathogenesis of this unusual virus, we sequenced and analyzed its genome. The GpSGHV genome is a double-stranded circular DNA molecule of 190,032 bp containing 160 nonoverlapping open reading frames (ORFs), which are distributed equally on both strands with a gene density of one per 1.2 kb. It has a high A+T content of 72%. About 3% of the GpSGHV genome is composed of 15 sequence repeats, distributed throughout the genome. Although sharing the same morphological features (enveloped rod-shaped nucleocapsid) as baculoviruses, nudiviruses, and nimaviruses, analysis of its genome revealed that GpSGHV differs significantly from these viruses at the level of its genes. Sequence comparisons indicated that only 23% of GpSGHV genes displayed moderate homologies to genes from other invertebrate viruses, principally baculoviruses and entomopoxviruses. Most strikingly, the GpSGHV genome encodes homologues to the four baculoviral per os infectivity factors (p74 [pif-0], pif-1, pif-2, and pif-3). The DNA polymerase encoded by GpSGHV is of type B and appears to be phylogenetically distant from all DNA polymerases encoded by large double-stranded DNA viruses. The majority of the remaining ORFs could not be assigned by sequence comparison. Furthermore, no homologues to DNA-dependent RNA polymerase subunits were detected. Taken together, these data indicate that GpSGHV is the prototype member of a novel group of insect viruses.

Circular DNA viruses identified in short-finned pilot whale and orca tissue samples

Virology ◽  
2021 ◽  
Author(s):  
Kendal Smith ◽  
Russell Fielding ◽  
Kelsie Schiavone ◽  
Katharine R. Hall ◽  
Vincent S. Reid ◽  
...  
Keyword(s):  
Pilot Whale ◽  
Tissue Samples ◽  
Dna Viruses ◽  
Circular Dna
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