Revisiting the taxonomy of the family Circoviridae: establishment of the genus Cyclovirus and removal of the genus Gyrovirus

Rosario, Karyna; Breitbart, Mya; Harrach, Balázs; Segalés, Joaquím; Delwart, Eric; Biagini, Philippe; Varsani, Arvind

doi:10.1007/s00705-017-3247-y

Cited by 320 publications

(382 citation statements)

References 90 publications

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“…A reference contig database was created consisting of the 6,550 unique contigs, the four full-length CRESS DNA virus (circular, rep-encoding single-stranded DNA virus) (30,31) genomes obtained (see below), and crAssphage (32), a prevalent bacteriophage whose full-length genome was not in the version of the NCBI database downloaded. Deduplicated individual sequencing reads from each sample were aligned to the contig database using FR-HIT (33).…”

Section: Resultsmentioning

confidence: 99%

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Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children

Zhao

Vatanen

Droit

et al. 2017

Proc. Natl. Acad. Sci. U.S.A.

254

240

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Viruses have long been considered potential triggers of autoimmune diseases. Here we defined the intestinal virome from birth to the development of autoimmunity in children at risk for type 1 diabetes (T1D). A total of 220 virus-enriched preparations from serially collected fecal samples from 11 children (cases) who developed serum autoantibodies associated with T1D (of whom five developed clinical T1D) were compared with samples from controls. Intestinal viromes of case subjects were less diverse than those of controls. Among eukaryotic viruses, we identified significant enrichment ofCircoviridae-related sequences in samples from controls in comparison with cases. Enterovirus, kobuvirus, parechovirus, parvovirus, and rotavirus sequences were frequently detected but were not associated with autoimmunity. For bacteriophages, we found higher Shannon diversity and richness in controls compared with cases and observed that changes in the intestinal virome over time differed between cases and controls. Using Random Forests analysis, we identified disease-associated viral bacteriophage contigs after subtraction of age-associated contigs. These disease-associated contigs were statistically linked to specific components of the bacterial microbiome. Thus, changes in the intestinal virome preceded autoimmunity in this cohort. Specific components of the virome were both directly and inversely associated with the development of human autoimmune disease.

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Section: Resultsmentioning

confidence: 99%

“…S1) instead of in opposite directions as observed for the Circoviridae (31). Virus 4 was similar to circoviruses (30,31) in terms of both genome size (2.3 kb) and genome structure (Fig. S1).…”

Section: Changes In the Eukaryotic Virome Suggest Protective Effects mentioning

confidence: 88%

Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children

Zhao

Vatanen

Droit

et al. 2017

Proc. Natl. Acad. Sci. U.S.A.

254

240

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“…The organization of the PiCV genome is typical for the family Circoviridae and is very similar to the genome of the BFDV (Stenzel et al 2014a Rosario et al 2017). All circoviruses have an ambisense genome organization containing open reading frames (ORFs) on different strands of replicative form dsDNA.…”

Section: Genome Characterization and Genetic Diversity Of Picvmentioning

confidence: 80%

“…This regions contains a conserved nanonucleotide motif '(T/n)A(G/t) TATTAC', where lower case nucleotides are observed at low frequency and 'n' represents nucleotides located at the apex of a potential stem-loop structure. This structure constitutes the origin of replication (Mankertz et al 2000;Rosario et al 2017). The pairwise identity between PiCV and BFDV or PCV is estimated at 57% and 35%, respectively, which is why these viruses were classified as different species (Mankertz et al 2000;Todd et al 2001).…”

Section: Genome Characterization and Genetic Diversity Of Picvmentioning

confidence: 99%

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The epidemiology, molecular characterization and clinical pathology of circovirus infections in pigeons – current knowledge

Stenzel

Koncicki

2017

Veterinary Quarterly

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The first cases of circovirus infections in pigeons were documented less than 25 years ago. Since then, circovirus infections have been reported on nearly all continents. The specificity of pigeon breeding defies biosecurity principles, which could be the reason for the high prevalence of PiCV infections. PiCV infections in pigeons lead to atrophy of immune system organs and lymphocyte apoptosis. Infected birds could be more susceptible to infections of the respiratory and digestive tract. PiCV has been associated with the young pigeon disease syndrome (YPDS). PiCVs are characterized by high levels of genetic diversity due to frequent point mutations, recombination processes in the PiCV genome and positive selection. Genetic recombinations and positive selection play the key role in the evolution of PiCV. A protocol for culturing PiCV under laboratory conditions has not yet been developed, and traditional vaccines against the infection are not available. Recombinant capsid proteins for detecting anti-PiCV antibodies have been obtained, and these antigens can be used in the production of diagnostic tests and subunit vaccines against PiCV infections. However, YPDS has complex etiology, and it remains unknown whether immunization against PiCV alone will contribute to effective control of YPDS.

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Circoviruses

Segalés¹,

Allan²,

Domingo³

2019

Diseases of Swine

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Revisiting the taxonomy of the family Circoviridae: establishment of the genus Cyclovirus and removal of the genus Gyrovirus

Abstract: The family Circoviridae contains viruses with covalently closed, circular, single-stranded DNA (ssDNA) genomes, including the smallest known autonomously replicating, capsid-encoding animal pathogens.

Cited by 320 publications

References 90 publications

Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children

Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children

The epidemiology, molecular characterization and clinical pathology of circovirus infections in pigeons – current knowledge

Circoviruses

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