Recent changes to virus taxonomy ratified by the International Committee on Taxonomy of Viruses (2022)

Walker, Peter; Siddell, Stuart G.; Lefkowitz, Elliot J.; Mushegian, Arcady; Adriaenssens, Evelien M.; Alfenas‐Zerbini, Poliane; Dempsey, Donald M.; Dutilh, Bas E.; García, María Laura; Hendrickson, R. Curtis; Junglen, Sandra; Krupovìč, Mart; Kuhn, Jens H.; Lambert, Amy J.; Łobocka, Małgorzata; Oksanen, Hanna M.; Orton, Richard; Robertson, David L.; Rubino, Luisa; Sabanadzovic, Sead; Simmonds, Peter; Smith, Donald B.; Suzuki, Nobuhiro; Doorslaer, Koenraad Van; Vandamme, Anne‐Mieke; Varsani, Arvind; Zerbini, F. Murilo

doi:10.1007/s00705-022-05516-5

Cited by 218 publications

(164 citation statements)

References 5 publications

Supporting

Mentioning

162

Contrasting

Unclassified

Order By: Relevance

“…In conclusion, this study describes the discovery of a novel anellovirus species which represents the rst complete genome within the genus Mutorquevirus. Comparative genomic analysis showed that TTEqV2 shares many conserved features with previously reported TTVs and it has been recognized as a novel species by the ICTV 13 . This, along with previous studies using similar methods [15][16][17][18] demonstrates the power of HTS for characterization of unexpected and/or novel viruses in a variety of hosts and sample types .…”

Section: Discussionmentioning

confidence: 75%

“…Here, we report the complete genome sequence of a novel TTV species, Torque teno equus virus 2 (TTEqV2) isolate Alberta/2018, discovered via high throughput sequencing (HTS) of tissue samples collected from a horse that died of nonsuppurative encephalitis. The novel virus described here has been o cially approved by the ICTV as a novel species within the genus Mutorquevirus 13 . The name of the novel virus complies with current ICTV naming guidelines, however switching to a binomial naming system has been suggested by the ICTV but not yet formally adopted 14 .…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Discovery and comparative genomic analysis of a novel equine Anellovirus species, representing the first complete Mutorquevirus genome

Fisher

Nebroski

Davies

et al. 2022

Preprint

View full text Add to dashboard Cite

The complete genome of a novel torque teno virus species (Torque teno equus virus 2 (TTEqV2) isolate Alberta/2018) was obtained by high throughput sequencing (HTS) of nucleic acid extracted from the lung and liver tissue of a Quarter Horse gelding that died of nonsuppurative encephalitis in Alberta, Canada. The 2,805 nucleotide circular genome is the first complete genome from the Mutorquevirus genus and has been approved as a new species by the International Committee on the Taxonomy of Viruses. The genome contains several characteristic features of torque teno virus (TTV) genomes, including an ORF1 encoding a putative 631 aa capsid protein with an arginine-rich N-terminus, several rolling circle replication associated amino acid motifs, and a downstream polyadenylation signal. A smaller overlapping ORF2 that encodes a protein with an amino acid motif (WX7HX3CXCX5H) which, in general, is highly conserved in TTVs and anelloviruses. The UTR contains two GC-rich tracts, two highly conserved 15 nucleotide sequences, and what appears to be an atypical TATA-box sequence also observed in two other TTV genera. Codon usage analysis of TTEqV2 and 11 other selected anelloviruses from five host species revealed a bias toward adenine ending (A3) codons in the anelloviruses, while in contrast, A3 codons were observed at a low frequency in horse and the four other associated host species examined. Phylogenetic analysis of TTV ORF1 sequences available to date shows TTEqV2 clusters with the only other currently reported member of the Mutorquevirus genus, Torque teno equus virus 1 (TTEqV1, KR902501). Genome-wide pairwise alignment of TTEqV2 and TTEqV1 shows the absence of several highly conserved TTV features within the UTR of TTEqV1, suggesting it is incomplete and TTEqV2 is the first complete genome within the genus Mutorquevirus.

show abstract

Section: Discussionmentioning

confidence: 75%

Section: Introductionmentioning

confidence: 99%

Discovery and comparative genomic analysis of a novel equine Anellovirus species, representing the first complete Mutorquevirus genome

Fisher

Nebroski

Davies

et al. 2022

Preprint

View full text Add to dashboard Cite

show abstract

“…Equine influenza (EI) is an acute, contagious infectious disease of horses, donkeys, and other members of the family Equidae caused by the equine influenza A virus of the genus Orthomyxovirus within the Family Orthomyxoviridae [ 1 ]. The characteristic clinical signs of influenza virus infection in equines include high fever, cough, and serous nasal discharge, and abortion may occur in pregnant animals.…”

Section: Introductionmentioning

confidence: 99%

Full-Length Genome of the Equine Influenza A Virus Subtype H3N8 from 2019 Outbreak in Saudi Arabia

Alaql

Alhafufi²,

Kasem

et al. 2022

Animals

View full text Add to dashboard Cite

Equine influenza is a major cause of respiratory infections in horses and can spread rapidly despite the availability of commercial vaccines. This study aimed to screen the incidence of equine influenza virus (EIV) and molecularly characterize the haemagglutinin and neuraminidase from positive EIV field samples collected from Saudi Arabia. Six-hundred twenty-one horses from 57 horse barns were screened for the presence of the clinical signs, suggestive for equine influenza, from different parts of Saudi Arabia. Nasopharyngeal swabs were collected from each horse showing respiratory distress. Samples from the same horse barn were pooled together and screened for the presence of the influenza A virus using quantitative real time reverse transcriptase polymerase chain reaction (qRT-PCR). Selective positive samples were subjected to full-length genome sequencing using MiSeq Illumina. Out of the total 57 pools, 39 were found positive to EIV using qRT-PCR. Full-length gene sequences were compared with representative EIV strains selected from the GenBank database. Phylogenetic analysis of the HA and NA genes revealed that the identified virus strains belong to H3N8 clade 1 of the Florida sublineage and were very similar to viruses identified in USA in 2019, with no current evidence for reassortment. This is one of the first reports providing detailed description and characterization of EIVs in Saudi Arabia. Detailed surveillance and genetic information sharing could allow genetic evolution of equine influenza viruses to be monitored more effectively on a global basis and aid in refinement of vaccine strain selection for EIV.

show abstract

“…However, phylogenesis analysis of the nearly complete or entire genome has revealed discoveries of porcine parvovirus in the form of PPV2 to PP7. PPV1 is classified as a protoparvovirus belonging to the subfamily Parvovirinae, family Parvoviridae (Cotmore et al, 2019;Walker et al, 2020). The viral genome consists of two main open frames (ORFs), ORFs1 and ORFs2.…”

Section: Introductionmentioning

confidence: 99%

Molecular characterization of porcine parvovirus 1 based on partial VP2 gene in the ovaries of Thai pigs

Saekhow¹,

Sriphannam

Yamsakul

2022

VIS

View full text Add to dashboard Cite

Porcine parvovirus 1 (PPV1) is the causative agent of swine reproductive disease, particularly in naive gilts and sows. This study aimed to investigate the prevalence and genetic diversity of the partial nucleotide sequence of the VP2 gene and to compare the substitution of amino acid residues that affect relevant biological properties. The prevalence of PPV1 was found to be 12% (12/100) when the viral genome was detected using polymerase chain reaction (PCR). Determination of the genetic diversity of a partial nucleotide sequence of the VP2 gene through phylogenetic analysis indicated that a single cluster of Thai PPV1s was allocated on the phylogenetic tree. According to a comparison of the substitution of amino acid residues that affected the biological properties at 378, 383, 365, and 436 of the VP2 capsid protein between the 12 Thai PPV1s, the Kresse strain (a surrogate pathogenic strain), and the NADL-2 strain (a surrogate nonpathogenic strain). It was determined that the substitution of amino acid residues at 378, 383, and 436 of 12 Thai PPV2s was identical to those of the Kresse strains. The substitution of amino acid residues at 436 of the 12 Thai PPV1s was similar to that of a proven virulent strain in vivo. Additionally, substituting amino acid residue at 320 of the VP2 capsid protein revealed that seven Thai PPV1s were associated with isoleucine PPV1s and identical to that of both surrogate strains, whereas five Thai PPV1s were associated with threonine. This outcome was similar to what had been deposited in GenBank. Our data suggest that Thai PPV1s isolated from the ovaries of pigs raised in Chiang Mai may have originated from the Kresse strains. Based on a change of VP2 capsid protein that occurred amongst the substitution amino acid residue at 320 of the VP2 capsid protein, viruses found in this region were determined to be similar to those found in other areas. This was likely because the viruses had adapted to evade the immune systems of animals.

show abstract

Recent changes to virus taxonomy ratified by the International Committee on Taxonomy of Viruses (2022)

Cited by 218 publications

References 5 publications

Discovery and comparative genomic analysis of a novel equine Anellovirus species, representing the first complete Mutorquevirus genome

Discovery and comparative genomic analysis of a novel equine Anellovirus species, representing the first complete Mutorquevirus genome

Full-Length Genome of the Equine Influenza A Virus Subtype H3N8 from 2019 Outbreak in Saudi Arabia

Molecular characterization of porcine parvovirus 1 based on partial VP2 gene in the ovaries of Thai pigs

Contact Info

Product

Resources

About