Complete Genome Sequence, Molecular Characterization and Phylogenetic Relationships of a Temminck’s Stint Calicivirus: Evidence for a New Genus within Caliciviridae Family
Caliciviridae is a family of viral pathogens that naturally infects vertebrates, including humans, and causes a range of highly contagious infectious diseases. Caliciviruses are not well studied because of the lack of a universal approach to their cultivation; however, the development of molecular g...
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ftmdpi:oai:mdpi.com:/2076-2607/10/8/1540/ 2023-08-20T04:09:28+02:00 Complete Genome Sequence, Molecular Characterization and Phylogenetic Relationships of a Temminck’s Stint Calicivirus: Evidence for a New Genus within Caliciviridae Family Alina Matsvay Marina Dyachkova Anna Sai Valentina Burskaia Ilya Artyushin German Shipulin agris 2022-07-29 application/pdf https://doi.org/10.3390/microorganisms10081540 EN eng Multidisciplinary Digital Publishing Institute Virology https://dx.doi.org/10.3390/microorganisms10081540 https://creativecommons.org/licenses/by/4.0/ Microorganisms; Volume 10; Issue 8; Pages: 1540 Caliciviridae Sanovirus Temminck’s stint calicivirus genome annotation phylogenetics Text 2022 ftmdpi https://doi.org/10.3390/microorganisms10081540 2023-08-01T05:53:46Z Caliciviridae is a family of viral pathogens that naturally infects vertebrates, including humans, and causes a range of highly contagious infectious diseases. Caliciviruses are not well studied because of the lack of a universal approach to their cultivation; however, the development of molecular genetics and bioinformatics methods can shed light on their genetic architecture and evolutionary relationships. Here, we present and characterize the complete genome sequence of calicivirus isolated from a sandpiper—Temminck’s stint (Calidris temminckii), preliminarily named Temminck’s stint calicivirus (TsCV). Its genome is a linear, non-segmented, single-stranded (+sense) RNA with genome organization typical of avian caliciviruses. Comparative studies have shown significant divergence of the nucleotide sequence of the TsCV genome, as well as the amino acid sequence of the major capsid protein from all publicly available genomic and protein sequences, with the highest genome sequence similarity to unclassified Ruddy turnstone calicivirus A (43.68%) and the lowest pairwise divergence of the major capsid protein with unclassified goose calicivirus (57.44%). Phylogenetic analysis, as well as a comparative analysis of the homologous proteins, showed evidence of another separate genus within the Caliciviridae family—previously proposed, but not yet accepted by International Committee on Taxonomy of Viruses (ICTV)—the Sanovirus genus, which combines seven previously unclassified genomic sequences of avian caliciviruses, including the newly discovered TsCV, which we propose to consider as a separate species. Text Ruddy Turnstone MDPI Open Access Publishing Microorganisms 10 8 1540 |
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Open Polar |
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MDPI Open Access Publishing |
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ftmdpi |
language |
English |
topic |
Caliciviridae Sanovirus Temminck’s stint calicivirus genome annotation phylogenetics |
spellingShingle |
Caliciviridae Sanovirus Temminck’s stint calicivirus genome annotation phylogenetics Alina Matsvay Marina Dyachkova Anna Sai Valentina Burskaia Ilya Artyushin German Shipulin Complete Genome Sequence, Molecular Characterization and Phylogenetic Relationships of a Temminck’s Stint Calicivirus: Evidence for a New Genus within Caliciviridae Family |
topic_facet |
Caliciviridae Sanovirus Temminck’s stint calicivirus genome annotation phylogenetics |
description |
Caliciviridae is a family of viral pathogens that naturally infects vertebrates, including humans, and causes a range of highly contagious infectious diseases. Caliciviruses are not well studied because of the lack of a universal approach to their cultivation; however, the development of molecular genetics and bioinformatics methods can shed light on their genetic architecture and evolutionary relationships. Here, we present and characterize the complete genome sequence of calicivirus isolated from a sandpiper—Temminck’s stint (Calidris temminckii), preliminarily named Temminck’s stint calicivirus (TsCV). Its genome is a linear, non-segmented, single-stranded (+sense) RNA with genome organization typical of avian caliciviruses. Comparative studies have shown significant divergence of the nucleotide sequence of the TsCV genome, as well as the amino acid sequence of the major capsid protein from all publicly available genomic and protein sequences, with the highest genome sequence similarity to unclassified Ruddy turnstone calicivirus A (43.68%) and the lowest pairwise divergence of the major capsid protein with unclassified goose calicivirus (57.44%). Phylogenetic analysis, as well as a comparative analysis of the homologous proteins, showed evidence of another separate genus within the Caliciviridae family—previously proposed, but not yet accepted by International Committee on Taxonomy of Viruses (ICTV)—the Sanovirus genus, which combines seven previously unclassified genomic sequences of avian caliciviruses, including the newly discovered TsCV, which we propose to consider as a separate species. |
format |
Text |
author |
Alina Matsvay Marina Dyachkova Anna Sai Valentina Burskaia Ilya Artyushin German Shipulin |
author_facet |
Alina Matsvay Marina Dyachkova Anna Sai Valentina Burskaia Ilya Artyushin German Shipulin |
author_sort |
Alina Matsvay |
title |
Complete Genome Sequence, Molecular Characterization and Phylogenetic Relationships of a Temminck’s Stint Calicivirus: Evidence for a New Genus within Caliciviridae Family |
title_short |
Complete Genome Sequence, Molecular Characterization and Phylogenetic Relationships of a Temminck’s Stint Calicivirus: Evidence for a New Genus within Caliciviridae Family |
title_full |
Complete Genome Sequence, Molecular Characterization and Phylogenetic Relationships of a Temminck’s Stint Calicivirus: Evidence for a New Genus within Caliciviridae Family |
title_fullStr |
Complete Genome Sequence, Molecular Characterization and Phylogenetic Relationships of a Temminck’s Stint Calicivirus: Evidence for a New Genus within Caliciviridae Family |
title_full_unstemmed |
Complete Genome Sequence, Molecular Characterization and Phylogenetic Relationships of a Temminck’s Stint Calicivirus: Evidence for a New Genus within Caliciviridae Family |
title_sort |
complete genome sequence, molecular characterization and phylogenetic relationships of a temminck’s stint calicivirus: evidence for a new genus within caliciviridae family |
publisher |
Multidisciplinary Digital Publishing Institute |
publishDate |
2022 |
url |
https://doi.org/10.3390/microorganisms10081540 |
op_coverage |
agris |
genre |
Ruddy Turnstone |
genre_facet |
Ruddy Turnstone |
op_source |
Microorganisms; Volume 10; Issue 8; Pages: 1540 |
op_relation |
Virology https://dx.doi.org/10.3390/microorganisms10081540 |
op_rights |
https://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.3390/microorganisms10081540 |
container_title |
Microorganisms |
container_volume |
10 |
container_issue |
8 |
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1540 |
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1774722452180434944 |