Novel RNA viruses in oysters revealed by virome

Zhu, Peng; Liu, Guangfeng; Liu, Chang; Yang, Liling; Liu, Min; Xie, Ke-Ming; Shi, Shaokun; Shī, Mǎng; Jiang, Jing‐Zhe

doi:10.1002/imt2.65

Cited by 10 publications

(7 citation statements)

References 54 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…These findings emphasized the importance of continued research into viruses linked with prevalent marine invertebrates as well as the need for experiments to evaluate any potential ecological effects on these organisms [ 13 ]. The topic of filter feeding, especially in the context of densely clustered intertidal organisms such as oysters, has been a subject of significant interest in recent years [ 13 , 14 , 50 ]. The efficient filter-feeding mechanisms of these organisms, coupled with their group aggregation effects, have been found to have far-reaching implications for the transmission, recombination, and outbreaks of marine viruses across different species [ 51 , 52 ].…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Unveiling CRESS DNA Virus Diversity in Oysters by Virome

Zhu,

Liu,

Liu

et al. 2024

Viruses

Self Cite

View full text Add to dashboard Cite

Oysters that filter feed can accumulate numerous pathogens, including viruses, which can serve as a valuable viral repository. As oyster farming becomes more prevalent, concerns are mounting about diseases that can harm both cultivated and wild oysters. Unfortunately, there is a lack of research on the viruses and other factors that can cause illness in shellfish. This means that it is harder to find ways to prevent these diseases and protect the oysters. This is part of a previously started project, the Dataset of Oyster Virome, in which we further study 30 almost complete genomes of oyster-associated CRESS DNA viruses. The replication-associated proteins and capsid proteins found in CRESS DNA viruses display varying evolutionary rates and frequently undergo recombination. Additionally, some CRESS DNA viruses have the capability for cross-species transmission. A plethora of unclassified CRESS DNA viruses are detectable in transcriptome libraries, exhibiting higher levels of transcriptional activity than those found in metagenome libraries. The study significantly enhances our understanding of the diversity of oyster-associated CRESS DNA viruses, emphasizing the widespread presence of CRESS DNA viruses in the natural environment and the substantial portion of CRESS DNA viruses that remain unidentified. This study’s findings provide a basis for further research on the biological and ecological roles of viruses in oysters and their environment.

show abstract

Section: Discussionmentioning

confidence: 99%

“…Among them, there are at least 11 DNA virus families present, which comprise bacteriophages and CRESS DNA viruses mainly. Additionally, 18 new RNA viruses belonging to five distinct virus orders or families ( Sobelivirales , Picornavirales , Durnavirales , Leviviridae , and Yanvirus) were identified [ 13 , 14 ].…”

Section: Introductionmentioning

confidence: 99%

Unveiling CRESS DNA Virus Diversity in Oysters by Virome

Zhu,

Liu,

Liu

et al. 2024

Viruses

Self Cite

View full text Add to dashboard Cite

show abstract

“…Advances in high-throughput sequencing and virome technologies have overcome the dependency on host cell cultures in traditional virology research, greatly enhancing the efficiency of discovering and identifying new viruses (62) . In recent years, virome technologies has been widely applied in various studies, including marine environments and research on vertebrates and invertebrates, leading to the identification of numerous novel viruses (63,64) and significantly expanding our knowledge of the viral world.…”

Section: Discussionmentioning

confidence: 99%

Identification and classification of the genomes of novel Microviruses in poultry slaughterhouse

Xie,

Lin,

Zhu

et al. 2024

Preprint

Self Cite

View full text Add to dashboard Cite

Microviridae is a family of phages with circular ssDNA genomes that are widely found in various environments and organisms. In this study, Virome techniques were employed to explore potential members of Microviridae in poultry slaughterhouse, leading to the identification of 98 novel and complete microvirus genomes. Using a similarity clustering network classification approach, these viruses were found to belong to at least 6 new subfamilies within Microviridae and 3 higher-level taxonomic units. Analysis of their genomes found that the genome size, GC content and genomic structure of these new taxa showed obvious regularities, validating the rationality of our classification method. Compared with the 19 families classified by previous researchers for microviruses dataset, our method can divide microviruses into about 45 more detailed clusters, which may serve as a new standard for classifying Microviridae members. Furthermore, addressing the scarcity of host information for microviruses, this study significantly broadened their host range and discovered over 20 possible new hosts, including important pathogenic bacteria such as Helicobacter pylori and Vibrio cholerae, as well as different taxa demonstrated distinct host specificity. The findings of this study effectively expand the diversity of the Microviridae, providing new insights for their classification and identification. Additionally, it offers a fresh perspective for monitoring and controlling pathogenic microorganisms in poultry slaughterhouse environments.

show abstract

“…Advances in high-throughput sequencing and virome technologies have overcome the dependency on host cell cultures in traditional virology research, greatly enhancing the efficiency of discovering and identifying new viruses ( Chapagain, 2019 ). In recent years, virome technologies has been widely applied in various studies, including marine environments and research on vertebrates and invertebrates, leading to the identification of numerous novel viruses ( Zhu et al, 2022 ; Jiang et al, 2023 ) and significantly expanding our knowledge of the viral world.…”

Section: Discussionmentioning

confidence: 99%

Identification and classification of the genomes of novel microviruses in poultry slaughterhouse

Xie,

Lin,

Sun

et al. 2024

Front. Microbiol.

Self Cite

View full text Add to dashboard Cite

Microviridae is a family of phages with circular ssDNA genomes and they are widely found in various environments and organisms. In this study, virome techniques were employed to explore potential members of Microviridae in a poultry slaughterhouse, leading to the identification of 98 novel and complete microvirus genomes. Using a similarity clustering network classification approach, these viruses were found to belong to at least 6 new subfamilies within Microviridae and 3 higher-level taxonomic units. Genome size, GC content and genome structure of these new taxa showed evident regularities, validating the rationality of our classification method. Our method can divide microviruses into about 45 additional detailed clusters, which may serve as a new standard for classifying Microviridae members. Furthermore, by addressing the scarcity of host information for microviruses, the current study significantly broadened their host range and discovered over 20 possible new hosts, including important pathogenic bacteria such as Helicobacter pylori and Vibrio cholerae, as well as different taxa demonstrated different host specificities. The findings of this study effectively expand the diversity of the Microviridae family, providing new insights for their classification and identification. Additionally, it offers a novel perspective for monitoring and controlling pathogenic microorganisms in poultry slaughterhouse environments.

show abstract

Novel RNA viruses in oysters revealed by virome

Abstract: Eighteen novel RNA viruses were found in Crassostrea hongkongensis. Phylogenic analysis shows evidence of recombination between major genes of viruses. Picobirnaviruses are ubiquitous and abundant in oysters.

Cited by 10 publications

References 54 publications

Unveiling CRESS DNA Virus Diversity in Oysters by Virome

Unveiling CRESS DNA Virus Diversity in Oysters by Virome

Identification and classification of the genomes of novel Microviruses in poultry slaughterhouse

Identification and classification of the genomes of novel microviruses in poultry slaughterhouse

Contact Info

Product

Resources

About