Complete genome analysis of the newly isolated Vibrio phage vB_VpP_WS1 of the family Microviridae

Xu, Wenjing; Xuan, Guanhua; Lin, Hong; Wang, Jingxue

doi:10.1007/s00705-022-05413-x

Cited by 5 publications

(3 citation statements)

References 22 publications

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“…Members of the the Gokushovirinae only infect Chlamydia, Bdellovibrio and Spiroplasma(13, 72). However, an increasing number of studies indicate that microviruses can infect a broader range of bacterial hosts, including Vibrio parahaemolyticus(73, 74), Salmonella(75), Shigella flexneri(76) and other bacteria. To address the question of infecting hosts, this study employed two new host prediction methods.…”

Section: Discussionmentioning

confidence: 99%

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

Xie,

Lin,

Zhu

et al. 2024

Preprint

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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.

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Section: Discussionmentioning

confidence: 99%

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

Xie,

Lin,

Zhu

et al. 2024

Preprint

View full text Add to dashboard Cite

show abstract

“…Members of the Gokushovirinae only infect Chlamydia , Bdellovibrio and Spiroplasma ( Brentlinger et al, 2002 ; King et al, 2012 ). However, an increasing number of studies indicate that microviruses can infect a broader range of bacterial hosts, including Vibrio parahaemolyticus ( Guo et al, 2022 ; Xu et al, 2022 ), Salmonella ( Li et al, 2021 ), Shigella flexneri ( Lu et al, 2022 ) and other bacteria. Predicting the hosts of these viruses is challenging because many cellular organisms lack genomic data or have not been extensively studied for their viruses.…”

Section: Discussionmentioning

confidence: 99%

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

Xie,

Lin,

Sun

et al. 2024

Front. Microbiol.

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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.

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“…The low number of microviruses among isolates is remarkable given that members of almost all known phylogenetic groups of microviruses have been detected in wastewater metagenomes (11). Furthermore, in the genus Vibrio, where almost half of all sequenced genomes contain filamentous ssDNA prophages (96) and which has been successfully sampled with the intention to discover novel nontailed viruses (97), only two bullavirus-like microviruses have been isolated (98,99). Despite the comprehensive samplings of the marine environment and their ease of detection via amplicon sequencing (100,101), only three bona fide marine microviruses have been isolated (17,58,102).…”

Section: Identifying Hosts and Isolating Microvirusesmentioning

confidence: 99%

Microviruses: A World Beyond phiX174

Kirchberger,

Ochman

2023

Annu. Rev. Virol.

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Two decades of metagenomic analyses have revealed that in many environments, small (∼5 kb), single-stranded DNA phages of the family Microviridae dominate the virome. Although the emblematic microvirus phiX174 is ubiquitous in the laboratory, most other microviruses, particularly those of the gokushovirus and amoyvirus lineages, have proven to be much more elusive. This puzzling lack of representative isolates has hindered insights into microviral biology. Furthermore, the idiosyncratic size and nature of their genomes have resulted in considerable misjudgments of their actual abundance in nature. Fortunately, recent successes in microvirus isolation and improved metagenomic methodologies can now provide us with more accurate appraisals of their abundance, their hosts, and their interactions. The emerging picture is that phiX174 and its relatives are rather rare and atypical microviruses, and that a tremendous diversity of other microviruses is ready for exploration.

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Complete genome analysis of the newly isolated Vibrio phage vB_VpP_WS1 of the family Microviridae

Cited by 5 publications

References 22 publications

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

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

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

Microviruses: A World Beyond phiX174

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