Characterization and Genomic Analysis of ssDNA Vibriophage vB_VpaM_PG19 within
            <i>Microviridae</i>
            , Representing a Novel Viral Genus

Guo, Ruizhe; Zheng, Kaiyang; Luo, Lin; Liu, Huan; Shao, Hongbing; Guo, Cui; He, Hui; Wang, Hualong; Sung, Yeong Yik; Mok, Wen Jye; Wong, Li Lian; Zhang, Yuzhong; Liang, Yantao; McMinn, Andrew; Wang, Min

doi:10.1128/spectrum.00585-22

Cited by 11 publications

(15 citation statements)

References 48 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…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

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

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.

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

“…The phage was purified 3-5 times. We stored the purified phage solution in SM Buffer at 4°C (Jamalludeen et al, 2007;Guo et al, 2022).…”

Section: Preparation Of Phagementioning

confidence: 99%

“…The ORFs were analyzed by RAST (parameters: Domain: virus, Genetic Code: 11) (Aziz et al, 2008). All gene functions were predicted by BLASTp (parameters: evalue<1e-5) against the nonredundant (NR in NCBI) database (http://blast.ncbi.nlm.nih.gov/) to find homologs (Liu et al, 2017;Guo et al, 2022).…”

Section: Dna Extraction and Genome Sequencing Of The Phagementioning

confidence: 99%

Characterization and genome analysis of Vibrio phage vB_VhaP_PG11, representing a new viral genus

Jing

Guo²,

Wang³

et al. 2023

Front. Mar. Sci.

Self Cite

View full text Add to dashboard Cite

Vibrio is a kind of common gram-negative bacteria, which is widely distributed in marine and estuarine environments. In the study, a novel marine phage vB_VhaP_PG11, infecting Vibrio hangzhouensis, was isolated from the offshore waters of Qingdao, China. vB_VhaP_PG11 is a double-stranded DNA phage. The whole genome proteomic tree shows that vB_VhaP_PG11 phage is related to two Vibrio phages, Vibrio phage 1.238.A._10N.261.52.F10 and Vibrio phage 1.245.O._10N.261.54.C7, but with low homology. Their amino acids identity with vB_VhaP_PG11 is 42.77 and 41.49% respectively. The prediction results of genome-blast distance phylogeny (GBDP) and the analysis gene-sharing network indicate that vB_VhaP_PG11 belongs to a new genus in Schitoviridae, named Qingschitovirus. The study of Vibrio phage vB_VhaP_PG11 provides basic information contributing to a better understanding of interactions between Vibrio phages and their hosts and helps analyze unknown viral sequences in the metagenomic database.

show abstract

Characterization and Genomic Analysis of ssDNA Vibriophage vB_VpaM_PG19 within Microviridae , Representing a Novel Viral Genus

Cited by 11 publications

References 48 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

Characterization and genome analysis of Vibrio phage vB_VhaP_PG11, representing a new viral genus

Contact Info

Product

Resources

About