Diverse cressdnaviruses and an anellovirus identified in the fecal samples of yellow-bellied marmots

Khalifeh, Anthony; Blumstein, Daniel T.; Fontenele, Rafaela S.; Schmidlin, Kara; Richet, Cécile; Kraberger, Simona; Varsani, Arvind

doi:10.1016/j.virol.2020.12.017

Cited by 12 publications

(5 citation statements)

References 46 publications

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“…Although CRESS viruses are detectable in a large number of diverse samples and animals [23,51,52], little is known about the occurrence and biology of Genomoviruses in farm animals [8,[35][36][37]53]. This study confirms the observation of other authors reporting the frequent presence of genomoviruses in feces [26,54,55]. Six different genomovirus sequences were isolated from 5 out of 16 individuals.…”

Section: Isolation Of Bmmf Molecules From Fecessupporting

confidence: 86%

First Insights into the Occurrence of Circular Single-Stranded DNA Genomes in Asian and African Cattle

König

Frölich²,

Jandowsky³

et al. 2023

Animals

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Circular replicase-encoding single-stranded (CRESS) DNA viruses and other circular DNA agents are increasingly found in various samples and animals. A specific class of these agents—termed bovine meat and milk factors (BMMF)—has been supposed to act as a factor in indirect carcinogenesis in humans. Initial observations attributed the BMMF to European cattle breeds and foodstuffs produced thereof. In the present study, blood and fecal samples from African and Asian cattle were examined. BMMF molecules and genomoviruses were detected in all bovids under study. The majority (79%) of the 29 circular elements could be assigned to BMMF groups 1 and 2, whereas CRESS viruses of the family Genomoviridae accounted for the smaller part (21%). Two genomoviruses belong to the genus Gemykibivirus and one to the genus Gemykrogvirus. The remaining three might be considered as novel species within the genus Gemycircularvirus. The majority of all isolated molecules originated from fecal samples, whereas only three derived from blood. The results from this study expand our knowledge on the diversity and presence of circular DNA in different ruminants that serve for food production in many countries over the world.

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Section: Isolation Of Bmmf Molecules From Fecessupporting

confidence: 86%

First Insights into the Occurrence of Circular Single-Stranded DNA Genomes in Asian and African Cattle

König

Frölich²,

Jandowsky³

et al. 2023

Animals

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“…The Reps in third cluster (named naryavirus) share 42-52% amino acid identity with those the two from this study (accession numbers MN379588 and MN379590). The Reps of these two phylogenetically cluster with those of viruses derived from marmot [75] and human fecal samples [11], the latter being associated with Entamoeba [11].…”

Section: Unclassified Cressdnavirusesmentioning

confidence: 99%

Diverse Single-Stranded DNA Viruses Identified in Chicken Buccal Swabs

et al. 2021

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High-throughput sequencing approaches offer the possibility to better understand the complex microbial communities associated with animals. Viral metagenomics has facilitated the discovery and identification of many known and unknown viruses that inhabit mucosal surfaces of the body and has extended our knowledge related to virus diversity. We used metagenomics sequencing of chicken buccal swab samples and identified various small DNA viruses with circular genome organization. Out of 134 putative circular viral-like circular genome sequences, 70 are cressdnaviruses and 26 are microviruses, whilst the remaining 38 most probably represent sub-genomic molecules. The cressdnaviruses found in this study belong to the Circoviridae, Genomoviridae and Smacoviridae families as well as previously described CRESS1 and naryavirus groups. Among these, genomoviruses and smacoviruses were the most prevalent across the samples. Interestingly, we also identified 26 bacteriophages that belong to the Microviridae family, whose members are known to infect enterobacteria.

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“…In our study, 1989 viral contigs from this phylum were identified across 9 families in these three WWTPs (Figure S2C ). Cressdnaviricota viruses are known for their diversity and presence in various habitats, including those associated with plants, animals, and humans [ 27 , 28 , 29 ].…”

Section: Resultsmentioning

confidence: 99%

A panoramic view of the virosphere in three wastewater treatment plants by integrating viral‐like particle‐concentrated and traditional non‐concentrated metagenomic approaches

Zhang,

Tang,

Jin

et al. 2024

iMeta

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Wastewater biotreatment systems harbor a rich diversity of microorganisms, and the effectiveness of biotreatment systems largely depends on the activity of these microorganisms. Specifically, viruses play a crucial role in altering microbial behavior and metabolic processes throughout their infection phases, an aspect that has recently attracted considerable interest. Two metagenomic approaches, viral‐like particle‐concentrated (VPC, representing free viral‐like particles) and non‐concentrated (NC, representing the cellular fraction), were employed to assess their efficacy in revealing virome characteristics, including taxonomy, diversity, host interactions, lifestyle, dynamics, and functional genes across processing units of three wastewater treatment plants (WWTPs). Our findings indicate that each approach offers unique insights into the viral community and functional composition. Their combined use proved effective in elucidating WWTP viromes. We identified nearly 50,000 viral contigs, with Cressdnaviricota and Uroviricota being the predominant phyla in the VPC and NC fractions, respectively. Notably, two pathogenic viral families, Asfarviridae and Adenoviridae, were commonly found in these WWTPs. We also observed significant differences in the viromes of WWTPs processing different types of wastewater. Additionally, various phage‐derived auxiliary metabolic genes (AMGs) were active at the RNA level, contributing to the metabolism of the microbial community, particularly in carbon, sulfur, and phosphorus cycling. Moreover, we identified 29 virus‐carried antibiotic resistance genes (ARGs) with potential for host transfer, highlighting the role of viruses in spreading ARGs in the environment. Overall, this study provides a detailed and integrated view of the virosphere in three WWTPs through the application of VPC and NC metagenomic approaches. Our findings enhance the understanding of viral communities, offering valuable insights for optimizing the operation and regulation of wastewater treatment systems.

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Diverse cressdnaviruses and an anellovirus identified in the fecal samples of yellow-bellied marmots

Cited by 12 publications

References 46 publications

First Insights into the Occurrence of Circular Single-Stranded DNA Genomes in Asian and African Cattle

First Insights into the Occurrence of Circular Single-Stranded DNA Genomes in Asian and African Cattle

Diverse Single-Stranded DNA Viruses Identified in Chicken Buccal Swabs

A panoramic view of the virosphere in three wastewater treatment plants by integrating viral‐like particle‐concentrated and traditional non‐concentrated metagenomic approaches

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