Abstract
BackgroundMusk deer can produce musk which has high medicinal value and is closely related to human health. Viruses in forest musk deer both threaten the health of forest musk deer and human beings.MethodsUsing viral metagenomics we investigated the virome in 85 faeces samples collected from forest musk deer.ResultsIn this article, eight novel CRESS-DNA viruses were characterized, whole genomes were 2148 nt–3852 nt in length. Phylogenetic analysis indicated that some viral genomes were part of four different groups of CRESS-DNA virus belonging in the unclassified CRESS-DNA virus, Smacoviridae, pCPa-like virus and pPAPh2-like virus. UJSL001 (MN621482), UJSL003 (MN621469) and UJSL017 (MN621476) fall into the branch of unclassified CRESS-DNA virus (CRESSV1–2), UJSL002 (MN621468), UJSL004 (MN621481) and UJSL007 (MN621470) belong to the cluster of Smacoviridae, UJSL005 (MN604398) showing close relationship with pCPa-like (pCRESS4–8) clusters and UJSL006 (MN621480) clustered into the branch of pPAPh2-like (pCRESS9) virus, respectively.ConclusionThe virome in faeces samples of forest musk deer from Chengdu, Sichuan province, China was revealed, which further characterized the diversity of viruses in forest musk deer intestinal tract.
Highlights
Forest musk deer is a national protected animal, mainly distributed in Sichuan province, Guangxi province and other places, China [1, 2]
The results indicated that CRESS-DNA virus accounted for the main part of the total mammalian virus readings, with 4, 775 reads showing sequence similarity to the CRESS-DNA virus, 462 reads related to viruses from Smacoviridae and 473 reads sequence similar to the virus of Circoviridae
BLASTp search in GenBank based on the protein sequence of replication associated protein (Rep) showed UJSL001 shared the highest identity of 48.76% to unclassified circular virus (KY487934.1), UJSL003 shared the highest sequence identity of 44.00% to unclassified ssDNA viruses (MH617688.1), UJSL006 shared the highest sequence identity of 58.86% to an unclassified circular DNA viruses (MK858258.1) and UJSL017 shared the highest identity of 62.54% to unclassified ssDNA viruses (KU043411.1) (Table 2)
Summary
Forest musk deer is a national protected animal, mainly distributed in Sichuan province, Guangxi province and other places, China [1, 2]. The death of forest musk deer occurs mainly in the young musk deer. [9], Smacoviridae [10], Geminiviridae, Nanoviridae and Bacilladnaviridae [11] These are widely found in various environments [12, 13], plant samples [14,15,16,17], dragonflies and damselflies [18,19,20,21], mosquitoes [22], rats [23], bats [24], duck [25], cattle [26], pigs [27, 28], dogs [29], human [30,31,32,33], and turkey [34]. Viruses in forest musk deer both threaten the health of forest musk deer and human beings
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