Recently, deep sequencing techniques using high-throughput sequencers have been used to evaluate virome including novel viruses in clinical samples without viral isolation to determine total genomic information within samples [36, 37]. We previously identified novel viruses infecting the intestinal tracts of livestock using high-throughput sequencers to study enterovirus, picornavirus and astrovirus in the feces of goat, swine and cattle, respectively [38–41].