Total RNA was extracted from 0.25-mL supernatants of isolated viruses and 10% fecal samples using TRIzol LS Reagent (Life Technologies, Carlsbad, CA, USA). RNA samples were normalized to 10–100 ng of RNA per reaction, using a Qubit_2.0 Fluorometer (Invitrogen, Carlsbad, CA, USA). The cDNA library of sample RNA was constructed using the NEBNext Ultra RNA Library Prep Kit for Illumina version 2.0 (New England Biolabs, Ipswich, MA, USA) as described previously  and sequenced using MiSeq (Illumina, San Diego, CA, USA) with the MiSeq reagent kit V2 (300 cycles) (Illumina). Briefly, all reads were generated as 151 paired end reads. Each sample was multiplexed with other 23 samples prepared from diarrheal feces of other calves (data not shown). 5′-Full RACE Core Set (TaKaRa Bio, Shiga, Japan) and 3′Full RACE Core Set (TaKaRa Bio) were used to complement virus sequences of the 5′ end and 3′ end, respectively.