Fig. 1

Overview of study workflow. The reproposed library preparation method (SSLR) was indicated with seven steps (detailed information can be found from Fig. S1 and Supplementary file 1). Five different libraries were used to prepare and sequence three artificial bacteriophage mocks containing different proportions of the ssDNA phages (phiX174 and M13mp18) mixed with the dsDNA phages. These phage genome abundance values were calculated based on the quantity of dsDNA and ssDNA phages measured Qubit dsDNA (or ssDNA) HS Assay kit. MA, Mock A with a ratio of ~ 90:10 for dsDNA and ssDNA (Fig. S1E); MB, Mock B with a ratio of ~ 50:50 for dsDNA and ssDNA; MC, Mock C with a ratio of ~ 10:90 for dsDNA and ssDNA. MD, Mock D with a ratio of ~ 90:10 for DNA and RNA; ME, Mock E with a ratio of ~ 50:50 for DNA and RNA; MF, Mock F with a ratio of 10:90 for DNA and RNA (Fig. S1F). MG, Mock G contains the highly modified dsDNA T4 genome (T4) with equal ratio of all genomes; MH, Mock H contains less modified dsDNA T4 genome (T4-c) with equal ratio of all genomes (Fig. S1G)