Fig. 6

SoSGV defective DNAs contain host sequences. a Schematic representation of the SoSGV genome structure. b PCR products of amplified SoSGV genomic DNAs separated in agarose gel electrophoresis. The PCR is performed using back-to-back primers (#2914 and #2915), as shown in panel a. The PCR products of two samples from Shanxi province are shown. c An identity histogram of the aligned 75 defective DNA obtained from sanger sequencing of the cloned gel-isolated PCR products. The non-SoSGV sequences were found between the C1 and the LIR coding sequences. Primers #3059 and #3058 were used to amplify the non-SoSGV sequence-containing region for high-throughput sequencing. d A pie chart showing the numbers of unique sequences matching sequences of different plant species based on high-throughput sequencing. Stay-green soybean samples from Anhui, Shanxi, and Beijing were subjected to high-throughput sequencing of the non-SoSGV sequence. e A DNA fragment from wild soybean inserted in the SoSGV defective DNA clone seq47 is shown as an example. The sequences shown in grey and dark red colors are from viral LIR and C1 coding regions, respectively. The underlined sequence is the insert sequence that hits wild soybean in the BLSAT