Figure 8

Alignment of BLV LTR nucleotide sequences in samples that were positive by BLV-CoCoMo-qPCR but negative by nested PCR. BLV LTR sequences from 9 BLV-infected cattle were amplified by PCR using three primer pairs, BLTR56F and CoCoMo81, BLTR134F and BLTR544R, and CoCoMo6 and CoCoMo81, followed by sequencing of the PCR products. Closed arrows indicate the position, orientation and length of these primers. The LTR sequences at nucleotide positions 74-283 and 154-526 from YA40, MO85 and YA35 were amplified using two primer pairs BLTR56F and CoCoMo81, and BLTR134F and BLTR544R, respectively. The LTR sequence at nucleotide positions 74-283 from YA56 was amplified by primer pair BLTR56F and CoCoMo81. The LTR sequences at nucleotide positions 166-283 from HY2, Ns27, ME10 and C336 were amplified by the primer pair CoCoMo6 and CoCoMo81. The LTR sequence at nucleotide positions 154-526 from Ns29 was amplified by primer pair BLTR134F and BLTR544R. Open arrows indicate the position, orientation and length of first primer pair, BLTR-YR and BLTRR, and the second primer pair, BLTR256 and BLTR453, for nested PCR. The numbers at the top of the sequences indicate the terminal bases according to the nucleotide sequence of the FLK-BLV subclone pBLV913 [DDBJ: EF600696]. Conserved sequences are indicated by a dot (.), deletions are indicated by a hyphen (-). A lack of sequence information is indicated by the symbol (*).