title: EBV Latent Membrane Protein 1 genetic variability in peripheral blood B cells and oropharyngeal fluids
design: Amplification of EBV genomic DNA.  Overlapping PCR reactions were performed using primer pairs that were designed specifically to optimize amplification of EBV LMP1 [165342F (5’-ACGGCAACTACCTGTGCCGC-3’) and 167810R (5’-ATGGCGGCGGTGATCCACAC-3’) for Reaction A; and 166820F (5’-TGG TCTACCCGGTCGCATGG-3’) and 169603R (5’-ACACTCGCACAGCCCACACC-3’) for Reaction B].  These primers were also used to amplify the identical region of the Type I strain of EBV, B95-8, from a previously described BAC construct(8) (kindly provided by Dr. Fred Wang).  Library construction and Illumina sequencing. The amplicon DNA was processed for analysis by Illumina sequencing as described previously(48). Ends of the Bioruptor-fragmented DNA segments were repaired (Epicentre end repair kit), adapters with appropriate barcodes ligated, a library with a median size of 300bp  /- 50bp was produced.  The library was amplified with Illumina paired end primers and then sequenced (UMMS Deep Sequencing Core).    ACCESSION NUMBER INFO: SRR1054768 = E1347_BC   Barcode Info  BC.AIM = CAT  BC.CONV = CTT;;    SRR1054770 = E1347_OW  Barcode Info  OW.AIM = GAT  BC.CONV = GTT