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The genetic diversity of Epstein–Barr virus in the setting of transplantation relative to non‐transplant settings: A feasibility study
Author(s) -
Allen Upton D.,
Hu Pingzhao,
Pereira Sergio L.,
Robinson Joan L.,
Paton Tara A.,
Beyene Joseph,
KhodaiBooran Nasser,
Dipchand Anne,
Hébert Diane,
Ng Vicky,
Nalpathamkalam Thomas,
Read Stanley
Publication year - 2016
Publication title -
pediatric transplantation
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.457
H-Index - 69
eISSN - 1399-3046
pISSN - 1397-3142
DOI - 10.1111/petr.12610
Subject(s) - transplantation , sanger sequencing , genome , dna sequencing , gene , genetic variation , genetic diversity , biology , epstein–barr virus , virus , medicine , virology , reference genome , genetics , population , environmental health
This study examines EBV strains from transplant patients and patients with IM by sequencing major EBV genes. We also used NGS to detect EBV DNA within total genomic DNA , and to evaluate its genetic variation. Sanger sequencing of major EBV genes was used to compare SNV s from samples taken from transplant patients vs. patients with IM . We sequenced EBV DNA from a healthy EBV ‐seropositive individual on a HiSeq 2000 instrument. Data were mapped to the EBV reference genomes ( AG 876 and B95‐8). The number of EBNA 2 SNV s was higher than for EBNA 1 and the other genes sequenced within comparable reference coordinates. For EBNA 2, there was a median of 15 SNV among transplant samples compared with 10 among IM samples (p = 0.036). EBNA 1 showed little variation between samples. For NGS , we identified 640 and 892 variants at an unadjusted p value of 5 × 10 −8 for AG 876 and B95‐8 genomes, respectively. We used complementary sequence strategies to examine EBV genetic diversity and its application to transplantation. The results provide the framework for further characterization of EBV strains and related outcomes after organ transplantation.