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2015 ; 6
(34
): 35726-36
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gab.com Text
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Detection of canonical A-to-G editing events at 3 UTRs and microRNA target sites
in human lungs using next-generation sequencing
#MMPMID26486088
Soundararajan R
; Stearns TM
; Griswold AL
; Mehta A
; Czachor A
; Fukumoto J
; Lockey RF
; King BL
; Kolliputi N
Oncotarget
2015[Nov]; 6
(34
): 35726-36
PMID26486088
show ga
RNA editing is a post-transcriptional modification of RNA. The majority of these
changes result from adenosine deaminase acting on RNA (ADARs) catalyzing the
conversion of adenosine residues to inosine in double-stranded RNAs (dsRNAs).
Massively parallel sequencing has enabled the identification of RNA editing sites
in human transcriptomes. In this study, we sequenced DNA and RNA from human lungs
and identified RNA editing sites with high confidence via a computational
pipeline utilizing stringent analysis thresholds. We identified a total of 3,447
editing sites that overlapped in three human lung samples, and with 50% of these
sites having canonical A-to-G base changes. Approximately 27% of the edited sites
overlapped with Alu repeats, and showed A-to-G clustering (>3 clusters in 100
bp). The majority of edited sites mapped to either 3' untranslated regions (UTRs)
or introns close to splice sites; whereas, only few sites were in exons resulting
in non-synonymous amino acid changes. Interestingly, we identified 652 A-to-G
editing events in the 3' UTR of 205 target genes that mapped to 932 potential
miRNA target binding sites. Several of these miRNA edited sites were validated in
silico. Additionally, we validated several A-to-G edited sites by Sanger
sequencing. Altogether, our study suggests a role for RNA editing in
miRNA-mediated gene regulation and splicing in human lungs. In this study, we
have generated a RNA editome of human lung tissue that can be compared with other
RNA editomes across different lung tissues to delineate a role for RNA editing in
normal and diseased states.