Author:
Kakuk Balázs,Tombácz Dóra,Balázs Zsolt,Moldován Norbert,Csabai Zsolt,Torma Gábor,Megyeri Klára,Snyder Michael,Boldogkői Zsolt
Abstract
AbstractLong-read sequencing (LRS), a powerful novel approach, is able to read full-length transcripts and confers a major advantage over the earlier gold standard short-read sequencing in the efficiency of identifying for example polycistronic transcripts and transcript isoforms, including transcript length- and splice variants. In this work, we profile the human cytomegalovirus transcriptome using two third-generation LRS platforms: the Sequel from Pacific BioSciences, and MinION from Oxford Nanopore Technologies. We carried out both cDNA and direct RNA sequencing, and applied the LoRTIA software, developed in our laboratory, for the transcript annotations. This study identified a large number of novel transcript variants, including splice isoforms and transcript start and end site isoforms, as well as putative mRNAs with truncated in-frame ORFs (located within the larger ORFs of the canonical mRNAs), which potentially encode N-terminally truncated polypeptides. Our work also disclosed a highly complex meshwork of transcriptional read-throughs and overlaps.
Funder
National Research, Development and Innovation Office
Magyar Tudományos Akadémia
NIH Centers of Excellence in Genomic Science Center for Personal Dynamic Regulomes
University of Szeged Open Access Fund
Publisher
Springer Science and Business Media LLC
Cited by
8 articles.
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