title: rG4-seq reveals widespread formation of G-quadruplex structures in the human transcriptome.
abstract: We introduce RNA G-quadruplex sequencing (rG4-seq), a transcriptome-wide RNA G-quadruplex (rG4) profiling method that couples rG4-mediated reverse transcriptase stalling with next-generation sequencing. Using rG4-seq on polyadenylated-enriched HeLa RNA, we generated a global in vitro map of thousands of canonical and noncanonical rG4 structures. We characterize rG4 formation relative to cytosine content and alternative RNA structure stability, uncover rG4-dependent differences in RNA folding and show evolutionarily conserved enrichment in transcripts mediating RNA processing and stability.
authors: Department of Chemistry, University of Cambridge, Cambridge, UK.|Cancer Research UK, Cambridge Institute, Cambridge, UK.
authors: Chun Kit
authors: CK
authors: Kwok
authors: Department of Chemistry, University of Cambridge, Cambridge, UK.|Cancer Research UK, Cambridge Institute, Cambridge, UK.
authors: Giovanni
authors: G
authors: Marsico
authors: Department of Chemistry, University of Cambridge, Cambridge, UK.|Cancer Research UK, Cambridge Institute, Cambridge, UK.
authors: Aleksandr B
authors: 0000-0002-8343-3594
authors: AB
authors: Sahakyan
authors: Department of Chemistry, University of Cambridge, Cambridge, UK.|Cancer Research UK, Cambridge Institute, Cambridge, UK.
authors: Vicki S
authors: 0000-0003-3339-1813
authors: VS
authors: Chambers
authors: Department of Chemistry, University of Cambridge, Cambridge, UK.|Cancer Research UK, Cambridge Institute, Cambridge, UK.
authors: Shankar
authors: S
authors: Balasubramanian
mesh_terms: D003596:Cytosine / Q000378:metabolism; D054856:G-Quadruplexes; D006147:Guanine / Q000378:metabolism; D006367:HeLa Cells; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D006801:Humans; D020871:RNA Stability; D012333:RNA, Messenger / Q000235:genetics* / Q000378:metabolism; D017423:Sequence Analysis, RNA / Q000379:methods*; D059467:Transcriptome / Q000235:genetics*
chemical_list: D012333:RNA, Messenger; D006147:Guanine; D003596:Cytosine