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. 2020 Jul 13;16(7):e1008611. doi: 10.1371/journal.pgen.1008611

Fig 7. Transposable element sRNAs exhibit typical characteristics of the canonical RNAi pathway biogenesis.

Fig 7

(A) Representative diagram of sRNA production in the canonical and NCRI pathways. The canonical pathway is represented in two loci: Grem-LINE1, and a Serine/Threonine kinase (JGI Muccir1_3 ID: 1455000) [17]. NCRIP is exemplified by an Alkaline phosphatase (JGI Muccir1_3 ID: 1469159) [10]. Sense (positive values) and antisense (negative values) sRNAs accumulation is shown; sRNA values are normalized to bins per million (BPM) mapped reads. Grem-LINE1 open reading frames (ORF1 and ORF2 as green and red arrows, respectively) and protein domains predicted from its coding sequence are shown as colored blocks (zf-RVT, zinc-binding in reverse transcriptase [PF13966]; RVT, reverse transcriptase [PF00078]; AP, AP endonuclease [PTHR22748]; and ZF, zinc finger [PF00098 and PF16588]). (B) Sequence analysis of sRNAs mapping to the three loci shown in (A), produced in a wild-type, dcl1Δ/dcl2Δ, and r3b2Δ mutant strains. Each sequence analysis depicts a probability logo (showing the first and last five nucleotides) and a size distribution bar plot.