PT  - JOURNAL ARTICLE
AU  - Ugo Szachnowski
AU  - Sara Andjus
AU  - Dominika Foretek
AU  - Antonin Morillon
AU  - Maxime Wery
TI  - Endogenous RNAi pathway evolutionarily shapes the destiny of the antisense lncRNAs transcriptome
AID  - 10.26508/lsa.201900407
DP  - 2019 Oct 01
TA  - Life Science Alliance
PG  - e201900407
VI  - 2
IP  - 5
4099  - https://www.life-science-alliance.org/content/2/5/e201900407.short
4100  - https://www.life-science-alliance.org/content/2/5/e201900407.full
SO  - Life Sci. Alliance2019 Oct 01; 2
AB  - Antisense long noncoding (aslnc)RNAs are extensively degraded by the nuclear exosome and the cytoplasmic exoribonuclease Xrn1 in the budding yeast Saccharomyces cerevisiae, lacking RNAi. Whether the ribonuclease III Dicer affects aslncRNAs in close RNAi-capable relatives remains unknown. Using genome-wide RNA profiling, here we show that aslncRNAs are primarily targeted by the exosome and Xrn1 in the RNAi-capable budding yeast Naumovozyma castellii, Dicer only affecting Xrn1-sensitive aslncRNAs levels in Xrn1-deficient cells. The dcr1 and xrn1 mutants display synergic growth defects, indicating that Dicer becomes critical in the absence of Xrn1. Small RNA sequencing showed that Dicer processes aslncRNAs into small RNAs, with a preference for Xrn1-sensitive aslncRNAs. Consistently, Dicer localizes into the cytoplasm. Finally, we observed an expansion of the exosome-sensitive antisense transcriptome in N. castellii compared with S. cerevisiae, suggesting that the presence of cytoplasmic RNAi has reinforced the nuclear RNA surveillance machinery to temper aslncRNAs expression. Our data provide fundamental insights into aslncRNAs metabolism and open perspectives into the possible evolutionary contribution of RNAi in shaping the aslncRNAs transcriptome.