Identification of discrete classes of small nucleolar RNA featuring different ends and RNA binding protein dependency.
Bottom Line: The results indicate that C/D snoRNAs are expressed as two distinct forms differing in their ends with respect to boxes C and D and in their terminal stem length.Analysis of the potential secondary structure of both forms indicates that the k-turn motif required for binding of NOP58 is less stable in short forms which are thus less likely to mature into a canonical snoRNP.Taken together the data suggest that C/D snoRNAs are divided into at least two groups with distinct maturation and functional preferences.
Affiliation: Département de biochimie, Faculté de médecine et des sciences de la santé, Université de Sherbrooke, Sherbrooke, Québec J1E 4K8, Canada.Show MeSH
Related in: MedlinePlus
Mentions: To be considered in these analyses, snoRNAs had to be represented by at least 10 reads covering at least 77% of the full-length snoRNA as defined in snoRNAbase (28). For analyses considering all reads mapping to full-length snoRNAs regardless of forms (Figures 3A and 4A), the normalized abundance value per snoRNA (one value per snoRNA) as well as per miRNA, per tRNA, per rRNA, per YRNA and per snRNA was calculated using DESeq (55). The fold change following the depletions (Figures 3A and 4A) was calculated as the average normalized abundance value in the two depletion samples divided by the average normalized abundance in the three mock-treated (Lipofectamine) samples.
Affiliation: Département de biochimie, Faculté de médecine et des sciences de la santé, Université de Sherbrooke, Sherbrooke, Québec J1E 4K8, Canada.