Developmental changes of rRNA ribose methylations in the mouse

RNA Biol. 2020 Jan;17(1):150-164. doi: 10.1080/15476286.2019.1670598. Epub 2019 Sep 29.

Abstract

A sequencing-based profiling method (RiboMeth-seq) for ribose methylations was used to study methylation patterns in mouse adult tissues and during development. In contrast to previous reports based on studies of human cancer cell lines, almost all methylation sites were close to fully methylated in adult tissues. A subset of sites was differentially modified in developing tissues compared to their adult counterparts and showed clear developmental dynamics. This provides the first evidence for ribosome heterogeneity at the level of rRNA modifications during mouse development. In a prominent example, the expression levels of SNORD78 during development appeared to be regulated by alternative splicing of the Gas5 host-gene and to correlate with the methylation level of its target site at LSU-G4593. The results are discussed in the context of the specialized ribosome hypothesis.

Keywords: Gas5; Ribose methylation; SNORD78; alternative splicing; mouse development; rRNA; specialized ribosomes.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alternative Splicing
  • Animals
  • Computational Biology / methods
  • Embryonic Development / genetics
  • Gene Expression Profiling
  • Gene Expression Regulation, Developmental*
  • Introns
  • Methylation
  • Mice
  • Organ Specificity / genetics
  • RNA, Ribosomal / genetics*
  • RNA, Ribosomal / metabolism*
  • Ribose / metabolism*

Substances

  • RNA, Ribosomal
  • Ribose

Grant support

The work was supported by the Lundbeck Foundation under grant [R198-2015-174; to HN], the Danish Cancer Society under grant [R167-A10943-17-S2; to NK], and the Agence Nationale de la Recherche under grant [ANR-18-CE12-0008-01; to JC].