Phylogenetic comparison and splice site conservation of eukaryotic U1 snRNP-specific U1-70K gene family

Sci Rep. 2021 Jun 17;11(1):12760. doi: 10.1038/s41598-021-91693-3.

Abstract

Eukaryotic cells can expand their coding ability by using their splicing machinery, spliceosome, to process precursor mRNA (pre-mRNA) into mature messenger RNA. The mega-macromolecular spliceosome contains multiple subcomplexes, referred to as small nuclear ribonucleoproteins (snRNPs). Among these, U1 snRNP and its central component, U1-70K, are crucial for splice site recognition during early spliceosome assembly. The human U1-70K has been linked to several types of human autoimmune and neurodegenerative diseases. However, its phylogenetic relationship has been seldom reported. To this end, we carried out a systemic analysis of 95 animal U1-70K genes and compare these proteins to their yeast and plant counterparts. Analysis of their gene and protein structures, expression patterns and splicing conservation suggest that animal U1-70Ks are conserved in their molecular function, and may play essential role in cancers and juvenile development. In particular, animal U1-70Ks display unique characteristics of single copy number and a splicing isoform with truncated C-terminal, suggesting the specific role of these U1-70Ks in animal kingdom. In summary, our results provide phylogenetic overview of U1-70K gene family in vertebrates. In silico analyses conducted in this work will act as a reference for future functional studies of this crucial U1 splicing factor in animal kingdom.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Animals
  • Eukaryota / genetics
  • Gene Expression Profiling
  • Humans
  • Phylogeny*
  • Protein Binding
  • Protein Domains
  • RNA Splicing Factors / genetics
  • RNA Splicing Factors / metabolism
  • RNA, Messenger / metabolism
  • Ribonucleoprotein, U1 Small Nuclear / chemistry
  • Ribonucleoprotein, U1 Small Nuclear / genetics*
  • Ribonucleoprotein, U1 Small Nuclear / metabolism
  • Sequence Homology, Amino Acid

Substances

  • RNA Splicing Factors
  • RNA, Messenger
  • Ribonucleoprotein, U1 Small Nuclear