PUBLICATION

Identifying small RNAs derived from maternal- and somatic-type rRNAs in Zebrafish Development

Authors
Locati, M.D., Pagano, J.F.B., Abdullah, F., Ensink, W.A., van Olst, M., van Leeuwen, S., Nehrdich, U., Spaink, H.P., Rauwerda, H., Jonker, M.J., Dekker, R.J., Breit, T.
ID
ZDB-PUB-180210-8
Date
2018
Source
Genome   61(5): 371-378 (Journal)
Registered Authors
Spaink, Herman P.
Keywords
none
MeSH Terms
  • Animals
  • Argonaute Proteins/genetics*
  • Argonaute Proteins/metabolism
  • Base Sequence
  • Embryo, Nonmammalian/metabolism
  • Embryonic Development/genetics
  • Gene Expression Regulation, Developmental
  • High-Throughput Nucleotide Sequencing
  • Nucleic Acid Conformation
  • Protein Binding
  • RNA, Ribosomal, 18S/genetics*
  • RNA, Ribosomal, 18S/metabolism
  • RNA, Ribosomal, 28S/genetics*
  • RNA, Ribosomal, 28S/metabolism
  • RNA, Ribosomal, 5.8S/genetics*
  • RNA, Ribosomal, 5.8S/metabolism
  • RNA, Small Untranslated/genetics*
  • RNA, Small Untranslated/metabolism
  • Zebrafish/genetics*
  • Zebrafish/growth & development
  • Zebrafish/metabolism
  • Zygote/growth & development
  • Zygote/metabolism
PubMed
29425468 Full text @ Genome
Abstract
rRNAs are non-coding RNAs present in all prokaryotes and eukaryotes. In eukaryotes there are four rRNAs: 18S, 5.8S, 28S, originating from a common precursor (45S), and 5S. We have recently discovered the existence of two distinct developmental types of rRNA: a maternal-type, present in eggs and a somatic-type, expressed in adult tissues. Lately, next-generation sequencing has allowed the discovery of new small-RNAs deriving from longer non-coding RNAs, including small-RNAs from rRNAs (srRNAs). Here, we systemically investigated srRNAs of maternal- or somatic-type 18S, 5.8S, 28S, with small-RNAseq from many zebrafish developmental stages. We identified new srRNAs for each rRNA. For 5.8S, we found srRNA consisting of the 5' or 3' halves, with only the latter having different sequence for the maternal- and somatic-types. For 18S, we discovered 21nt srRNA from the 5' end of the 18S rRNA with a striking resemblance to microRNAs; as it is likely processed from a stem-loop precursor and present in human and mouse Argonaute-complexed small-RNA. For 28S, an abundant 80nt srRNA from the 3' end of the 28S rRNA was found. The expression levels during embryogenesis of these srRNA indicate they are not generated from rRNA degradation and might have a role in the zebrafish development.
Genes / Markers
Figures
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Antibodies
Orthology
Engineered Foreign Genes
Mapping