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Lariat intronic RNAs in the cytoplasm of Xenopus tropicalis oocytes.
Talhouarne GJ
,
Gall JG
.
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We previously demonstrated that the oocytenucleus (germinal vesicle or GV) of Xenopus tropicalis contains a population of stable RNA molecules derived from the introns of most expressed genes. Here we show that similar stable intronic sequence (sis) RNAs occur in the oocytecytoplasm. About 9000 cytoplasmic sisRNAs have been identified, all of which are resistant to the exonuclease RNase R. About half have been confirmed as lariat molecules and the rest are presumed to be lariats, whereas nuclear sisRNAs are a mixture of lariat and linear molecules. Cytoplasmic sisRNAs are more abundant on a molar basis than nuclear sisRNAs and are derived from short introns, mostly under 1 kb in length. Both nuclear and cytoplasmic sisRNAs are transmitted intact to the egg at GV breakdown and persist until at least the blastula stage of embryogenesis, when zygotic transcription begins. We compared cytoplasmic sisRNAs derived from orthologous genes of X. tropicalis and X. laevis, and found that the specific introns from which sisRNAs are derived are not conserved. The existence of sisRNAs in the cytoplasm of the oocyte, their transmission to the fertilized egg, and their persistence during early embryogenesis suggest that they might play a regulatory role in mRNA translation.
Acinas,
PCR-induced sequence artifacts and bias: insights from comparison of two 16S rRNA clone libraries constructed from the same sample.
2005, Pubmed
Acinas,
PCR-induced sequence artifacts and bias: insights from comparison of two 16S rRNA clone libraries constructed from the same sample.
2005,
Pubmed
Armakola,
Inhibition of RNA lariat debranching enzyme suppresses TDP-43 toxicity in ALS disease models.
2012,
Pubmed
Buckley,
Cytoplasmic intron retention, function, splicing, and the sentinel RNA hypothesis.
2014,
Pubmed
Chapman,
Isolation and characterization of the gene encoding yeast debranching enzyme.
1991,
Pubmed
Cheng,
Purification and characterization of the Escherichia coli exoribonuclease RNase R. Comparison with RNase II.
2002,
Pubmed
Cheng,
An important role for RNase R in mRNA decay.
2005,
Pubmed
Clement,
Localization and stability of introns spliced from the Pem homeobox gene.
2001,
Pubmed
Clement,
The stability and fate of a spliced intron from vertebrate cells.
1999,
Pubmed
Curtis,
Mirtrons, an emerging class of atypical miRNA.
2012,
Pubmed
Denis,
Escaping the nuclear confines: signal-dependent pre-mRNA splicing in anucleate platelets.
2005,
Pubmed
Deryusheva,
Dynamics of coilin in Cajal bodies of the Xenopus germinal vesicle.
2004,
Pubmed
,
Xenbase
Friend,
Minor-class splicing occurs in the nucleus of the Xenopus oocyte.
2008,
Pubmed
,
Xenbase
Gall,
Examining the contents of isolated Xenopus germinal vesicles.
2010,
Pubmed
,
Xenbase
Gao,
Human branch point consensus sequence is yUnAy.
2008,
Pubmed
Gardner,
Stable intronic sequence RNA (sisRNA), a new class of noncoding RNA from the oocyte nucleus of Xenopus tropicalis.
2012,
Pubmed
,
Xenbase
Hellsten,
The genome of the Western clawed frog Xenopus tropicalis.
2010,
Pubmed
,
Xenbase
Hilleren,
Cytoplasmic degradation of splice-defective pre-mRNAs and intermediates.
2003,
Pubmed
Hoskins,
The spliceosome: a flexible, reversible macromolecular machine.
2012,
Pubmed
Jeck,
Circular RNAs are abundant, conserved, and associated with ALU repeats.
2013,
Pubmed
Kent,
Herpes simplex virus latency-associated transcript gene function.
2003,
Pubmed
Khaladkar,
Subcellular RNA sequencing reveals broad presence of cytoplasmic intron-sequence retaining transcripts in mouse and rat neurons.
2013,
Pubmed
Krylov,
Preparation of Xenopus tropicalis whole chromosome painting probes using laser microdissection and reconstruction of X. laevis tetraploid karyotype by Zoo-FISH.
2010,
Pubmed
,
Xenbase
Kulesza,
Murine cytomegalovirus encodes a stable intron that facilitates persistent replication in the mouse.
2006,
Pubmed
Langmead,
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome.
2009,
Pubmed
Moon,
Pre-mRNA splicing in the nuclei of Xenopus oocytes.
2006,
Pubmed
,
Xenbase
Méreau,
Xenopus as a model to study alternative splicing in vivo.
2007,
Pubmed
,
Xenbase
Ooi,
RNA lariat debranching enzyme.
2001,
Pubmed
Paine,
The oocyte nucleus isolated in oil retains in vivo structure and functions.
1992,
Pubmed
,
Xenbase
Quinlan,
BEDTools: a flexible suite of utilities for comparing genomic features.
2010,
Pubmed
Rearick,
Critical association of ncRNA with introns.
2011,
Pubmed
Richter,
Translational control in oocyte development.
2011,
Pubmed
,
Xenbase
Richter,
CPEB: a life in translation.
2007,
Pubmed
,
Xenbase
Robinson,
Integrative genomics viewer.
2011,
Pubmed
Rondina,
The septic milieu triggers expression of spliced tissue factor mRNA in human platelets.
2011,
Pubmed
Ruskin,
An RNA processing activity that debranches RNA lariats.
1985,
Pubmed
Rødahl,
Analysis of the 2-kilobase latency-associated transcript expressed in PC12 cells productively infected with herpes simplex virus type 1: evidence for a stable, nonlinear structure.
1997,
Pubmed
Schwertz,
Signal-dependent splicing of tissue factor pre-mRNA modulates the thrombogenicity of human platelets.
2006,
Pubmed
Simeoni,
Widespread transcription in an amphibian oocyte relates to its reprogramming activity on transplanted somatic nuclei.
2012,
Pubmed
,
Xenbase
Taggart,
Large-scale mapping of branchpoints in human pre-mRNA transcripts in vivo.
2012,
Pubmed
Trapnell,
TopHat: discovering splice junctions with RNA-Seq.
2009,
Pubmed
Trapnell,
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation.
2010,
Pubmed
Ulitsky,
lincRNAs: genomics, evolution, and mechanisms.
2013,
Pubmed
Wallace,
Protein incorporation by isolated amphibian oocytes. 3. Optimum incubation conditions.
1973,
Pubmed
,
Xenbase
Wang,
The frequency of chimeric molecules as a consequence of PCR co-amplification of 16S rRNA genes from different bacterial species.
1996,
Pubmed
Wu,
Evidence that two latency-associated transcripts of herpes simplex virus type 1 are nonlinear.
1996,
Pubmed
Yin,
Long noncoding RNAs with snoRNA ends.
2012,
Pubmed
Yu,
Internal modification of U2 small nuclear (sn)RNA occurs in nucleoli of Xenopus oocytes.
2001,
Pubmed
,
Xenbase
Zhang,
Circular intronic long noncoding RNAs.
2013,
Pubmed
van Heesch,
Extensive localization of long noncoding RNAs to the cytosol and mono- and polyribosomal complexes.
2014,
Pubmed
