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Genome Res
2008 Jan 01;181:104-12. doi: 10.1101/gr.6539108.
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Xenopus microRNA genes are predominantly located within introns and are differentially expressed in adult frog tissues via post-transcriptional regulation.
Tang GQ, Maxwell ES.
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The amphibian Xenopus provides a model organism for investigating microRNA expression during vertebrate embryogenesis and development. Searching available Xenopus genome databases using known human pre-miRNAs as query sequences, more than 300 genes encoding 142 Xenopus tropicalis miRNAs were identified. Analysis of Xenopus tropicalis miRNA genes revealed a predominate positioning within introns of protein-coding and nonprotein-coding RNA Pol II-transcribed genes. MiRNA genes were also located in pre-mRNA exons and positioned intergenically between known protein-coding genes. Many miRNA species were found in multiple locations and in more than one genomic context. MiRNA genes were also clustered throughout the genome, indicating the potential for the cotranscription and coordinate expression of miRNAs located in a given cluster. Northern blot analysis confirmed the expression of many identified miRNAs in both X. tropicalis and X. laevis. Comparison of X. tropicalis and X. laevis blots revealed comparable expression profiles, although several miRNAs exhibited species-specific expression in different tissues. More detailed analysis revealed that for some miRNAs, the tissue-specific expression profile of the pri-miRNA precursor was distinctly different from that of the mature miRNA profile. Differential miRNA precursor processing in both the nucleus and cytoplasm was implicated in the observed tissue-specific differences. These observations indicated that post-transcriptional processing plays an important role in regulating miRNA expression in the amphibian Xenopus.
Altuvia,
Clustering and conservation patterns of human microRNAs.
2005, Pubmed
Altuvia,
Clustering and conservation patterns of human microRNAs.
2005,
Pubmed Ambros,
A uniform system for microRNA annotation.
2003,
Pubmed Ason,
Differences in vertebrate microRNA expression.
2006,
Pubmed Bartel,
MicroRNAs: genomics, biogenesis, mechanism, and function.
2004,
Pubmed Baskerville,
Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes.
2005,
Pubmed Bentwich,
Prediction and validation of microRNAs and their targets.
2005,
Pubmed Berezikov,
Approaches to microRNA discovery.
2006,
Pubmed Bilen,
A new role for microRNA pathways: modulation of degeneration induced by pathogenic human disease proteins.
2006,
Pubmed Bonnet,
Detection of 91 potential conserved plant microRNAs in Arabidopsis thaliana and Oryza sativa identifies important target genes.
2004,
Pubmed Borchert,
RNA polymerase III transcribes human microRNAs.
2006,
Pubmed Cai,
Human microRNAs are processed from capped, polyadenylated transcripts that can also function as mRNAs.
2004,
Pubmed Carrington,
Role of microRNAs in plant and animal development.
2003,
Pubmed Chen,
The evolution of gene regulation by transcription factors and microRNAs.
2007,
Pubmed Griffiths-Jones,
miRBase: microRNA sequences, targets and gene nomenclature.
2006,
Pubmed He,
A microRNA polycistron as a potential human oncogene.
2005,
Pubmed John,
Human MicroRNA targets.
2004,
Pubmed Kim,
Genomics of microRNA.
2006,
Pubmed Klein,
Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative.
2002,
Pubmed
,
Xenbase Kloosterman,
The diverse functions of microRNAs in animal development and disease.
2006,
Pubmed Lagos-Quintana,
Identification of novel genes coding for small expressed RNAs.
2001,
Pubmed Lai,
Computational identification of Drosophila microRNA genes.
2003,
Pubmed Lau,
An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans.
2001,
Pubmed Lee,
MicroRNA genes are transcribed by RNA polymerase II.
2004,
Pubmed Lewis,
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets.
2005,
Pubmed Li,
Bioinformatic discovery of microRNA precursors from human ESTs and introns.
2006,
Pubmed Lim,
Vertebrate microRNA genes.
2003,
Pubmed Lim,
The microRNAs of Caenorhabditis elegans.
2003,
Pubmed Lu,
Novel and mechanical stress-responsive MicroRNAs in Populus trichocarpa that are absent from Arabidopsis.
2005,
Pubmed Lund,
Nuclear export of microRNA precursors.
2004,
Pubmed
,
Xenbase Mott,
EST_GENOME: a program to align spliced DNA sequences to unspliced genomic DNA.
1997,
Pubmed Obernosterer,
Post-transcriptional regulation of microRNA expression.
2006,
Pubmed Pasquinelli,
Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA.
2000,
Pubmed Rajewsky,
microRNA target predictions in animals.
2006,
Pubmed Rodriguez,
Identification of mammalian microRNA host genes and transcription units.
2004,
Pubmed Samols,
Cloning and identification of a microRNA cluster within the latency-associated region of Kaposi's sarcoma-associated herpesvirus.
2005,
Pubmed Seitz,
Rethinking the microprocessor.
2006,
Pubmed Smalheiser,
EST analyses predict the existence of a population of chimeric microRNA precursor-mRNA transcripts expressed in normal human and mouse tissues.
2003,
Pubmed Sood,
Cell-type-specific signatures of microRNAs on target mRNA expression.
2006,
Pubmed Tang,
siRNA and miRNA: an insight into RISCs.
2005,
Pubmed Thomson,
Extensive post-transcriptional regulation of microRNAs and its implications for cancer.
2006,
Pubmed Valencia-Sanchez,
Control of translation and mRNA degradation by miRNAs and siRNAs.
2006,
Pubmed van Rooij,
A signature pattern of stress-responsive microRNAs that can evoke cardiac hypertrophy and heart failure.
2006,
Pubmed Watanabe,
Stage-specific expression of microRNAs during Xenopus development.
2005,
Pubmed
,
Xenbase Weber,
New human and mouse microRNA genes found by homology search.
2005,
Pubmed Ying,
Current perspectives in intronic micro RNAs (miRNAs).
2006,
Pubmed Zeng,
Recognition and cleavage of primary microRNA precursors by the nuclear processing enzyme Drosha.
2005,
Pubmed Zuker,
Mfold web server for nucleic acid folding and hybridization prediction.
2003,
Pubmed
