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. 2012 Mar;50(3):286-99.
doi: 10.1002/dvg.22010. Epub 2012 Feb 16.

Identification of novel microRNAs in Xenopus laevis metaphase II arrested eggs

Sakthikumar Ambady  1 , Zheyang Wu, Tanja Dominko
Affiliations

Identification of novel microRNAs in Xenopus laevis metaphase II arrested eggs

Sakthikumar Ambady et al. Genesis. 2012 Mar.

Abstract

Using a combination of deep sequencing and bioinformatics approach, we for the first time identify miRNAs and their relative abundance in mature, metaphase II arrested eggs in Xenopus laevis. We characterize 115 miRNAs that have been described either in Xenopus tropicalis (85), X. laevis (9), or other vertebrate species (21) that also map to known Xenopus pre-miRNAs and to the X. tropicalis genome. In addition, 72 new X. laevis putative candidate miRNAs are identified based on mapping to X. tropicalis genome within regions that have the propensity to form hairpin loops. These data expand on the availability of genetic information in X. laevis and identify target miRNAs for future functional studies.

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Conflict of interest statement

The authors have no conflict of interest to declare.

Figures

Figure 1
Figure 1
Data analysis flowchart
Figure 2
Figure 2
Criteria used to group miRNAs identified in X. laevis metaphase II arrested eggs
Figure 3
Figure 3
Length distribution of sequencing reads between 15 and 25 nucleotides
See this image and copyright information in PMC

References

    1. Abdelmohsen K, Srikantan S, Kuwano Y, Gorospe M. miR-519 reduces cell proliferation by lowering RNA-binding protein HuR levels. Proc Natl Acad Sci U S A. 2008;105:20297–20302. - PMC - PubMed
    1. Adams KL, Cronn R, Percifield R, Wendel JF. Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing. Proc Natl Acad Sci U S A. 2003;100:4649–4654. - PMC - PubMed
    1. Alberio R, Johnson AD, Stick R, Campbell KH. Differential nuclear remodeling of mammalian somatic cells by Xenopus laevis oocyte and egg cytoplasm. Exp Cell Res. 2005;307:131–141. - PubMed
    1. Altuvia Y, Landgraf P, Lithwick G, Elefant N, Pfeffer S, Aravin A, Brownstein MJ, Tuschl T, Margalit H. Clustering and conservation patterns of human microRNAs. Nucleic Acids Res. 2005;33:2697–2706. - PMC - PubMed
    1. Armisen J, Gilchrist MJ, Wilczynska A, Standart N, Miska EA. Abundant and dynamically expressed miRNAs, piRNAs, and other small RNAs in the vertebrate Xenopus tropicalis. Genome Res. 2009;19:1766–1775. - PMC - PubMed

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