XB-ART-44687
Genesis
2012 Mar 01;503:286-99. doi: 10.1002/dvg.22010.
Show Gene links
Show Anatomy links
Identification of novel microRNAs in Xenopus laevis metaphase II arrested eggs.
???displayArticle.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.
???displayArticle.pubmedLink??? 22223599
???displayArticle.pmcLink??? PMC3309558
???displayArticle.link??? Genesis
???displayArticle.grants??? [+]
References [+] :
Abdelmohsen,
miR-519 reduces cell proliferation by lowering RNA-binding protein HuR levels.
2008, Pubmed
Abdelmohsen, miR-519 reduces cell proliferation by lowering RNA-binding protein HuR levels. 2008, Pubmed
Adams, Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing. 2003, Pubmed
Alberio, Differential nuclear remodeling of mammalian somatic cells by Xenopus laevis oocyte and egg cytoplasm. 2005, Pubmed , Xenbase
Altuvia, Clustering and conservation patterns of human microRNAs. 2005, Pubmed
Armisen, Abundant and dynamically expressed miRNAs, piRNAs, and other small RNAs in the vertebrate Xenopus tropicalis. 2009, Pubmed , Xenbase
Baskerville, Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes. 2005, Pubmed
Blow, Preventing re-replication of DNA in a single cell cycle: evidence for a replication licensing factor. 1993, Pubmed , Xenbase
Blow, Initiation of DNA replication in nuclei and purified DNA by a cell-free extract of Xenopus eggs. 1986, Pubmed , Xenbase
Brase, Serum microRNAs as non-invasive biomarkers for cancer. 2010, Pubmed
Byrne, Nuclei of adult mammalian somatic cells are directly reprogrammed to oct-4 stem cell gene expression by amphibian oocytes. 2003, Pubmed , Xenbase
Cardinali, Microrna-221 and microrna-222 modulate differentiation and maturation of skeletal muscle cells. 2009, Pubmed
Chen, Identification of ten serum microRNAs from a genome-wide serum microRNA expression profile as novel noninvasive biomarkers for nonsmall cell lung cancer diagnosis. 2012, Pubmed
Chen, The role of microRNA-1 and microRNA-133 in skeletal muscle proliferation and differentiation. 2006, Pubmed , Xenbase
Cordes, miR-145 and miR-143 regulate smooth muscle cell fate and plasticity. 2009, Pubmed
Cortez, MicroRNA identification in plasma and serum: a new tool to diagnose and monitor diseases. 2009, Pubmed
Dimitrov, Remodeling somatic nuclei in Xenopus laevis egg extracts: molecular mechanisms for the selective release of histones H1 and H1(0) from chromatin and the acquisition of transcriptional competence. 1996, Pubmed , Xenbase
Doench, Specificity of microRNA target selection in translational repression. 2004, Pubmed
Evans, Ancestry influences the fate of duplicated genes millions of years after polyploidization of clawed frogs (Xenopus). 2007, Pubmed , Xenbase
Fernandez-Valverde, Dynamic isomiR regulation in Drosophila development. 2010, Pubmed
Fineberg, MicroRNAs potentiate neural development. 2009, Pubmed
Force, Preservation of duplicate genes by complementary, degenerative mutations. 1999, Pubmed
Grimson, MicroRNA targeting specificity in mammals: determinants beyond seed pairing. 2007, Pubmed
Gurdon, Nuclear reprogramming by xenopus oocytes. 2005, Pubmed , Xenbase
GURDON, Sexually mature individuals of Xenopus laevis from the transplantation of single somatic nuclei. 1958, Pubmed , Xenbase
Hansis, Nuclear reprogramming of human somatic cells by xenopus egg extract requires BRG1. 2004, Pubmed , Xenbase
Hellsten, Accelerated gene evolution and subfunctionalization in the pseudotetraploid frog Xenopus laevis. 2007, Pubmed , Xenbase
Kikyo, Active remodeling of somatic nuclei in egg cytoplasm by the nucleosomal ATPase ISWI. 2000, Pubmed , Xenbase
Kim, Biogenesis of small RNAs in animals. 2009, Pubmed
Kozomara, miRBase: integrating microRNA annotation and deep-sequencing data. 2011, Pubmed
Kroh, Analysis of circulating microRNA biomarkers in plasma and serum using quantitative reverse transcription-PCR (qRT-PCR). 2010, Pubmed
Lawrie, Detection of elevated levels of tumour-associated microRNAs in serum of patients with diffuse large B-cell lymphoma. 2008, Pubmed
Lee, Complexity of the microRNA repertoire revealed by next-generation sequencing. 2010, Pubmed
Liu, The evolution and functional diversification of animal microRNA genes. 2008, Pubmed
Lohka, The germinal vesicle material required for sperm pronuclear formation is located in the soluble fraction of egg cytoplasm. 1983, Pubmed , Xenbase
Lohka, Formation in vitro of sperm pronuclei and mitotic chromosomes induced by amphibian ooplasmic components. 1983, Pubmed , Xenbase
Lohka, Mitotic control by metaphase-promoting factor and cdc proteins. 1989, Pubmed
Lynch, The probability of duplicate gene preservation by subfunctionalization. 2000, Pubmed
Mahn, Circulating microRNAs (miRNA) in serum of patients with prostate cancer. 2011, Pubmed
Mazière, Prediction of microRNA targets. 2007, Pubmed
Michalak, Testis-derived microRNA profiles of African clawed frogs (Xenopus) and their sterile hybrids. 2008, Pubmed , Xenbase
Miyamoto, Reprogramming events of mammalian somatic cells induced by Xenopus laevis egg extracts. 2007, Pubmed , Xenbase
Morin, Sequencing and analysis of 10,967 full-length cDNA clones from Xenopus laevis and Xenopus tropicalis reveals post-tetraploidization transcriptome remodeling. 2006, Pubmed , Xenbase
Morin, Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. 2008, Pubmed
Mortensen, Posttranscriptional activation of gene expression in Xenopus laevis oocytes by microRNA-protein complexes (microRNPs). 2011, Pubmed , Xenbase
Okamura, Endogenous small interfering RNAs in animals. 2008, Pubmed
Olena, Genomic organization of microRNAs. 2010, Pubmed
Otto, The evolution of gene duplicates. 2002, Pubmed
Sémon, Preferential subfunctionalization of slow-evolving genes after allopolyploidization in Xenopus laevis. 2008, Pubmed , Xenbase
Shah, Emerging role of microRNAs in diagnosis and treatment of various diseases including ovarian cancer. 2009, Pubmed
Szittya, High-throughput sequencing of Medicago truncatula short RNAs identifies eight new miRNA families. 2008, Pubmed
Tang, Xenopus microRNA genes are predominantly located within introns and are differentially expressed in adult frog tissues via post-transcriptional regulation. 2008, Pubmed , Xenbase
Tay, MicroRNA-134 modulates the differentiation of mouse embryonic stem cells, where it causes post-transcriptional attenuation of Nanog and LRH1. 2008, Pubmed
Valencia-Sanchez, Control of translation and mRNA degradation by miRNAs and siRNAs. 2006, Pubmed
Walker, Expression of microRNAs during embryonic development of Xenopus tropicalis. 2008, Pubmed , Xenbase
Watanabe, Stage-specific expression of microRNAs during Xenopus development. 2005, Pubmed , Xenbase
Weigel, Current and emerging biomarkers in breast cancer: prognosis and prediction. 2010, Pubmed
Wittmann, Serum microRNAs as powerful cancer biomarkers. 2010, Pubmed
Yanai, Mapping gene expression in two Xenopus species: evolutionary constraints and developmental flexibility. 2011, Pubmed , Xenbase
Yoo, MicroRNA-mediated switching of chromatin-remodelling complexes in neural development. 2009, Pubmed
Yoo, MicroRNA-mediated conversion of human fibroblasts to neurons. 2011, Pubmed
Zen, Circulating microRNAs: a novel class of biomarkers to diagnose and monitor human cancers. 2012, Pubmed