1,721,021 research outputs found
Effect of Charme lncRNA knockout (KO) in cardiac development [RNA-seq]
No full textTo investigate the role of the lncRNA Charme in cardiac differentiation and physiology, total RNA was collected from CharmeWT and CharmeKO hearts RNA-seq analysis was performed on CharmeWT and CharmeKO postnatal heart
Divergent lncRNAs take the lead on pluripotent cell differentiation
Full text link[No abstract available
Identification of MATR3 RNA-interactors in WT and Charme KO condtion during cardiac development [CLIP-seq]
No full textMATR3 CLIP-seq analysis on embryonal (E15) murine hearts was performed to identify the protein RNA-interactors during murine cardiac development and to characterize the differential binding of the protein in conditon of KO of the lncRNA Charme
The Xenopus laevis beta TrCP gene: genomic organization, alternative splicing, 5' and 3' region characterization and comparison of its structure with that of human beta TrCP genes.
No full texthTrCP plays a relevant role in the control of stability of several key protein factors. In Xenopus, hTrCP acts as an inhibitor of Wnt
signaling and dorsal axis formation. We determined the primary structure of the frog hTrCP gene, which consists of 14 exons and 13 introns,
spanning over 34 kb. Isoforms of x-hTrCP have been found, which show differences in the NH2 and COOH regions. NH2 isoforms differ for
the presence or absence of a 30 aa sequence, coded by exon III. In COOH isoforms, 19 C-terminal amino acids are replaced by three different
amino acids. Occurrence of two 5V splice donor sites for splicing of intron XIII provides an explanation for these isoforms, based on
alternative splicing. The DNA region of the putative hTrCP promoter contains several TATA elements, one GCCAAT box, and putative
binding sites for Ets, Tcf/Lef and NF-nB transcription factors. Two transcription initiation sites have been mapped downstream of TATA
boxes proximal to ATG for start of translation. Comparison of the Xenopus and human hTrCP genes indicates high conservation of exon
nucleotide and amino acid sequences, size and organization; differences are limited to exons coding for N- and C-terminal regions
Long Noncoding RNA Regulation of Pluripotency
Full text linkPluripotent stem cells (PSCs) represent a unique kind of stem cell, as they are able to indefinitely self-renew and hold the potential to differentiate into any derivative of the three germ layers. As such, human Embryonic Stem Cells (hESCs) and human induced Pluripotent Stem Cells (hiPSCs) provide a unique opportunity for studying the earliest steps of human embryogenesis and, at the same time, are of great therapeutic interest. The molecular mechanisms underlying pluripotency represent a major field of research. Recent evidence suggests that a complex network of transcription factors, chromatin regulators, and noncoding RNAs exist in pluripotent cells to regulate the balance between self-renewal and multilineage differentiation. Regulatory noncoding RNAs come in two flavors: short and long. The first class includes microRNAs (miRNAs), which are involved in the posttranscriptional regulation of cell cycle and differentiation in PSCs. Instead, long noncoding RNAs (lncRNAs) represent a heterogeneous group of long transcripts that regulate gene expression at transcriptional and posttranscriptional levels. In this review, we focus on the role played by lncRNAs in the maintenance of pluripotency, emphasizing the interplay between lncRNAs and other pivotal regulators in PSCs
The Noncoding side of cardiac differentiation and regeneration
Full text linkLarge scale projects such as FANTOM and ENCODE, led to a revolution in our comprehension of the mammalian transcriptomes by revealing that ~53% of the produced RNAs do not encode for proteins. These transcripts, defined as noncoding RNAs (ncRNAs), constitute a heterogeneous group of molecules which can be categorized in two main classes, namely small and long, according to their length. In animals, the first class includes Piwi-interacting RNAs (piRNAs), small interfering RNAs (siRNAs) and microRNAs (miRNAs). Among them, the best characterized subgroup is represented by miRNAs, which are known to regulate gene expression largely at the post-transcriptional level. In contrast, long noncoding RNAs (lncRNAs) represent a more heterogeneous group of > 200 nucleotides long transcripts, that act through a variety of mechanisms at both transcriptional and post-transcriptional level. Here we discuss how miRNAs and lncRNAs are emerging as pivotal regulators of cardiac muscle development and how the alteration of ncRNA expression was seen to disturb the physiology of all the different cell types forming the cardiac tissue. Particular emphasis is given to those species that are expressed and are known to regulate the capacity of cardiac progenitor cells (CPCs), currently used in regenerative medicine protocols, to proliferate and differentiate. Understanding how the ncRNA-mediated circuitries regulate heart homeostasis is one of the research areas expected to have a high impact, improving the therapeutic efficacy of stem/progenitor-cells treatments for translation into clinical applications
Novel RNAs during in vitro myogenesis: a lncRNA overlapped to miR-31 controls the timing of murine myoblast differentiation
No full textAdvances in endogenous RNA pull-down: A straightforward dextran sulfate-based method enhancing RNA recovery
Full text linkDetecting RNA/RNA interactions in the context of a given cellular system is
crucial to gain insights into the molecular mechanisms that stand beneath each
specific RNA molecule. When it comes to non-protein coding RNA (ncRNAs),
and especially to long noncoding RNAs (lncRNAs), the reliability of the RNA
purification is dramatically dependent on their abundance. Exogenous
methods, in which lncRNAs are in vitro transcribed and incubated with
protein extracts or overexpressed by cell transfection, have been extensively
used to overcome the problem of abundance. However, although useful to
study the contribution of single RNA sub-modules to RNA/protein interactions,
these exogenous practices might fail in revealing biologically meaningful
contacts occurring in vivo and risk to generate non-physiological artifacts.
Therefore, endogenous methods must be preferred, especially for the initial
identification of partners specifically interacting with elected RNAs. Here, we
apply an endogenous RNA pull-down to lncMN2-203, a neuron-specific
lncRNA contributing to the robustness of motor neurons specification,
through the interaction with miRNA-466i-5p. We show that both the yield
of lncMN2-203 recovery and the specificity of its interaction with the miRNA
dramatically increase in the presence of Dextran Sulfate Sodium (DSS) salt. This
new set-up may represent a powerful means for improving the study of RNARNA
interactions of biological significance, especially for those lncRNAs whose
role as microRNA (miRNA) sponges or regulators of mRNA stability was
demonstrated
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