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dc.contributor.authorMezan, Shaul
dc.contributor.authorAshwal-Fluss, Reut
dc.contributor.authorShenhav, Rom
dc.contributor.authorGarber, Manuel
dc.contributor.authorKadener, Sebastian
dc.date2022-08-11T08:08:29.000
dc.date.accessioned2022-08-23T15:57:08Z
dc.date.available2022-08-23T15:57:08Z
dc.date.issued2013-12-09
dc.date.submitted2014-03-31
dc.identifier.citation<p>Mezan S, Ashwal-Fluss R, Shenhav R, Garber M, Kadener S. Genome-wide assessment of post-transcriptional control in the fly brain. Front Mol Neurosci. 2013 Dec 9;6:49. doi: 10.3389/fnmol.2013.00049. <a href="http://dx.doi.org/10.3389/fnmol.2013.00049">Link to article on publisher's site</a></p>
dc.identifier.issn1662-5099 (Linking)
dc.identifier.doi10.3389/fnmol.2013.00049
dc.identifier.pmid24367289
dc.identifier.urihttp://hdl.handle.net/20.500.14038/30124
dc.description.abstractPost-transcriptional control of gene expression has central importance during development and adulthood and in physiology in general. However, little is known about the extent of post-transcriptional control of gene expression in the brain. Most post-transcriptional regulatory effectors (e.g., miRNAs) destabilize target mRNAs by shortening their polyA tails. Hence, the fraction of a given mRNA that it is fully polyadenylated should correlate with its stability and serves as a good measure of post-transcriptional control. Here, we compared RNA-seq datasets from fly brains that were generated either from total (rRNA-depleted) or polyA-selected RNA. By doing this comparison we were able to compute a coefficient that measures the extent of post-transcriptional control for each brain-expressed mRNA. In agreement with current knowledge, we found that mRNAs encoding ribosomal proteins, metabolic enzymes, and housekeeping genes are among the transcripts with least post-transcriptional control, whereas mRNAs that are known to be highly unstable, like circadian mRNAs and mRNAs expressing synaptic proteins and proteins with neuronal functions, are under strong post-transcriptional control. Surprisingly, the latter group included many specific groups of genes relevant to brain function and behavior. In order to determine the importance of miRNAs in this regulation, we profiled miRNAs from fly brains using oligonucleotide microarrays. Surprisingly, we did not find a strong correlation between the expression levels of miRNAs in the brain and the stability of their target mRNAs; however, genes identified as highly regulated post-transcriptionally were strongly enriched for miRNA targets. This demonstrates a central role of miRNAs for modulating the levels and turnover of brain-specific mRNAs in the fly.
dc.language.isoen_US
dc.relation<p><a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&list_uids=24367289&dopt=Abstract">Link to Article in PubMed</a></p>
dc.rightsCopyright 2013 Mezan, Ashwal-Fluss, Shenhav, Garber and Kadener. This is an open-access article distributed under the terms of the <a href="http://creativecommons.org/licenses/by/3.0/" target="_blank">Creative Commons Attribution License (CC BY)</a>. The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
dc.subjectUMCCTS funding
dc.subjectComputational Biology
dc.subjectGenomics
dc.subjectMolecular and Cellular Neuroscience
dc.subjectMolecular Genetics
dc.titleGenome-wide assessment of post-transcriptional control in the fly brain
dc.typeJournal Article
dc.source.journaltitleFrontiers in molecular neuroscience
dc.source.volume6
dc.identifier.legacyfulltexthttps://escholarship.umassmed.edu/cgi/viewcontent.cgi?article=1363&amp;context=faculty_pubs&amp;unstamped=1
dc.identifier.legacycoverpagehttps://escholarship.umassmed.edu/faculty_pubs/364
dc.identifier.contextkey5413939
refterms.dateFOA2022-08-23T15:57:08Z
html.description.abstract<p>Post-transcriptional control of gene expression has central importance during development and adulthood and in physiology in general. However, little is known about the extent of post-transcriptional control of gene expression in the brain. Most post-transcriptional regulatory effectors (e.g., miRNAs) destabilize target mRNAs by shortening their polyA tails. Hence, the fraction of a given mRNA that it is fully polyadenylated should correlate with its stability and serves as a good measure of post-transcriptional control. Here, we compared RNA-seq datasets from fly brains that were generated either from total (rRNA-depleted) or polyA-selected RNA. By doing this comparison we were able to compute a coefficient that measures the extent of post-transcriptional control for each brain-expressed mRNA. In agreement with current knowledge, we found that mRNAs encoding ribosomal proteins, metabolic enzymes, and housekeeping genes are among the transcripts with least post-transcriptional control, whereas mRNAs that are known to be highly unstable, like circadian mRNAs and mRNAs expressing synaptic proteins and proteins with neuronal functions, are under strong post-transcriptional control. Surprisingly, the latter group included many specific groups of genes relevant to brain function and behavior. In order to determine the importance of miRNAs in this regulation, we profiled miRNAs from fly brains using oligonucleotide microarrays. Surprisingly, we did not find a strong correlation between the expression levels of miRNAs in the brain and the stability of their target mRNAs; however, genes identified as highly regulated post-transcriptionally were strongly enriched for miRNA targets. This demonstrates a central role of miRNAs for modulating the levels and turnover of brain-specific mRNAs in the fly.</p>
dc.identifier.submissionpathfaculty_pubs/364
dc.contributor.departmentProgram in Bioinformatics and Integrative Biology
dc.source.pages49


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