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PMID: 29863472 Published · epublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

Striking circadian neuron diversity and cycling of Drosophila alternative splicing.

eLife ·Vol. 7 ·2018-00-04

Wang Q, Abruzzi KC, Rosbash M, Rio DC

Abstract

Although alternative pre-mRNA splicing (AS) significantly diversifies the neuronal proteome, the extent of AS is still unknown due in part to the large number of diverse cell types in the brain. To address this complexity issue, we used an annotation-free computational method to analyze and compare the AS profiles between small specific groups of Drosophila circadian neurons. The method, the Junction Usage Model (JUM), allows the comprehensive profiling of both known and novel AS events from specific RNA-seq libraries. The results show that many diverse and novel pre-mRNA isoforms are preferentially expressed in one class of clock neuron and also absent from the more standard Drosophila head RNA preparation. These AS events are enriched in potassium channels important for neuronal firing, and there are also cycling isoforms with no detectable underlying transcriptional oscillations. The results suggest massive AS regulation in the brain that is also likely important for circadian regulation.

Keywords
D. melanogaster chromosomes circadian neuron circadian rhythm gene expression neuroscience pre-mRNA alternative splicing
MeSH Terms
Alternative Splicing Animals Brain/cytology,metabolism Circadian Rhythm Computational Biology/methods Drosophila melanogaster/genetics,metabolism Gene Expression Profiling/methods Gene Ontology Neurons/cytology,metabolism RNA Isoforms/genetics,metabolism RNA Precursors/genetics,metabolism
Chemicals
RNA Isoforms RNA Precursors
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Wang Qingqing ORCID
Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, United States. | Center for RNA Systems Biology (CRSB), University of California, Berkeley, Berkeley, United States. | California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, Berkeley, United States.
Abruzzi Katharine C ORCID
Department of Biology, Howard Hughes Medical Institute, Brandeis University, Waltham, United States. | National Center for Behavior Genomics, Brandeis University, Waltham, United States.
Rosbash Michael ORCID
Department of Biology, Howard Hughes Medical Institute, Brandeis University, Waltham, United States. | National Center for Behavior Genomics, Brandeis University, Waltham, United States.
Rio Donald C ORCID
Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, United States. | Center for RNA Systems Biology (CRSB), University of California, Berkeley, Berkeley, United States. | California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, Berkeley, United States.
Conflict of Interest

QW, KA, MR, DR No competing interests declared

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Article Info
Journal
eLife
Abbr.
Elife
ISSN
2050-084X
DOI
10.7554/eLife.35618
Published
2018-00-04
Epub
2018-00-04
Language
English
Region
England
NLM ID
101579614
PMCID
PMC6025963
Subset
IM
Grants
NIH HHS · R01GM097352 · United States
NIGMS NIH HHS · R35 GM118121 · United States
NIGMS NIH HHS · R01 GM097352 · United States
NIH HHS · NIH P50102706 · United States
NIH HHS · R35GM118121 · United States
Howard Hughes Medical Institute · United States
External Links
PubMed source DOI: 10.7554/eLife.35618 PMC Full Text View journal details
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