Drosophila RNA Binding Proteins

Gamberi, Chiara; Johnstone, Oona; Lasko, Paul

doi:10.1016/s0074-7696(06)48002-5

Cited by 24 publications

(19 citation statements)

References 339 publications

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“…The Drosophila genome encodes at least 400 proteins annotated as mRNA binding proteins, proteins with known RNA binding domains, and/or translation factors excluding ribosomal proteins (Gamberi et al 2006; this study). Transgenic strains that express RNAi constructs under control of an upstream activating sequence (UAS) have been generated for the majority of these genes (Dietzl et al 2007).…”

Section: Resultsmentioning

confidence: 99%

Extensive Use of RNA-Binding Proteins inDrosophilaSensory Neuron Dendrite Morphogenesis

Olesnicky

Killian

Garcia

et al. 2014

G3 Genes|Genomes|Genetics

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The large number of RNA-binding proteins and translation factors encoded in the Drosophila and other metazoan genomes predicts widespread use of post-transcriptional regulation in cellular and developmental processes. Previous studies identified roles for several RNA-binding proteins in dendrite branching morphogenesis of Drosophila larval sensory neurons. To determine the larger contribution of post-transcriptional gene regulation to neuronal morphogenesis, we conducted an RNA interference screen to identify additional Drosophila proteins annotated as either RNA-binding proteins or translation factors that function in producing the complex dendritic trees of larval class IV dendritic arborization neurons. We identified 88 genes encoding such proteins whose knockdown resulted in aberrant dendritic morphology, including alterations in dendritic branch number, branch length, field size, and patterning of the dendritic tree. In particular, splicing and translation initiation factors were associated with distinct and characteristic phenotypes, suggesting that different morphogenetic events are best controlled at specific steps in post-transcriptional messenger RNA metabolism. Many of the factors identified in the screen have been implicated in controlling the subcellular distributions and translation of maternal messenger RNAs; thus, common post-transcriptional regulatory strategies may be used in neurogenesis and in the generation of asymmetry in the female germline and embryo.

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Section: Resultsmentioning

confidence: 99%

Extensive Use of RNA-Binding Proteins inDrosophilaSensory Neuron Dendrite Morphogenesis

Olesnicky

Killian

Garcia

et al. 2014

G3 Genes|Genomes|Genetics

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“…A recent survey of the literature found that many yet uncharacterized RBPs are expressed during fly embryogenesis [80]; studies in yeast suggest that RBPs targeting large groups of mRNAs show generally high protein abundances [81]. …”

Section: Resultsmentioning

confidence: 99%

Genome-wide analysis of mRNA decay patterns during early Drosophiladevelopment

et al. 2010

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BackgroundThe modulation of mRNA levels across tissues and time is key for the establishment and operation of the developmental programs that transform the fertilized egg into a fully formed embryo. Although the developmental mechanisms leading to differential mRNA synthesis are heavily investigated, comparatively little attention is given to the processes of mRNA degradation and how these relate to the molecular programs controlling development.ResultsHere we combine timed collection of Drosophila embryos and unfertilized eggs with genome-wide microarray technology to determine the degradation patterns of all mRNAs present during early fruit fly development. Our work studies the kinetics of mRNA decay, the contributions of maternally and zygotically encoded factors to mRNA degradation, and the ways in which mRNA decay profiles relate to gene function, mRNA localization patterns, translation rates and protein turnover. We also detect cis-regulatory sequences enriched in transcripts with common degradation patterns and propose several proteins and microRNAs as developmental regulators of mRNA decay during early fruit fly development. Finally, we experimentally validate the effects of a subset of cis-regulatory sequences and trans-regulators in vivo.ConclusionsOur work advances the current understanding of the processes controlling mRNA degradation during early Drosophila development, taking us one step closer to the understanding of mRNA decay processes in all animals. Our data also provide a valuable resource for further experimental and computational studies investigating the process of mRNA decay.

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“…RBPs were defined by the presence of one or more canonical RBDs, such as RRM, KH, CSD, zinc fingers, and PUF domains (Lunde et al 2007). Selecting these predominantly mRNA-binding RBDs, the number of RBPs was initially estimated to ~400–500 in human and mouse (McKee et al 2005; Galante et al 2009; Cook et al 2011), ~300 in D. melanogaster (Lasko 2000; Gamberi et al 2006), ~250–500 in C. elegans (Lasko 2000; Lee and Schedl 2006; Tamburino et al 2013), and ~500 RBPs in S. cerevisiae (Hogan et al 2008). Inclusion of RNA-processing domains involved in RNA metabolism of every known type of RNA leads to numbers near ~700 RBPs in humans (Anantharaman et al 2002).…”

Section: Human Rbpsmentioning

confidence: 99%

Evolutionary Conservation and Expression of Human RNA-Binding Proteins and Their Role in Human Genetic Disease

Gerstberger

Hafner

Ascano

et al. 2014

Advances in Experimental Medicine and Biology

134

104

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RNA-binding proteins (RBPs) are effectors and regulators of posttranscriptional gene regulation (PTGR). RBPs regulate stability, maturation, and turnover of all RNAs, often binding thousands of targets at many sites. The importance of RBPs is underscored by their dysregulation or mutations causing a variety of developmental and neurological diseases. This chapter globally discusses human RBPs and provides a brief introduction to their identification and RNA targets. We review RBPs based on common structural RNA-binding domains, study their evolutionary conservation and expression, and summarize disease associations of different RBP classes.

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Drosophila RNA Binding Proteins

Cited by 24 publications

References 339 publications

Extensive Use of RNA-Binding Proteins inDrosophilaSensory Neuron Dendrite Morphogenesis

Extensive Use of RNA-Binding Proteins inDrosophilaSensory Neuron Dendrite Morphogenesis

Genome-wide analysis of mRNA decay patterns during early Drosophiladevelopment

Evolutionary Conservation and Expression of Human RNA-Binding Proteins and Their Role in Human Genetic Disease

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