Transcription of genes coding for the small nuclear RNAs (snRNAs) is dependent upon a unique transcription factor known as the small nuclear RNA-activating protein complex (SNAPc). SNAPc binds to an essential proximal sequence element located about 40 -65 base pairs upstream of the snRNA transcription start site. In the fruit fly Drosophila melanogaster, DmSNAPc contains three distinct polypeptides (DmSNAP190, DmSNAP50, and DmSNAP43) that are stably associated with each other and bind to the DNA as a complex. We have used mutational analysis to identify domains within each subunit that are involved in complex formation with the other two subunits in vivo. We have also identified domains in each subunit required for sequence-specific DNA binding. With one exception, domains required for subunit-subunit interactions lie in the most evolutionarily conserved regions of the proteins. However, DNA binding by DmSNAPc is dependent not only upon the conserved regions but is also highly dependent upon domains outside the conserved regions. Comparison with functional domains identified in human SNAPc indicates many parallels but also reveals significant differences in this ancient yet rapidly evolving system. The small nuclear RNA (snRNA) 3 -activating protein complex (SNAPc) is a multisubunit protein required for transcription of genes that code for the spliceosomal (and certain other) snRNAs (1-4). SNAPc recognizes and binds specifically to a proximal sequence element (PSE) located about 40 -65 base pairs upstream of the transcription start site. SNAPc has also variously been called PSE-binding protein (5, 6) and PSE-binding transcription factor (1, 3, 7). In humans, SNAPc contains five distinct polypeptide chains (SNAP190, SNAP50, SNAP45, SNAP43, and SNAP19) named based upon the apparent molecular weights of these subunits (4,(7)(8)(9)(10)(11)(12). For the remainder of this article, the human protein and its subunits will be indicated by the prefix "Hs."In the fruit fly Drosophila melanogaster, DmSNAPc contains three distinct polypeptide chains that are orthologous to HsSNAP190, HsSNAP50, and HsSNAP43 (13,14). The three fly subunits, DmSNAP190, DmSNAP50, and DmSNAP43, are each present in a single copy in native DmSNAPc (15) and have calculated molecular masses of 84, 43, and 42 kDa, respectively. Interestingly, a homologous complex (tSNAPc) is required for transcription of the spliced leader snRNA in trypanosomes (16 -18). This indicates that a SNAP-like complex arose very early in eukaryotic evolution and continues to be essential for snRNA transcription in widely divergent contemporary eukaryotes. However, even within insects, snRNA gene promoter sequences recognized by SNAPc have diverged fairly rapidly (19).The subunits of eukaryotic SNAPc tightly associate with each other in solution even when the complex is not bound to DNA. The subunits co-purify through numerous chromatography columns (1-3, 16 -18, 20). Moreover, each of the three metazoan core subunits is essential for sequence-specific binding to the PSE as no...

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Alternative splicing is a fundamental mechanism of eukaryotic RNA regulation that increases the transcriptomic and proteomic complexity within an organism. Moreover, alternative splicing provides a framework for generating unique yet complex tissue- and cell type-specific gene expression profiles, despite using a limited number of genes. Recent efforts to understand the negative consequences of aberrant splicing have increased our understanding of developmental and neurodegenerative diseases such as spinal muscular atrophy, frontotemporal dementia and Parkinsonism linked to chromosome 17, myotonic dystrophy, and amyotrophic lateral sclerosis. Moreover, these studies have led to the development of innovative therapeutic treatments for diseases caused by aberrant splicing, also known as spliceopathies. Despite this, a paucity of information exists on the physiological roles and specific functions of distinct transcript spliceforms for a given gene. Here, we will highlight work that has specifically explored the distinct functions of protein-coding spliceforms during development. Moreover, we will discuss the use of alternative splicing of noncoding exons to regulate the stability and localization of RNA transcripts.

RNA binding proteins (RBPs) play a fundamental role in the post-transcriptional regulation of gene expression within the germline and nervous system. This is underscored by the prevalence of mutations within RBP-encoding genes being implicated in infertility and neurological disease. We previously described roles for the highly conserved RBP Caper in neurite morphogenesis in the Drosophila larval peripheral system and in locomotor behavior. However, caper function has not been investigated outside the nervous system, although it is widely expressed in many different tissue types during embryogenesis. Here, we describe novel roles for Caper in fertility and mating behavior. We find that Caper is expressed in ovarian follicles throughout oogenesis but is dispensable for proper patterning of the egg chamber. Additionally, reduced caper function, through either a genetic lesion or RNA interference-mediated knockdown of caper in the female germline, results in females laying significantly fewer eggs than their control counterparts. Moreover, this phenotype is exacerbated with age. caper dysfunction also results in partial embryonic and larval lethality. Given that caper is highly conserved across metazoa, these findings may also be relevant to vertebrates.

Post-transcriptional gene regulation is a fundamental mechanism that helps regulate the development and healthy aging of the nervous system. Mutations that disrupt the function of RNA-binding proteins (RBPs), which regulate post-transcriptional gene regulation, have increasingly been implicated in neurological disorders including amyotrophic lateral sclerosis, Fragile X Syndrome, and spinal muscular atrophy. Interestingly, although the majority of RBPs are expressed widely within diverse tissue types, the nervous system is often particularly sensitive to their dysfunction. It is therefore critical to elucidate how aberrant RNA regulation that results from the dysfunction of ubiquitously expressed RBPs leads to tissue specific pathologies that underlie neurological diseases. The highly conserved RBP and alternative splicing factor Caper is widely expressed throughout development and is required for the development of Drosophila sensory and motor neurons. Furthermore, caper dysfunction results in larval and adult locomotor deficits. Nonetheless, little is known about which proteins interact with Caper, and which RNAs are regulated by Caper. Here we identify proteins that interact with Caper in both neural and muscle tissue, along with neural specific Caper target RNAs. Furthermore, we show that a subset of these Caper-interacting proteins and RNAs genetically interact with caper to regulate Drosophila gravitaxis behavior.

The small nuclear RNA activating protein complex (SNAPc) is the major unique transcription factor required for transcription of genes coding for small nuclear RNAs (snRNAs). In the fruit fly Drosophila melanogaster, DmSNAPc contains three distinct subunits (DmSNAP190, DmSNAP50, and DmSNAP43) that form a complex before binding to an snRNA gene promoter. We have used mutational analysis to identify domains within each subunit of DmSNAPc that are required for complex formation with the other two subunits in vivo. Also, we mapped domains in each subunit that are required for the DNA‐binding activity of DmSNAPc. We have found that the most evolutionarily conserved regions of the proteins are involved in SNAP complex assembly. Nevertheless, we found that domains outside of the conserved regions are also important for the DNA binding activity of DmSNAPc, even though they are not required for subunit assembly. Comparing our findings with published results in the human system indicates not only many important similarities but also significant differences in this ancient though rapidly evolving system. This work is supported by National Science Foundation grants MCB‐0131151 and MCB‐0641350 and in part by the California Metabolic Research Foundation. M. T. is a recipient of an Arne N. Wick Pre‐doctoral Research Fellowship from the California Metabolic Research Foundation.