The DOI matches its Crossref record; 7 of the 7 references it cites were found in a registry or an index.
Global Patterns of Tissue-Specific Alternative Polyadenylation in Drosophila
Open accessAbstract
We analyzed the usage and consequences of alternative cleavage and polyadenylation (APA) in Drosophila melanogaster by using >1 billion reads of stranded mRNA-seq across a variety of dissected tissues. Beyond demonstrating that a majority of fly transcripts are subject to APA, we observed broad trends for 3' untranslated region (UTR) shortening in the testis and lengthening in the central nervous system (CNS); the latter included hundreds of unannotated extensions ranging up to 18 kb. Extensive northern analyses validated the accumulation of full-length neural extended transcripts, and in situ hybridization indicated their spatial restriction to the CNS. Genes encoding RNA binding proteins (RBPs) and transcription factors were preferentially subject to 3' UTR extensions. Motif analysis indicated enrichment of miRNA and RBP sites in the neural extensions, and their termini were enriched in canonical cis elements that promote cleavage and polyadenylation. Altogether, we reveal broad tissue-specific patterns of APA in Drosophila and transcripts with unprecedented 3' UTR length in the nervous system.
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Xie, X., Lu, J., Kulbokas, E. J., Golub, T. R., Mootha, V., Lindblad-Toh, K., Lander, E. S., & Kellis, M. (2005) · Nature · doi:10.1038/nature03441 · Cited by 1,872
Mayr, C., & Bartel, D. P. (2009) · Cell · doi:10.1016/j.cell.2009.06.016 · Cited by 1,613
HITS-CLIP yields genome-wide insights into brain alternative RNA processing
Licatalosi, D. D., Mele, A., Fak, J. J., Ule, J., Kayikci, M., Chi, S. W., Clark, T. A., Schweitzer, A. C., Blume, J. E., Wang, X., et al. (2008) · Nature · doi:10.1038/nature07488 · Cited by 1,352 · cited 3×
“This raises the possibility of a complex network of auto- and cross-regulating posttranscriptional regulatory factors in the CNS. Recent technical advances in identifying RBP interactions with RNA elements such as PARCLIP and HITS-CLIP (Hafner et al., 2010; Licatalosi et al., 2008) enable genome-wide examination of RB…”
Stark, A., Brennecke, J., Bushati, N., Russell, R. B., & Cohen, S. M. (2005) · Cell · doi:10.1016/j.cell.2005.11.023 · Cited by 1,080
Mechanisms and Consequences of Alternative Polyadenylation
Di Giammartino, D. C., Nishida, K., & Manley, J. L. (2011) · Molecular Cell · doi:10.1016/j.molcel.2011.08.017 · Cited by 737
Ji, Z., & Tian, B. (2009) · PLoS ONE · doi:10.1371/journal.pone.0008419 · Cited by 264
ELAV inhibits 3′-end processing to promote neural splicing of ewg pre-mRNA
Soller, M., & White, K. (2003) · Genes & Development · doi:10.1101/gad.1106703 · Cited by 89
Cited by
Alternative polyadenylation of mRNA precursors
Tian, B., & Manley, J. L. (2017) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2016.116 · Cited by 1,179
Diversity and dynamics of the Drosophila transcriptome
Brown, J. B., Boley, N., Eisman, R., May, G. E., Stoiber, M. H., Duff, M. O., Booth, B. W., Wen, J., Park, S., Suzuki, A. M., et al. (2014) · Nature · doi:10.1038/nature12962 · Cited by 722
Self-citationTushev, G., Glock, C., Heumüller, M., Biever, A., Jovanovic, M., & Schuman, E. M. (2018) · Neuron · doi:10.1016/j.neuron.2018.03.030 · Cited by 377
Alternative mRNA transcription, processing, and translation: insights from RNA sequencing
de Klerk, E., & ‘t Hoen, P. A. C. (2015) · Trends in Genetics · doi:10.1016/j.tig.2015.01.001 · Cited by 350
Alternative cleavage and polyadenylation: the long and short of it
Tian, B., & Manley, J. L. (2013) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2013.03.005 · Cited by 306
Metadata
- Authors
- Smibert, P., Miura, P., Westholm, J. O., Shenker, S., May, G., Duff, M. O., Zhang, D., Eads, B. D., Carlson, J., Brown, J. B., Eisman, R. C., Andrews, J., Kaufman, T., Cherbas, P., Celniker, S. E., Graveley, B. R., & Lai, E. C.
- Venue
- Cell Reports
- Publisher
- Elsevier BV
- Published
- 2012-03
- Volume
- 1
- Issue
- 3
- Pages
- 277-289
- ISSN
- 2211-1247 (ISSN-L)
- OpenAlex
- W2114672936
- Cited by
- 230
- References
- 7
- FWCI
- 8.83
- Type
- journal article
- Language
- en
- Open access
- gold
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- Smibert, P., Miura, P., Westholm, J. O., Shenker, S., May, G., Duff, M. O., Zhang, D., Eads, B. D., Carlson, J., Brown, J. B., Eisman, R. C., Andrews, J., Kaufman, T., Cherbas, P., Celniker, S. E., Graveley, B. R., & Lai, E. C. (2012). Global Patterns of Tissue-Specific Alternative Polyadenylation in Drosophila. Cell Reports. https://doi.org/10.1016/j.celrep.2012.01.001
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
