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Cell-Type Specific Features of Circular RNA Expression
Open accessAbstract
Thousands of loci in the human and mouse genomes give rise to circular RNA transcripts; at many of these loci, the predominant RNA isoform is a circle. Using an improved computational approach for circular RNA identification, we found widespread circular RNA expression in Drosophila melanogaster and estimate that in humans, circular RNA may account for 1% as many molecules as poly(A) RNA. Analysis of data from the ENCODE consortium revealed that the repertoire of genes expressing circular RNA, the ratio of circular to linear transcripts for each gene, and even the pattern of splice isoforms of circular RNAs from each gene were cell-type specific. These results suggest that biogenesis of circular RNA is an integral, conserved, and regulated feature of the gene expression program.
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Cites
Fast gapped-read alignment with Bowtie 2
Langmead, B., & Salzberg, S. L. (2012) · Nature Methods · doi:10.1038/nmeth.1923 · Cited by 56,400
Cerami, E., Gao, J., Dogrusoz, U., Gross, B. E., Sumer, S. O., Aksoy, B. A., Jacobsen, A., Byrne, C. J., Heuer, M. L., Larsson, E., et al. (2012) · Cancer Discovery · doi:10.1158/2159-8290.cd-12-0095 · Cited by 17,455
Circular RNAs are a large class of animal RNAs with regulatory potency
Memczak, S., Jens, M., Elefsinioti, A., Torti, F., Krueger, J., Rybak, A., Maier, L., Mackowiak, S. D., Gregersen, L. H., Munschauer, M., et al. (2013) · Nature · doi:10.1038/nature11928 · Cited by 7,990
Natural RNA circles function as efficient microRNA sponges
Hansen, T. B., Jensen, T. I., Clausen, B. H., Bramsen, J. B., Finsen, B., Damgaard, C. K., & Kjems, J. (2013) · Nature · doi:10.1038/nature11993 · Cited by 7,985
Circular RNAs are abundant, conserved, and associated with ALU repeats
Jeck, W. R., Sorrentino, J. A., Wang, K., Slevin, M. K., Burd, C. E., Liu, J., Marzluff, W. F., & Sharpless, N. E. (2013) · RNA · doi:10.1261/rna.035667.112 · Cited by 4,388
Electron microscopic evidence for the circular form of RNA in the cytoplasm of eukaryotic cells
HSU, M.-T., & COCA-PRADOS, M. (1979) · Nature · doi:10.1038/280339a0 · Cited by 1,021
Research works printed but not linked: 30
- J Salzman, 2012, Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types, PloS one, 7, e30733, 10.1371/journal.pone.0030733 · DOI · Paper page
- B Capel, 1993, Circular transcripts of the testis-determining gene Sry in adult mouse testis, Cell, 73, 1019, 10.1016/0092-8674(93)90279-Y · DOI · Paper page
- JM Houseley, 2006, Noncanonical RNAs from transcripts of the Drosophila muscleblind gene, The Journal of heredity, 97, 253, 10.1093/jhered/esj037 · DOI
- PG Zaphiropoulos, 1996, Circular RNAs from transcripts of the rat cytochrome P450 2C24 gene: correlation with exon skipping, Proceedings of the National Academy of Sciences of the United States of America, 93, 6536, 10.1073/pnas.93.13.6536 · DOI · Paper page
- B Bailleul, 1996, During in vivo maturation of eukaryotic nuclear mRNA, splicing yields excised exon circles, Nucleic acids research, 24, 1015, 10.1093/nar/24.6.1015 · DOI
- CE Burd, 2010, Expression of linear and novel circular forms of an INK4/ARF-associated non-coding RNA correlates with atherosclerosis risk, PLoS genetics, 6, e1001233, 10.1371/journal.pgen.1001233 · DOI · Paper page
- HA Vincent, 2006, Substrate recognition and catalysis by the exoribonuclease RNase R, The Journal of biological chemistry, 281, 29769, 10.1074/jbc.M606744200 · DOI · Paper page
- J Pak, 2012, Protection from feed-forward amplification in an amplified RNAi mechanism, Cell, 151, 885, 10.1016/j.cell.2012.10.022 · DOI
- TO Diener, 1971, Potato spindle tuber virus: a plant virus with properties of a free nucleic acid. 3. Subcellular location of PSTV-RNA and the question of whether virions exist in extracts or in situ, Virology, 43, 75, 10.1016/0042-6822(71)90226-1 · doi:10.1016/0042-6822(71)90226-1
- R Versteeg, 2003, The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes, Genome research, 13, 1998, 10.1101/gr.1649303 · DOI · Paper page
- AN King, 2010, The vitamin D/CYP24A1 story in cancer, Anti-cancer agents in medicinal chemistry, 10, 213, 10.2174/1871520611009030213 · doi:10.2174/1871520611009030213
- HC Horvath, 2010, The candidate oncogene CYP24A1: A potential biomarker for colorectal tumorigenesis, The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society, 58, 277, 10.1369/jhc.2009.954339 · DOI
- E Horvath, 2012, Marked Increase of CYP24A1 mRNA Level in Hepatocellular Carcinoma Cell Lines Following Vitamin D Administration, Anticancer research, 32, 4791
- G Chen, 2011, CYP24A1 is an independent prognostic marker of survival in patients with lung adenocarcinoma, Clinical cancer research : an official journal of the American Association for Cancer Research, 17, 817, 10.1158/1078-0432.CCR-10-1789 · DOI
- B Balla, 2011, Marked increase in CYP24A1 gene expression in human papillary thyroid cancer, Thyroid : official journal of the American Thyroid Association, 21, 459, 10.1089/thy.2010.0420 · doi:10.1089/thy.2010.0420
- MG Anderson, 2006, Expression of VDR and CYP24A1 mRNA in human tumors, Cancer chemotherapy and pharmacology, 57, 234, 10.1007/s00280-005-0059-7 · DOI · Paper page
- L Kroeldrup, 2012, Duplication of 7q36.3 encompassing the Sonic Hedgehog (SHH) gene is associated with congenital muscular hypertrophy, European journal of medical genetics, 55, 557, 10.1016/j.ejmg.2012.04.009 · DOI
- GM Fimia, 2012, Ambra1 at the crossroad between autophagy and cell death, Oncogene, 32, 3311, 10.1038/onc.2012.455 · DOI
- GM Fimia, 2007, Ambra1 regulates autophagy and development of the nervous system, Nature, 447, 1121, 10.1038/nature05925 · DOI · Paper page
- BR Graveley, 2011, The developmental transcriptome of Drosophila melanogaster, Nature, 471, 473, 10.1038/nature09715 · DOI · Paper page
- LM Dong, 2009, Vitamin D related genes, CYP24A1 and CYP27B1, and colon cancer risk, Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology, 18, 2540, 10.1158/1055-9965.EPI-09-0228 · DOI
- Z Fang, 2010, Coexistence of copy number increases of ZNF217 and CYP24A1 in colorectal cancers in a Chinese population, Oncology letters, 1, 925, 10.3892/ol_00000163 · DOI
- J Hobaus, 2012, Epigenetic regulation of the 1,25-dihydroxyvitamin D(3) 24-hydroxylase (CYP24A1) in colon cancer cells, The Journal of steroid biochemistry and molecular biology, 136, 296, 10.1016/j.jsbmb.2012.08.003 · DOI
- CN Holick, 2007, Comprehensive association analysis of the vitamin D pathway genes, VDR, CYP27B1, and CYP24A1, in prostate cancer, Cancer epidemiology, biomarkers & prevention: a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology, 16, 1990, 10.1158/1055-9965.EPI-07-0487 · DOI
- HC Horvath, 2010, CYP24A1 splice variants–implications for the antitumorigenic actions of 1,25-(OH)2D3 in colorectal cancer, The Journal of steroid biochemistry and molecular biology, 121, 76, 10.1016/j.jsbmb.2010.03.080 · doi:10.1016/j.jsbmb.2010.03.080
- N Lopes, 2010, Alterations in Vitamin D signalling and metabolic pathways in breast cancer progression: a study of VDR, CYP27B1 and CYP24A1 expression in benign and malignant breast lesions, BMC cancer, 10, 483, 10.1186/1471-2407-10-483 · DOI · Paper page
- K Zeljic, 2012, Vitamin D receptor, CYP27B1 and CYP24A1 genes polymorphisms association with oral cancer risk and survival, Journal of oral pathology & medicine : official publication of the International Association of Oral Pathologists and the American Academy of Oral Pathology, 41, 779, 10.1111/j.1600-0714.2012.01164.x · doi:10.1111/j.1600-0714.2012.01164.x
- CY Chen, 1995, Initiation of protein synthesis by the eukaryotic translational apparatus on circular RNAs, Science, 268, 415, 10.1126/science.7536344 · DOI · Paper page
- CY Chen, 1998, Internal ribosome entry sites tests with circular mRNAs, Methods in molecular biology, 77, 355
- WV Burnett, 1997, Northern blotting of RNA denatured in glyoxal without buffer recirculation, BioTechniques, 22, 668, 10.2144/97224st01 · DOI
Cited by
The biogenesis, biology and characterization of circular RNAs
Kristensen, L. S., Andersen, M. S., Stagsted, L. V. W., Ebbesen, K. K., Hansen, T. B., & Kjems, J. (2019) · Nature Reviews Genetics · doi:10.1038/s41576-019-0158-7 · Cited by 4,823
circRNA biogenesis competes with pre-mRNA splicing
Ashwal-Fluss, R., Meyer, M., Pamudurti, N. R., Ivanov, A., Bartok, O., Hanan, M., Evantal, N., Memczak, S., Rajewsky, N., & Kadener, S. (2014) · Molecular Cell · doi:10.1016/j.molcel.2014.08.019 · Cited by 3,083
Exon-intron circular RNAs regulate transcription in the nucleus
Li, Z., Huang, C., Bao, C., Chen, L., Lin, M., Wang, X., Zhong, G., Yu, B., Hu, W., Dai, L., et al. (2015) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.2959 · Cited by 2,905
Circular RNAs in the Mammalian Brain Are Highly Abundant, Conserved, and Dynamically Expressed
Rybak-Wolf, A., Stottmeister, C., Glažar, P., Jens, M., Pino, N., Giusti, S., Hanan, M., Behm, M., Bartok, O., Ashwal-Fluss, R., et al. (2015) · Molecular Cell · doi:10.1016/j.molcel.2015.03.027 · Cited by 2,423
Complementary Sequence-Mediated Exon Circularization
Zhang, X.-O., Wang, H.-B., Zhang, Y., Lu, X., Chen, L.-L., & Yang, L. (2014) · Cell · doi:10.1016/j.cell.2014.09.001 · Cited by 1,999
Metadata
- Authors
- Salzman, J., Chen, R. E., Olsen, M. N., Wang, P. L., & Brown, P. O.
- Venue
- PLoS Genetics
- Publisher
- Public Library of Science (PLoS)
- Published
- 2013-09-05
- Volume
- 9
- Issue
- 9
- Pages
- e1003777
- ISSN
- 1553-7390 (ISSN-L)
- 1553-7404
- OpenAlex
- W2152719653
- Cited by
- 1,950
- References
- 6
- FWCI
- 20.84
- Type
- journal article
- Language
- en
- Update notices
- correction (2013-12-30)
- Open access
- gold
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