메뉴 건너뛰기




Volumn 66, Issue 1, 2017, Pages 9-21.e7

Translation of CircRNAs

Author keywords

cap independent; circRNA; muscleblind; translation

Indexed keywords

CIRCULAR RNA; MESSENGER RNA; MESSENGER RNA PRECURSOR; RNA; TRANSCRIPTION FACTOR FOXO; UNCLASSIFIED DRUG; CAPPED RNA; DROSOPHILA PROTEIN; FORKHEAD TRANSCRIPTION FACTOR; FOXO PROTEIN, DROSOPHILA; MUSCLEBLIND PROTEIN, DROSOPHILA; NUCLEAR PROTEIN; RNA, CIRCULAR; START CODON; STOP CODON;

EID: 85016009117     PISSN: 10972765     EISSN: 10974164     Source Type: Journal    
DOI: 10.1016/j.molcel.2017.02.021     Document Type: Article
Times cited : (1414)

References (55)
  • 2
    • 84861843696 scopus 로고    scopus 로고
    • A mechanistic overview of translation initiation in eukaryotes
    • Aitken, C.E., Lorsch, J.R., A mechanistic overview of translation initiation in eukaryotes. Nat. Struct. Mol. Biol. 19 (2012), 568–576.
    • (2012) Nat. Struct. Mol. Biol. , vol.19 , pp. 568-576
    • Aitken, C.E.1    Lorsch, J.R.2
  • 3
    • 77958471357 scopus 로고    scopus 로고
    • Differential expression analysis for sequence count data
    • Anders, S., Huber, W., Differential expression analysis for sequence count data. Genome Biol., 11, 2010, R106.
    • (2010) Genome Biol. , vol.11 , pp. R106
    • Anders, S.1    Huber, W.2
  • 4
    • 84928987900 scopus 로고    scopus 로고
    • HTSeq-a Python framework to work with high-throughput sequencing data
    • Anders, S., Pyl, P.T., Huber, W., HTSeq-a Python framework to work with high-throughput sequencing data. Bioinformatics. 31 (2015), 166–169.
    • (2015) Bioinformatics. , vol.31 , pp. 166-169
    • Anders, S.1    Pyl, P.T.2    Huber, W.3
  • 7
    • 84903158167 scopus 로고    scopus 로고
    • Regulation of mTORC1 by amino acids
    • Bar-Peled, L., Sabatini, D.M., Regulation of mTORC1 by amino acids. Trends Cell Biol. 24 (2014), 400–406.
    • (2014) Trends Cell Biol. , vol.24 , pp. 400-406
    • Bar-Peled, L.1    Sabatini, D.M.2
  • 10
    • 0034105305 scopus 로고    scopus 로고
    • Control of oskar mRNA translation by Bruno in a novel cell-free system from Drosophila ovaries
    • Castagnetti, S., Hentze, M.W., Ephrussi, A., Gebauer, F., Control of oskar mRNA translation by Bruno in a novel cell-free system from Drosophila ovaries. Development 127 (2000), 1063–1068.
    • (2000) Development , vol.127 , pp. 1063-1068
    • Castagnetti, S.1    Hentze, M.W.2    Ephrussi, A.3    Gebauer, F.4
  • 11
    • 32044471522 scopus 로고    scopus 로고
    • Bruno acts as a dual repressor of oskar translation, promoting mRNA oligomerization and formation of silencing particles
    • Chekulaeva, M., Hentze, M.W., Ephrussi, A., Bruno acts as a dual repressor of oskar translation, promoting mRNA oligomerization and formation of silencing particles. Cell 124 (2006), 521–533.
    • (2006) Cell , vol.124 , pp. 521-533
    • Chekulaeva, M.1    Hentze, M.W.2    Ephrussi, A.3
  • 12
    • 0029053190 scopus 로고
    • Initiation of protein synthesis by the eukaryotic translational apparatus on circular RNAs
    • Chen, C.Y., Sarnow, P., Initiation of protein synthesis by the eukaryotic translational apparatus on circular RNAs. Science 268 (1995), 415–417.
    • (1995) Science , vol.268 , pp. 415-417
    • Chen, C.Y.1    Sarnow, P.2
  • 14
    • 84911489137 scopus 로고    scopus 로고
    • Differential centrifugation-based biochemical fractionation of the Drosophila adult CNS
    • Depner, H., Lützkendorf, J., Babkir, H.A., Sigrist, S.J., Holt, M.G., Differential centrifugation-based biochemical fractionation of the Drosophila adult CNS. Nat. Protoc. 9 (2014), 2796–2808.
    • (2014) Nat. Protoc. , vol.9 , pp. 2796-2808
    • Depner, H.1    Lützkendorf, J.2    Babkir, H.A.3    Sigrist, S.J.4    Holt, M.G.5
  • 15
    • 84889593808 scopus 로고    scopus 로고
    • Ribosome profiling reveals pervasive and regulated stop codon readthrough in Drosophila melanogaster
    • Dunn, J.G., Foo, C.K., Belletier, N.G., Gavis, E.R., Weissman, J.S., Ribosome profiling reveals pervasive and regulated stop codon readthrough in Drosophila melanogaster. eLife, 2, 2013, e01179.
    • (2013) eLife , vol.2 , pp. e01179
    • Dunn, J.G.1    Foo, C.K.2    Belletier, N.G.3    Gavis, E.R.4    Weissman, J.S.5
  • 16
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: multiple sequence alignment with high accuracy and high throughput
    • Edgar, R.C., MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32 (2004), 1792–1797.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 18
    • 0033229825 scopus 로고    scopus 로고
    • Translational control of dosage compensation in Drosophila by Sex-lethal: cooperative silencing via the 5′ and 3′ UTRs of msl-2 mRNA is independent of the poly(A) tail
    • Gebauer, F., Corona, D.F., Preiss, T., Becker, P.B., Hentze, M.W., Translational control of dosage compensation in Drosophila by Sex-lethal: cooperative silencing via the 5′ and 3′ UTRs of msl-2 mRNA is independent of the poly(A) tail. EMBO J. 18 (1999), 6146–6154.
    • (1999) EMBO J. , vol.18 , pp. 6146-6154
    • Gebauer, F.1    Corona, D.F.2    Preiss, T.3    Becker, P.B.4    Hentze, M.W.5
  • 19
    • 84908128765 scopus 로고    scopus 로고
    • circBase: a database for circular RNAs
    • Glažar, P., Papavasileiou, P., Rajewsky, N., circBase: a database for circular RNAs. RNA 20 (2014), 1666–1670.
    • (2014) RNA , vol.20 , pp. 1666-1670
    • Glažar, P.1    Papavasileiou, P.2    Rajewsky, N.3
  • 20
    • 84956906428 scopus 로고    scopus 로고
    • Expanded identification and characterization of mammalian circular RNAs
    • Guo, J.U., Agarwal, V., Guo, H., Bartel, D.P., Expanded identification and characterization of mammalian circular RNAs. Genome Biol., 15, 2014, 409.
    • (2014) Genome Biol. , vol.15 , pp. 409
    • Guo, J.U.1    Agarwal, V.2    Guo, H.3    Bartel, D.P.4
  • 22
    • 61449172037 scopus 로고    scopus 로고
    • Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
    • Huang da, W., Sherman, B.T., Lempicki, R.A., Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 4 (2009), 44–57.
    • (2009) Nat Protoc. , vol.4 , pp. 44-57
    • Huang da, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 23
    • 84889048056 scopus 로고    scopus 로고
    • Translational profiling of clock cells reveals circadianly synchronized protein synthesis
    • Huang, Y., Ainsley, J.A., Reijmers, L.G., Jackson, F.R., Translational profiling of clock cells reveals circadianly synchronized protein synthesis. PLoS Biol., 11, 2013, e1001703.
    • (2013) PLoS Biol. , vol.11 , pp. e1001703
    • Huang, Y.1    Ainsley, J.A.2    Reijmers, L.G.3    Jackson, F.R.4
  • 24
    • 62549134121 scopus 로고    scopus 로고
    • Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling
    • Ingolia, N.T., Ghaemmaghami, S., Newman, J.R., Weissman, J.S., Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling. Science 324 (2009), 218–223.
    • (2009) Science , vol.324 , pp. 218-223
    • Ingolia, N.T.1    Ghaemmaghami, S.2    Newman, J.R.3    Weissman, J.S.4
  • 25
    • 0031030360 scopus 로고    scopus 로고
    • The Drosophila mushroom body is a quadruple structure of clonal units each of which contains a virtually identical set of neurones and glial cells
    • Ito, K., Awano, W., Suzuki, K., Hiromi, Y., Yamamoto, D., The Drosophila mushroom body is a quadruple structure of clonal units each of which contains a virtually identical set of neurones and glial cells. Development 124 (1997), 761–771.
    • (1997) Development , vol.124 , pp. 761-771
    • Ito, K.1    Awano, W.2    Suzuki, K.3    Hiromi, Y.4    Yamamoto, D.5
  • 26
    • 84875129451 scopus 로고    scopus 로고
    • The current status of vertebrate cellular mRNA IRESs
    • Jackson, R.J., The current status of vertebrate cellular mRNA IRESs. Cold Spring Harb. Perspect. Biol., 5, 2013, a011569.
    • (2013) Cold Spring Harb. Perspect. Biol. , vol.5 , pp. a011569
    • Jackson, R.J.1
  • 27
    • 84900322651 scopus 로고    scopus 로고
    • Detecting and characterizing circular RNAs
    • Jeck, W.R., Sharpless, N.E., Detecting and characterizing circular RNAs. Nat. Biotechnol. 32 (2014), 453–461.
    • (2014) Nat. Biotechnol. , vol.32 , pp. 453-461
    • Jeck, W.R.1    Sharpless, N.E.2
  • 28
    • 84961823483 scopus 로고    scopus 로고
    • Many lncRNAs, 5′UTRs, and pseudogenes are translated and some are likely to express functional proteins
    • Ji, Z., Song, R., Regev, A., Struhl, K., Many lncRNAs, 5′UTRs, and pseudogenes are translated and some are likely to express functional proteins. eLife, 4, 2015, e08890.
    • (2015) eLife , vol.4 , pp. e08890
    • Ji, Z.1    Song, R.2    Regev, A.3    Struhl, K.4
  • 29
    • 84945478219 scopus 로고    scopus 로고
    • Differential proteomic analysis of mouse macrophages exposed to adsorbate-loaded heavy fuel oil derived combustion particles using an automated sample-preparation workflow
    • Kanashova, T., Popp, O., Orasche, J., Karg, E., Harndorf, H., Stengel, B., Sklorz, M., Streibel, T., Zimmermann, R., Dittmar, G., Differential proteomic analysis of mouse macrophages exposed to adsorbate-loaded heavy fuel oil derived combustion particles using an automated sample-preparation workflow. Anal. Bioanal. Chem. 407 (2015), 5965–5976.
    • (2015) Anal. Bioanal. Chem. , vol.407 , pp. 5965-5976
    • Kanashova, T.1    Popp, O.2    Orasche, J.3    Karg, E.4    Harndorf, H.5    Stengel, B.6    Sklorz, M.7    Streibel, T.8    Zimmermann, R.9    Dittmar, G.10
  • 32
    • 84876996918 scopus 로고    scopus 로고
    • TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
    • Kim, D., Pertea, G., Trapnell, C., Pimentel, H., Kelley, R., Salzberg, S.L., TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol., 14, 2013, R36.
    • (2013) Genome Biol. , vol.14 , pp. R36
    • Kim, D.1    Pertea, G.2    Trapnell, C.3    Pimentel, H.4    Kelley, R.5    Salzberg, S.L.6
  • 33
    • 84902326037 scopus 로고    scopus 로고
    • Widespread changes in the posttranscriptional landscape at the Drosophila oocyte-to-embryo transition
    • Kronja, I., Yuan, B., Eichhorn, S.W., Dzeyk, K., Krijgsveld, J., Bartel, D.P., Orr-Weaver, T.L., Widespread changes in the posttranscriptional landscape at the Drosophila oocyte-to-embryo transition. Cell Rep. 7 (2014), 1495–1508.
    • (2014) Cell Rep. , vol.7 , pp. 1495-1508
    • Kronja, I.1    Yuan, B.2    Eichhorn, S.W.3    Dzeyk, K.4    Krijgsveld, J.5    Bartel, D.P.6    Orr-Weaver, T.L.7
  • 34
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead, B., Salzberg, S.L., Fast gapped-read alignment with Bowtie 2. Nat Methods. 9 (2012), 357–359.
    • (2012) Nat Methods. , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 35
    • 84900489620 scopus 로고    scopus 로고
    • Distinct stages of the translation elongation cycle revealed by sequencing ribosome-protected mRNA fragments
    • Lareau, L.F., Hite, D.H., Hogan, G.J., Brown, P.O., Distinct stages of the translation elongation cycle revealed by sequencing ribosome-protected mRNA fragments. eLife, 3, 2014, e01257.
    • (2014) eLife , vol.3 , pp. e01257
    • Lareau, L.F.1    Hite, D.H.2    Hogan, G.J.3    Brown, P.O.4
  • 37
    • 0033583194 scopus 로고    scopus 로고
    • A circularized sodium-calcium exchanger exon 2 transcript
    • Li, X.F., Lytton, J., A circularized sodium-calcium exchanger exon 2 transcript. J. Biol. Chem. 274 (1999), 8153–8160.
    • (1999) J. Biol. Chem. , vol.274 , pp. 8153-8160
    • Li, X.F.1    Lytton, J.2
  • 39
    • 33846522325 scopus 로고    scopus 로고
    • IRES-mediated functional coupling of transcription and translation amplifies insulin receptor feedback
    • Marr, M.T. 2nd, D'Alessio, J.A., Puig, O., Tjian, R., IRES-mediated functional coupling of transcription and translation amplifies insulin receptor feedback. Genes Dev. 21 (2007), 175–183.
    • (2007) Genes Dev. , vol.21 , pp. 175-183
    • Marr, M.T.1    D'Alessio, J.A.2    Puig, O.3    Tjian, R.4
  • 41
    • 84941082092 scopus 로고    scopus 로고
    • Modified ribosome profiling reveals high abundance of ribosome protected mRNA fragments derived from 3′ untranslated regions
    • Miettinen, T.P., Björklund, M., Modified ribosome profiling reveals high abundance of ribosome protected mRNA fragments derived from 3′ untranslated regions. Nucleic Acids Res. 43 (2015), 1019–1034.
    • (2015) Nucleic Acids Res. , vol.43 , pp. 1019-1034
    • Miettinen, T.P.1    Björklund, M.2
  • 42
    • 84859424313 scopus 로고    scopus 로고
    • Mutations in the Drosophila insulin receptor substrate, CHICO, impair olfactory associative learning
    • Naganos, S., Horiuchi, J., Saitoe, M., Mutations in the Drosophila insulin receptor substrate, CHICO, impair olfactory associative learning. Neurosci. Res. 73 (2012), 49–55.
    • (2012) Neurosci. Res. , vol.73 , pp. 49-55
    • Naganos, S.1    Horiuchi, J.2    Saitoe, M.3
  • 43
    • 84880614734 scopus 로고    scopus 로고
    • The insulin receptor cellular IRES confers resistance to eIF4A inhibition
    • Olson, C.M., Donovan, M.R., Spellberg, M.J., Marr, M.T. 2nd, The insulin receptor cellular IRES confers resistance to eIF4A inhibition. eLife, 2, 2013, e00542.
    • (2013) eLife , vol.2 , pp. e00542
    • Olson, C.M.1    Donovan, M.R.2    Spellberg, M.J.3    Marr, M.T.4
  • 44
    • 84942295698 scopus 로고    scopus 로고
    • Integrated Transcriptome and Proteome Analyses Reveal Organ-Specific Proteome Deterioration in Old Rats
    • Ori, A., Toyama, B.H., Harris, M.S., Bock, T., Iskar, M., Bork, P., Ingolia, N.T., Hetzer, M.W., Beck, M., Integrated Transcriptome and Proteome Analyses Reveal Organ-Specific Proteome Deterioration in Old Rats. Cell Syst. 1 (2015), 224–237.
    • (2015) Cell Syst. , vol.1 , pp. 224-237
    • Ori, A.1    Toyama, B.H.2    Harris, M.S.3    Bock, T.4    Iskar, M.5    Bork, P.6    Ingolia, N.T.7    Hetzer, M.W.8    Beck, M.9
  • 45
    • 0042161896 scopus 로고    scopus 로고
    • Control of cell number by Drosophila FOXO: downstream and feedback regulation of the insulin receptor pathway
    • Puig, O., Marr, M.T., Ruhf, M.L., Tjian, R., Control of cell number by Drosophila FOXO: downstream and feedback regulation of the insulin receptor pathway. Genes Dev. 17 (2003), 2006–2020.
    • (2003) Genes Dev. , vol.17 , pp. 2006-2020
    • Puig, O.1    Marr, M.T.2    Ruhf, M.L.3    Tjian, R.4
  • 46
    • 34548183872 scopus 로고    scopus 로고
    • Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips
    • Rappsilber, J., Mann, M., Ishihama, Y., Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips. Nat. Protoc. 2 (2007), 1896–1906.
    • (2007) Nat. Protoc. , vol.2 , pp. 1896-1906
    • Rappsilber, J.1    Mann, M.2    Ishihama, Y.3
  • 48
    • 60149091189 scopus 로고    scopus 로고
    • Regulation of translation initiation in eukaryotes: mechanisms and biological targets
    • Sonenberg, N., Hinnebusch, A.G., Regulation of translation initiation in eukaryotes: mechanisms and biological targets. Cell 136 (2009), 731–745.
    • (2009) Cell , vol.136 , pp. 731-745
    • Sonenberg, N.1    Hinnebusch, A.G.2
  • 50
    • 33646852092 scopus 로고    scopus 로고
    • Characterization of RNase R-digested cellular RNA source that consists of lariat and circular RNAs from pre-mRNA splicing
    • Suzuki, H., Zuo, Y., Wang, J., Zhang, M.Q., Malhotra, A., Mayeda, A., Characterization of RNase R-digested cellular RNA source that consists of lariat and circular RNAs from pre-mRNA splicing. Nucleic Acids Res., 34, 2006, e63.
    • (2006) Nucleic Acids Res. , vol.34 , pp. e63
    • Suzuki, H.1    Zuo, Y.2    Wang, J.3    Zhang, M.Q.4    Malhotra, A.5    Mayeda, A.6
  • 51
    • 84921368391 scopus 로고    scopus 로고
    • Efficient backsplicing produces translatable circular mRNAs
    • Wang, Y., Wang, Z., Efficient backsplicing produces translatable circular mRNAs. RNA 21 (2015), 172–179.
    • (2015) RNA , vol.21 , pp. 172-179
    • Wang, Y.1    Wang, Z.2
  • 54
    • 84901357562 scopus 로고    scopus 로고
    • Synergistic interactions between the molecular and neuronal circadian networks drive robust behavioral circadian rhythms in Drosophila melanogaster
    • Weiss, R., Bartok, O., Mezan, S., Malka, Y., Kadener, S., Synergistic interactions between the molecular and neuronal circadian networks drive robust behavioral circadian rhythms in Drosophila melanogaster. PLoS Genet., 10, 2014, e1004252.
    • (2014) PLoS Genet. , vol.10 , pp. e1004252
    • Weiss, R.1    Bartok, O.2    Mezan, S.3    Malka, Y.4    Kadener, S.5
  • 55
    • 84915820022 scopus 로고    scopus 로고
    • Genome-wide analysis of drosophila circular RNAs reveals their structural and sequence properties and age-dependent neural accumulation
    • Westholm, J.O., Miura, P., Olson, S., Shenker, S., Joseph, B., Sanfilippo, P., Celniker, S.E., Graveley, B.R., Lai, E.C., Genome-wide analysis of drosophila circular RNAs reveals their structural and sequence properties and age-dependent neural accumulation. Cell Rep. 9 (2014), 1966–1980.
    • (2014) Cell Rep. , vol.9 , pp. 1966-1980
    • Westholm, J.O.1    Miura, P.2    Olson, S.3    Shenker, S.4    Joseph, B.5    Sanfilippo, P.6    Celniker, S.E.7    Graveley, B.R.8    Lai, E.C.9


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.