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Volumn 68, Issue 1, 2009, Pages 56-65

Short homologous sequences are strongly associated with the generation of chimeric RNAs in eukaryotes

Author keywords

Chimeric RNAs; Complexity of transcriptome; Short homologous sequences; Trans Splicing; Transcriptional slippage

Indexed keywords

ANIMALS; DROSOPHILA; EVOLUTION, MOLECULAR; HUMANS; MICE; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA; SACCHAROMYCES CEREVISIAE; SEQUENCE HOMOLOGY; TRANS-SPLICING;

EID: 59849091728     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-008-9187-0     Document Type: Article
Times cited : (71)

References (54)
  • 1
    • 23744491110 scopus 로고    scopus 로고
    • Transcriptional slippage in bacteria: Distribution in sequenced genomes and utilization in IS element gene expression
    • P Baranov A Hammer J Zhou R Gesteland J Atkins 2005 Transcriptional slippage in bacteria: distribution in sequenced genomes and utilization in IS element gene expression Genome Biol 6 R25
    • (2005) Genome Biol , vol.6 , pp. 25
    • Baranov, P.1    Hammer, A.2    Zhou, J.3    Gesteland, R.4    Atkins, J.5
  • 2
    • 0242636197 scopus 로고    scopus 로고
    • Alternative splicing and evolution
    • S Boue I Letunic P Bork 2003 Alternative splicing and evolution BioEssays 25 1031 1034
    • (2003) BioEssays , vol.25 , pp. 1031-1034
    • Boue, S.1    Letunic, I.2    Bork, P.3
  • 3
    • 0030610835 scopus 로고    scopus 로고
    • A truncated isoform of Ca2+/calmodulin-dependent protein kinase II expressed in human islets of Langerhans may result from trans-splicing
    • MA Breen SJH Ashcroft 1997 A truncated isoform of Ca2+/calmodulin- dependent protein kinase II expressed in human islets of Langerhans may result from trans-splicing FEBS Lett 409 375 379
    • (1997) FEBS Lett , vol.409 , pp. 375-379
    • Breen, M.A.1    Ashcroft, S.J.H.2
  • 5
    • 0025810050 scopus 로고
    • The wheat mitochondrial gene for subunit i of the NADH dehydrogenase complex: A trans-splicing model for this gene-in-pieces
    • Y Chapdelaine L Bonen 1991 The wheat mitochondrial gene for subunit I of the NADH dehydrogenase complex: a trans-splicing model for this gene-in-pieces Cell 65 465 472
    • (1991) Cell , vol.65 , pp. 465-472
    • Chapdelaine, Y.1    Bonen, L.2
  • 6
    • 33744542916 scopus 로고    scopus 로고
    • Close encounters between active genes in the nucleus
    • CH Chuang AS Belmont 2006 Close encounters between active genes in the nucleus Genome Biol 6 237
    • (2006) Genome Biol , vol.6 , pp. 237
    • Chuang, C.H.1    Belmont, A.S.2
  • 7
    • 33846698069 scopus 로고    scopus 로고
    • Complementary intron sequence motifs associated with human exon repetition: A role for intragenic, inter-transcript interactions in gene expression
    • RJ Dixon IC Eperon NJ Samani 2007 Complementary intron sequence motifs associated with human exon repetition: a role for intragenic, inter-transcript interactions in gene expression Bioinformatics 23 150 155
    • (2007) Bioinformatics , vol.23 , pp. 150-155
    • Dixon, R.J.1    Eperon, I.C.2    Samani, N.J.3
  • 8
    • 0035859961 scopus 로고    scopus 로고
    • Transgene analysis proves mRNA trans-splicing at the complex mod(mdg4) locus in Drosophila
    • R Dorn G Reuter A Loewendorf 2001 Transgene analysis proves mRNA trans-splicing at the complex mod(mdg4) locus in Drosophila Proc Natl Acad Sci USA 98 9724 9729
    • (2001) Proc Natl Acad Sci USA , vol.98 , pp. 9724-9729
    • Dorn, R.1    Reuter, G.2    Loewendorf, A.3
  • 9
    • 0037102613 scopus 로고    scopus 로고
    • Transcription and nuclear transport of CAG/CTG trinucleotide repeats in yeast
    • E Fabre B Dujon G-F Richard 2002 Transcription and nuclear transport of CAG/CTG trinucleotide repeats in yeast Nucleic Acids Res 30 3540 3547
    • (2002) Nucleic Acids Res , vol.30 , pp. 3540-3547
    • Fabre, E.1    Dujon, B.2    Richard, G.-F.3
  • 10
    • 0034144388 scopus 로고    scopus 로고
    • The human CYP2C locus: A prototype for intergenic and exon repetition splicing events
    • C Finta PG Zaphiropoulos 2000 The human CYP2C locus: a prototype for intergenic and exon repetition splicing events Genomics 63 433 438
    • (2000) Genomics , vol.63 , pp. 433-438
    • Finta, C.1    Zaphiropoulos, P.G.2
  • 11
    • 0037155267 scopus 로고    scopus 로고
    • Intergenic mRNA molecules resulting from trans-splicing
    • C Finta PG Zaphiropoulos 2002 Intergenic mRNA molecules resulting from trans-splicing J Biol Chem 277 5882 5890
    • (2002) J Biol Chem , vol.277 , pp. 5882-5890
    • Finta, C.1    Zaphiropoulos, P.G.2
  • 16
    • 0018263844 scopus 로고
    • Why genes in pieces?
    • W Gilbert 1978 Why genes in pieces? Nature 271 501 501
    • (1978) Nature , vol.271 , pp. 501-501
    • Gilbert, W.1
  • 17
    • 0035252410 scopus 로고    scopus 로고
    • Alternative splicing: Increasing diversity in the proteomic world
    • BR Graveley 2001 Alternative splicing: increasing diversity in the proteomic world Trends Genetics 17 100 107
    • (2001) Trends Genetics , vol.17 , pp. 100-107
    • Graveley, B.R.1
  • 18
    • 7644236846 scopus 로고    scopus 로고
    • Genomic organization of the mouse Msh4 gene producing bicistronic, chimeric and antisense mRNA
    • M Hirano T Noda 2004 Genomic organization of the mouse Msh4 gene producing bicistronic, chimeric and antisense mRNA Gene 342 165 177
    • (2004) Gene , vol.342 , pp. 165-177
    • Hirano, M.1    Noda, T.2
  • 19
    • 0024520745 scopus 로고
    • Site-directed mutagenesis by overlap extension using the polymerase chain reaction
    • SN Ho HD Hunt RM Horton JK Pullen LR Pease 1989 Site-directed mutagenesis by overlap extension using the polymerase chain reaction Gene 77 51 59
    • (1989) Gene , vol.77 , pp. 51-59
    • Ho, S.N.1    Hunt, H.D.2    Horton, R.M.3    Pullen, J.K.4    Pease, L.R.5
  • 20
    • 32544451144 scopus 로고    scopus 로고
    • Alternative trans-splicing: A novel mode of pre-mRNA processing
    • T Horiuchi T Aigaki 2006 Alternative trans-splicing: a novel mode of pre-mRNA processing Biol Cell 98 135 140
    • (2006) Biol Cell , vol.98 , pp. 135-140
    • Horiuchi, T.1    Aigaki, T.2
  • 21
    • 0142027944 scopus 로고    scopus 로고
    • Alternative trans-splicing of constant and variable exons of a Drosophila axon guidance gene, lola
    • T Horiuchi E Giniger T Aigaki 2003 Alternative trans-splicing of constant and variable exons of a Drosophila axon guidance gene, lola Genes Dev 17 2496 2501
    • (2003) Genes Dev , vol.17 , pp. 2496-2501
    • Horiuchi, T.1    Giniger, E.2    Aigaki, T.3
  • 22
    • 0031813779 scopus 로고    scopus 로고
    • Numbers and organization of RNA polymerases, nascent transcripts, and transcription units in HeLa nuclei
    • DA Jackson FJ Iborra EMM Manders PR Cook 1998 Numbers and organization of RNA polymerases, nascent transcripts, and transcription units in HeLa nuclei Mol Biol Cell 9 1523 1536
    • (1998) Mol Biol Cell , vol.9 , pp. 1523-1536
    • Jackson, D.A.1    Iborra, F.J.2    Manders, E.M.M.3    Cook, P.R.4
  • 24
    • 0000221783 scopus 로고
    • Structural and transcription analysis of two homologous genes for the P700 chlorophyll a-apoproteins in Chlamydomonas reinhardtii: Evidence for in vivo trans-splicing
    • U Kück Y Choquet M Schneider M Dron P Bennoun 1987 Structural and transcription analysis of two homologous genes for the P700 chlorophyll a-apoproteins in Chlamydomonas reinhardtii: evidence for in vivo trans-splicing EMBO J 6 2185 2195
    • (1987) EMBO J , vol.6 , pp. 2185-2195
    • Kück, U.1    Choquet, Y.2    Schneider, M.3    Dron, M.4    Bennoun, P.5
  • 26
    • 0036226603 scopus 로고    scopus 로고
    • BLAT-the BLAST-like alignment tool
    • WJ Kent 2002 BLAT-the BLAST-like alignment tool Genome Res 12 656 664
    • (2002) Genome Res , vol.12 , pp. 656-664
    • Kent, W.J.1
  • 27
    • 0023657387 scopus 로고
    • Evidence for in vivo trans splicing of pre-mRNAs in tobacco chloroplasts
    • B Koller H Fromm E Galun M Edelman 1987 Evidence for in vivo trans splicing of pre-mRNAs in tobacco chloroplasts Cell 48 111 119
    • (1987) Cell , vol.48 , pp. 111-119
    • Koller, B.1    Fromm, H.2    Galun, E.3    Edelman, M.4
  • 28
    • 0022376562 scopus 로고
    • Trans-splicing of mRNA precursors in vitro
    • MM Konarska RA Padgett PA Sharp 1985 Trans-splicing of mRNA precursors in vitro Cell 42 165 171
    • (1985) Cell , vol.42 , pp. 165-171
    • Konarska, M.M.1    Padgett, R.A.2    Sharp, P.A.3
  • 29
    • 33745423084 scopus 로고    scopus 로고
    • Overview: Methods and applications for droplet compartmentalization of biology
    • JH Leamon DR Link M Egholm JM Rothberg 2006 Overview: methods and applications for droplet compartmentalization of biology Nat Methods 3 541 543
    • (2006) Nat Methods , vol.3 , pp. 541-543
    • Leamon, J.H.1    Link, D.R.2    Egholm, M.3    Rothberg, J.M.4
  • 31
    • 34547893013 scopus 로고    scopus 로고
    • Functional consequences of new exon acquisition in mammalian chromodomain Y-like (CDYL) genes
    • X Li J Liang H Yu B Su C Xiao Y Shang W Wang 2007 Functional consequences of new exon acquisition in mammalian chromodomain Y-like (CDYL) genes Trends Genet 23 427 431
    • (2007) Trends Genet , vol.23 , pp. 427-431
    • Li, X.1    Liang, J.2    Yu, H.3    Su, B.4    Xiao, C.5    Shang, Y.6    Wang, W.7
  • 33
    • 0037062982 scopus 로고    scopus 로고
    • Alternative pre-mRNA splicing and proteome expansion in metazoans
    • T Maniatis B Tasic 2002 Alternative pre-mRNA splicing and proteome expansion in metazoans Nature 418 236 243
    • (2002) Nature , vol.418 , pp. 236-243
    • Maniatis, T.1    Tasic, B.2
  • 34
    • 26444468532 scopus 로고    scopus 로고
    • Pre-mRNA trans-splicing: From kinetoplastids to mammals, an easy language for life diversity
    • MG Mayer LM Floeter-Winter 2005 Pre-mRNA trans-splicing: from kinetoplastids to mammals, an easy language for life diversity Mem Inst Oswaldo Cruz 100 501 513
    • (2005) Mem Inst Oswaldo Cruz , vol.100 , pp. 501-513
    • Mayer, M.G.1    Floeter-Winter, L.M.2
  • 35
    • 0036235138 scopus 로고    scopus 로고
    • Trans-splicing as a novel mechanism to explain interallelic complementation in Drosophila
    • F Mongelard M Labrador EM Baxter TI Gerasimova VG Corces 2002 Trans-splicing as a novel mechanism to explain interallelic complementation in Drosophila Genetics 160 1481 1487
    • (2002) Genetics , vol.160 , pp. 1481-1487
    • Mongelard, F.1    Labrador, M.2    Baxter, E.M.3    Gerasimova, T.I.4    Corces, V.G.5
  • 36
    • 0035576933 scopus 로고    scopus 로고
    • Evolutionary origin of SL-addition trans-splicing: Still an enigma
    • TW Nilsen 2001 Evolutionary origin of SL-addition trans-splicing: still an enigma Trends Genet 17 678 680
    • (2001) Trends Genet , vol.17 , pp. 678-680
    • Nilsen, T.W.1
  • 38
    • 34250703869 scopus 로고    scopus 로고
    • The bursicon gene in mosquitoes: An unusual example of mRNA trans-splicing
    • HM Robertson JA Navik KKO Walden H-W Honegger 2007 The bursicon gene in mosquitoes: an unusual example of mRNA trans-splicing Genetics 176 1351 1353
    • (2007) Genetics , vol.176 , pp. 1351-1353
    • Robertson, H.M.1    Navik, J.A.2    Walden, K.K.O.3    Honegger, H.-W.4
  • 39
    • 0001253276 scopus 로고
    • Immunoglobulin double-isotype expression by trans-mRNA in a human immunoglobulin transgenic mouse
    • A Shimizu MC Nussenzweig T-R Mizuta P Leder T Honjo 1989 Immunoglobulin double-isotype expression by trans-mRNA in a human immunoglobulin transgenic mouse Proc Natl Acad Sci USA 86 8020 8023
    • (1989) Proc Natl Acad Sci USA , vol.86 , pp. 8020-8023
    • Shimizu, A.1    Nussenzweig, M.C.2    Mizuta, T.-R.3    Leder, P.4    Honjo, T.5
  • 40
    • 0025828378 scopus 로고
    • Trans-splicing as a possible molecular mechanism for the multiple isotype expression of the immunoglobulin gene
    • A Shimizu MC Nussenzweig H Han M Sanchez T Honjo 1991 Trans-splicing as a possible molecular mechanism for the multiple isotype expression of the immunoglobulin gene J Exp Med 173 1385 1393
    • (1991) J Exp Med , vol.173 , pp. 1385-1393
    • Shimizu, A.1    Nussenzweig, M.C.2    Han, H.3    Sanchez, M.4    Honjo, T.5
  • 41
    • 0022386757 scopus 로고
    • Trans-splicing of mRNA precursors
    • D Solnick 1985 Trans-splicing of mRNA precursors Cell 42 157 164
    • (1985) Cell , vol.42 , pp. 157-164
    • Solnick, D.1
  • 43
    • 0034534465 scopus 로고    scopus 로고
    • Heterogeneous sp1 mRNAs in human HepG2 cells Include a product of homotypic trans-splicing
    • T Takahara Kanazu S-i S Yanagisawa H Akanuma 2000 Heterogeneous sp1 mRNAs in human HepG2 cells Include a product of homotypic trans-splicing J Biol Chem 275 38067 38072
    • (2000) J Biol Chem , vol.275 , pp. 38067-38072
    • Takahara, T.1    Kanazu, S.-I.2    Yanagisawa, S.3    Akanuma, H.4
  • 45
    • 52449116694 scopus 로고    scopus 로고
    • Tentative mapping of transcription-induced interchromosomal interaction using chimeric EST and mRNA data
    • P Unneberg JM Claverie 2007 Tentative mapping of transcription-induced interchromosomal interaction using chimeric EST and mRNA data PLoS ONE 2 e254
    • (2007) PLoS ONE , vol.2 , pp. 254
    • Unneberg, P.1    Claverie, J.M.2
  • 47
    • 6844258835 scopus 로고    scopus 로고
    • Frameshift mutants of beta amyloid precursor protein and ubiquitin-B in Alzheimer's and Down patients
    • FW van Leeuwen DP de Kleijn 1998 Frameshift mutants of beta amyloid precursor protein and ubiquitin-B in Alzheimer's and Down patients Science 279 242 247
    • (1998) Science , vol.279 , pp. 242-247
    • Van Leeuwen, F.W.1    De Kleijn, D.P.2
  • 48
    • 0026588111 scopus 로고
    • A potential splicing factor is encoded by the opposite strand of the trans-spliced c-myb exon
    • M Vellard A Sureau J Soret C Martinerie B Perbal 1992 A potential splicing factor is encoded by the opposite strand of the trans-spliced c-myb exon Proc Natl Acad Sci USA 89 2511 2515
    • (1992) Proc Natl Acad Sci USA , vol.89 , pp. 2511-2515
    • Vellard, M.1    Sureau, A.2    Soret, J.3    Martinerie, C.4    Perbal, B.5
  • 49
    • 0035895505 scopus 로고    scopus 로고
    • The sequence of the human genome
    • JC Venter MD Adams EW Myers 2001 The sequence of the human genome Science 291 1304 1351
    • (2001) Science , vol.291 , pp. 1304-1351
    • Venter, J.C.1    Adams, M.D.2    Myers, E.W.3
  • 50
    • 0025329221 scopus 로고
    • Transcriptional slippage occurs during elongation at runs of adenine or thymine in Escherichia coli
    • LA Wagner RB Weiss R Driscoll DS Dunn RF Gesteland 1990 Transcriptional slippage occurs during elongation at runs of adenine or thymine in Escherichia coli Nucleic Acids Res 18 3529 3535
    • (1990) Nucleic Acids Res , vol.18 , pp. 3529-3535
    • Wagner, L.A.1    Weiss, R.B.2    Driscoll, R.3    Dunn, D.S.4    Gesteland, R.F.5
  • 52
    • 0033168090 scopus 로고    scopus 로고
    • RNA molecules containing exons originating from different members of the cytochrome P450 2C gene subfamily (CYP2C) in human epidermis and liver
    • PG Zaphiropoulos 1999 RNA molecules containing exons originating from different members of the cytochrome P450 2C gene subfamily (CYP2C) in human epidermis and liver Nucleic Acids Res 27 2585 2590
    • (1999) Nucleic Acids Res , vol.27 , pp. 2585-2590
    • Zaphiropoulos, P.G.1
  • 53
    • 0038235237 scopus 로고    scopus 로고
    • A candidate chimeric mammalian mRNA transcript Is derived from distinct chromosomes and Is associated with nonconsensus splice junction motifs
    • C Zhang Y Xie JA Martignetti TT Yeo SM Massa FM Longo 2003 A candidate chimeric mammalian mRNA transcript Is derived from distinct chromosomes and Is associated with nonconsensus splice junction motifs DNA Cell Biol 22 303 315
    • (2003) DNA Cell Biol , vol.22 , pp. 303-315
    • Zhang, C.1    Xie, Y.2    Martignetti, J.A.3    Yeo, T.T.4    Massa, S.M.5    Longo, F.M.6
  • 54
    • 59849122498 scopus 로고    scopus 로고
    • Interchromosomal trans-splicing of DMRT1 gene on chicken chromosome Z
    • Y Zhao Yu H-s H Lu K Yao Cheng H-h Zhou R-j 2006 Interchromosomal trans-splicing of DMRT1 gene on chicken chromosome Z Zool Res 27 175 180
    • (2006) Zool Res , vol.27 , pp. 175-180
    • Zhao, Y.1    Yu, H.-S.2    Lu, H.3    Yao, K.4    Cheng, H.5    Zhou, R.-J.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.