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Volumn 108, Issue 20, 2011, Pages 8345-8350

Pseudogene-derived small interference RNAs regulate gene expression in African Trypanosoma brucei

Author keywords

Gene regulation; High through put sequencing; Nagana; Noncoding RNAs; Sleeping sickness

Indexed keywords

COMPLEMENTARY RNA; MESSENGER RNA; MICRORNA; SMALL INTERFERING RNA; UNTRANSLATED RNA;

EID: 79957741638     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1103894108     Document Type: Article
Times cited : (56)

References (48)
  • 1
    • 0022293979 scopus 로고
    • Processed pseudogenes: Characteristics and evolution
    • Vanin EF (1985) Processed pseudogenes: Characteristics and evolution. Annu Rev Genet 19:253-272.
    • (1985) Annu Rev Genet , vol.19 , pp. 253-272
    • Vanin, E.F.1
  • 3
    • 0033568856 scopus 로고    scopus 로고
    • Neuronal expression of neural nitric oxide synthase (nNOS) protein is suppressed by an antisense RNA transcribed from an NOS pseudogene
    • Korneev SA, Park JH, O'Shea M (1999) Neuronal expression of neural nitric oxide synthase (nNOS) protein is suppressed by an antisense RNA transcribed from an NOS pseudogene. J Neurosci 19:7711-7720. (Pubitemid 30225771)
    • (1999) Journal of Neuroscience , vol.19 , Issue.18 , pp. 7711-7720
    • Korneev, S.A.1    Park, J.-H.2    O'Shea, M.3
  • 4
    • 0346155809 scopus 로고    scopus 로고
    • Pseudogenes: Are they "junk" or functional DNA?
    • Balakirev ES, Ayala FJ (2003) Pseudogenes: Are they "junk" or functional DNA? Annu Rev Genet 37:123-151.
    • (2003) Annu Rev Genet , vol.37 , pp. 123-151
    • Balakirev, E.S.1    Ayala, F.J.2
  • 5
    • 0036667683 scopus 로고    scopus 로고
    • Evolution of nitric oxide synthase regulatory genes by DNA inversion
    • Korneev SA, O'Shea M (2002) Evolution of nitric oxide synthase regulatory genes by DNA inversion. Mol Biol Evol 19:1228-1233.
    • (2002) Mol Biol Evol , vol.19 , pp. 1228-1233
    • Korneev, S.A.1    O'Shea, M.2
  • 7
    • 13944276686 scopus 로고    scopus 로고
    • Timed and targeted differential regulation of nitric oxide synthase (NOS) and anti-NOS genes by reward conditioning leading to long-term memory formation
    • DOI 10.1523/JNEUROSCI.4671-04.2005
    • Korneev SA, et al. (2005) Timed and targeted differential regulation of nitric oxide synthase (NOS) and anti-NOS genes by reward conditioning leading to long-term memory formation. J Neurosci 25:1188-1192. (Pubitemid 40268960)
    • (2005) Journal of Neuroscience , vol.25 , Issue.5 , pp. 1188-1192
    • Korneev, S.A.1    Straub, V.2    Kemenes, I.3    Korneeva, E.I.4    Ott, S.R.5    Benjamin, P.R.6    O'Shea, M.7
  • 10
    • 68249084505 scopus 로고    scopus 로고
    • Small RNAs originated from pseudogenes: Cis- or trans-acting?
    • Guo X, Zhang Z, Gerstein MB, Zheng D (2009) Small RNAs originated from pseudogenes: cis- or trans-acting? PLOS Comput Biol 5:e1000449.
    • (2009) PLOS Comput Biol , vol.5
    • Guo, X.1    Zhang, Z.2    Gerstein, M.B.3    Zheng, D.4
  • 12
    • 47149105277 scopus 로고    scopus 로고
    • The trypanosome transcriptome is remodelled during differentiation but displays limited responsiveness within life stages
    • Koumandou VL, Natesan SK, Sergeenko T, Field MC (2008) The trypanosome transcriptome is remodelled during differentiation but displays limited responsiveness within life stages. BMC Genomics 9:298.
    • (2008) BMC Genomics , vol.9 , pp. 298
    • Koumandou, V.L.1    Natesan, S.K.2    Sergeenko, T.3    Field, M.C.4
  • 13
    • 70450253253 scopus 로고    scopus 로고
    • Widespread variation in transcript abundance within and across developmental stages of Trypanosoma brucei
    • Jensen BC, Sivam D, Kifer CT, Myler PJ, Parsons M (2009) Widespread variation in transcript abundance within and across developmental stages of Trypanosoma brucei. BMC Genomics 10:482.
    • (2009) BMC Genomics , vol.10 , pp. 482
    • Jensen, B.C.1    Sivam, D.2    Kifer, C.T.3    Myler, P.J.4    Parsons, M.5
  • 14
    • 70549084861 scopus 로고    scopus 로고
    • Transcriptome analysis of differentiating trypanosomes reveals the existence of multiple post-transcriptional regulons
    • Queiroz R, Benz C, Fellenberg K, Hoheisel JD, Clayton C (2009) Transcriptome analysis of differentiating trypanosomes reveals the existence of multiple post-transcriptional regulons. BMC Genomics 10:495.
    • (2009) BMC Genomics , vol.10 , pp. 495
    • Queiroz, R.1    Benz, C.2    Fellenberg, K.3    Hoheisel, J.D.4    Clayton, C.5
  • 15
    • 74049131045 scopus 로고    scopus 로고
    • Coordinated gene expression by post-transcriptional regulons in African trypanosomes
    • Ouellette M, Papadopoulou B (2009) Coordinated gene expression by post-transcriptional regulons in African trypanosomes. J Biol 8:100.
    • (2009) J Biol , vol.8 , pp. 100
    • Ouellette, M.1    Papadopoulou, B.2
  • 16
    • 2442436725 scopus 로고    scopus 로고
    • RNA interference in protozoan parasites
    • DOI 10.1111/j.1462-5822.2004.00399.x
    • Ullu E, Tschudi C, Chakraborty T (2004) RNA interference in protozoan parasites. Cell Microbiol 6:509-519. (Pubitemid 38618662)
    • (2004) Cellular Microbiology , vol.6 , Issue.6 , pp. 509-519
    • Ullu, E.1    Tschudi, C.2    Chakraborty, T.3
  • 19
    • 0024708538 scopus 로고
    • Antigenic diversity by the recombination of pseudogenes
    • Thon G, Baltz T, Eisen H (1989) Antigenic diversity by the recombination of pseudogenes. Genes Dev 3:1247-1254.
    • (1989) Genes Dev , vol.3 , pp. 1247-1254
    • Thon, G.1    Baltz, T.2    Eisen, H.3
  • 20
    • 0035160923 scopus 로고    scopus 로고
    • RNA interference in Trypanosoma brucei: Cloning of small interfering RNAs provides evidence for retroposon-derived 24-26-nucleotide RNAs
    • Djikeng A, Shi H, Tschudi C, Ullu E (2001) RNA interference in Trypanosoma brucei: Cloning of small interfering RNAs provides evidence for retroposon-derived 24-26-nucleotide RNAs. RNA 7:1522-1530. (Pubitemid 33078928)
    • (2001) RNA , vol.7 , Issue.11 , pp. 1522-1530
    • Djikeng, A.1    Shi, H.2    Tschudi, C.3    Ullu, E.4
  • 21
    • 41349114789 scopus 로고    scopus 로고
    • Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5′ terminal nucleotide
    • Mi S, et al. (2008) Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5′ terminal nucleotide. Cell 133:25-26.
    • (2008) Cell , vol.133 , pp. 25-26
    • Mi, S.1
  • 22
    • 41149158475 scopus 로고    scopus 로고
    • Specificity of ARGONAUTE7-miR390 interaction and dual functionality in TAS3 trans-acting siRNA formation
    • Montgomery TA, et al. (2008) Specificity of ARGONAUTE7-miR390 interaction and dual functionality in TAS3 trans-acting siRNA formation. Cell 133:128-141.
    • (2008) Cell , vol.133 , pp. 128-141
    • Montgomery, T.A.1
  • 23
    • 33845270165 scopus 로고    scopus 로고
    • An unusual Dicer-like1 protein fuels the RNA interference pathway in Trypanosoma brucei
    • DOI 10.1261/rna.246906
    • Shi H, Tschudi C, Ullu E (2006) An unusual Dicer-like1 protein fuels the RNA interference pathway in Trypanosoma brucei. RNA 12:2063-2072. (Pubitemid 44865954)
    • (2006) RNA , vol.12 , Issue.12 , pp. 2063-2072
    • Shi, H.1    Tschudi, C.2    Ullu, E.3
  • 24
    • 70449560425 scopus 로고    scopus 로고
    • Distinct and overlapping roles for two Dicer-like proteins in the RNA interference pathways of the ancient eukaryote Trypanosoma brucei
    • Patrick KL, et al. (2009) Distinct and overlapping roles for two Dicer-like proteins in the RNA interference pathways of the ancient eukaryote Trypanosoma brucei. Proc Natl Acad Sci USA 106:17933-17938.
    • (2009) Proc Natl Acad Sci USA , vol.106 , pp. 17933-17938
    • Patrick, K.L.1
  • 25
    • 78651270025 scopus 로고    scopus 로고
    • Small nucleolar RNA interference in Trypanosoma brucei: Mechanism and utilization for elucidating the function of snoRNAs
    • Gupta SK, et al. (2010) Small nucleolar RNA interference in Trypanosoma brucei: Mechanism and utilization for elucidating the function of snoRNAs. Nucleic Acids Res 38:7236-7247.
    • (2010) Nucleic Acids Res , vol.38 , pp. 7236-7247
    • Gupta, S.K.1
  • 26
    • 0026770382 scopus 로고
    • Differential antisense transcription from the Dictyostelium EB4 gene locus: Implications on antisense-mediated regulation of mRNA stability
    • Hildebrandt M, Nellen W (1992) Differential antisense transcription from the Dictyostelium EB4 gene locus: Implications on antisense-mediated regulation of mRNA stability. Cell 69:197-204.
    • (1992) Cell , vol.69 , pp. 197-204
    • Hildebrandt, M.1    Nellen, W.2
  • 27
    • 78651271733 scopus 로고    scopus 로고
    • Integrative genomics viewer
    • Robinson JT, et al. (2011) Integrative genomics viewer. Nat Biotechnol 29:24-26.
    • (2011) Nat Biotechnol , vol.29 , pp. 24-26
    • Robinson, J.T.1
  • 28
    • 75549084786 scopus 로고    scopus 로고
    • DeepBase: A database for deeply annotating and mining deep sequencing data
    • Yang JH, Shao P, Zhou H, Chen YQ, Qu LH (2010) deepBase: A database for deeply annotating and mining deep sequencing data. Nucleic Acids Res 38(Database issue): D123-D130.
    • (2010) Nucleic Acids Res , vol.38 , Issue.DATABASE ISSUE
    • Yang, J.H.1    Shao, P.2    Zhou, H.3    Chen, Y.Q.4    Qu, L.H.5
  • 29
    • 0037062951 scopus 로고    scopus 로고
    • RNA interference
    • Hannon GJ (2002) RNA interference. Nature 418:244-251.
    • (2002) Nature , vol.418 , pp. 244-251
    • Hannon, G.J.1
  • 31
    • 0040175431 scopus 로고    scopus 로고
    • Do natural antisense transcripts make sense in eukaryotes?
    • Vanhée-Brossollet C, Vaquero C (1998) Do natural antisense transcripts make sense in eukaryotes? Gene 211:1-9.
    • (1998) Gene , vol.211 , pp. 1-9
    • Vanhée-Brossollet, C.1    Vaquero, C.2
  • 33
    • 35348959885 scopus 로고    scopus 로고
    • The Argonaute protein TbAGO1 contributes to large and mini-chromosome segregation and is required for control of RIME retroposons and RHS pseudogene-associated transcripts
    • DOI 10.1016/j.molbiopara.2007.07.016, PII S0166685107002198
    • Durand-Dubief M, et al. (2007) The Argonaute protein TbAGO1 contributes to large and mini-chromosome segregation and is required for control of RIME retroposons and RHS pseudogene-associated transcripts. Mol Biochem Parasitol 156:144-153. (Pubitemid 47600366)
    • (2007) Molecular and Biochemical Parasitology , vol.156 , Issue.2 , pp. 144-153
    • Durand-Dubief, M.1    Absalon, S.2    Menzer, L.3    Ngwabyt, S.4    Ersfeld, K.5    Bastin, P.6
  • 35
    • 2442597534 scopus 로고    scopus 로고
    • TbAGO1, an argonaute protein required for RNA interference, is involved in mitosis and chromosome segregation in Trypanosoma brucei
    • Durand-Dubief M, Bastin P (2003) TbAGO1, an argonaute protein required for RNA interference, is involved in mitosis and chromosome segregation in Trypanosoma brucei. BMC Biol 1:2.
    • (2003) BMC Biol , vol.1 , pp. 2
    • Durand-Dubief, M.1    Bastin, P.2
  • 36
    • 0346363759 scopus 로고    scopus 로고
    • Argonaute Protein in the Early Divergent Eukaryote Trypanosoma brucei: Control of Small Interfering RNA Accumulation and Retroposon Transcript Abundance
    • DOI 10.1128/MCB.24.1.420-427.2004
    • Shi H, Djikeng A, Tschudi C, Ullu E (2004) Argonaute protein in the early divergent eukaryote Trypanosoma brucei: Control of small interfering RNA accumulation and retroposon transcript abundance. Mol Cell Biol 24:420-427. (Pubitemid 38010066)
    • (2004) Molecular and Cellular Biology , vol.24 , Issue.1 , pp. 420-427
    • Shi, H.1    Djikeng, A.2    Tschudi, C.3    Ullu, E.4
  • 37
    • 34250832878 scopus 로고    scopus 로고
    • Depletion of newly synthesized Argonaute1 impairs the RNAi response in Trypanosoma brucei
    • DOI 10.1261/rna.474707
    • Shi H, Tschudi C, Ullu E (2007) Depletion of newly synthesized Argonaute1 impairs the RNAi response in Trypanosoma brucei. RNA 13:1132-1139. (Pubitemid 46984902)
    • (2007) RNA , vol.13 , Issue.7 , pp. 1132-1139
    • Shi, H.1    Tschudi, C.2    Ullu, E.3
  • 38
    • 33645528966 scopus 로고    scopus 로고
    • Post-transcriptional small RNA pathways in plants: Mechanisms and regulations
    • Vaucheret H (2006) Post-transcriptional small RNA pathways in plants: Mechanisms and regulations. Genes Dev 20:759-771.
    • (2006) Genes Dev , vol.20 , pp. 759-771
    • Vaucheret, H.1
  • 39
    • 33846527241 scopus 로고    scopus 로고
    • Distinct populations of primary and secondary effectors during RNAi in C. elegans
    • DOI 10.1126/science.1132839
    • Pak J, Fire A (2007) Distinct populations of primary and secondary effectors during RNAi in C. elegans. Science 315:241-244. (Pubitemid 46166369)
    • (2007) Science , vol.315 , Issue.5809 , pp. 241-244
    • Pak, J.1    Fire, A.2
  • 40
    • 33846524902 scopus 로고    scopus 로고
    • Secondary siRNAs result from unprimed RNA synthesis and form a distinct class
    • DOI 10.1126/science.1136699
    • Sijen T, Steiner FA, Thijssen KL, Plasterk RH (2007) Secondary siRNAs result from unprimed RNA synthesis and form a distinct class. Science 315:244-247. (Pubitemid 46166370)
    • (2007) Science , vol.315 , Issue.5809 , pp. 244-247
    • Sijen, T.1    Steiner, F.A.2    Thijssen, K.L.3    Plasterk, R.H.A.4
  • 41
    • 33947236065 scopus 로고    scopus 로고
    • Genome-wide profiling and analysis of Arabidopsis siRNAs
    • Kasschau KD, et al. (2007) Genome-wide profiling and analysis of Arabidopsis siRNAs. PLoS Biol 5:e57.
    • (2007) PLoS Biol , vol.5
    • Kasschau, K.D.1
  • 42
    • 0014884946 scopus 로고
    • Isolation of salivarian trypanosomes from man and other mammals using DEAE-cellulose
    • Lanham SM, Godfrey DG (1970) Isolation of salivarian trypanosomes from man and other mammals using DEAE-cellulose. Exp Parasitol 28:521-534.
    • (1970) Exp Parasitol , vol.28 , pp. 521-534
    • Lanham, S.M.1    Godfrey, D.G.2
  • 43
    • 62549093977 scopus 로고    scopus 로고
    • Kinetoplastid guide RNA biogenesis is dependent on subunits of the mitochondrial RNA binding complex 1 and mitochondrial RNA polymerase
    • Hashimi H, Cicová Z, Novotná L, Wen YZ, Lukes J (2009) Kinetoplastid guide RNA biogenesis is dependent on subunits of the mitochondrial RNA binding complex 1 and mitochondrial RNA polymerase. RNA 15:588-599.
    • (2009) RNA , vol.15 , pp. 588-599
    • Hashimi, H.1    Cicová, Z.2    Novotná, L.3    Wen, Y.Z.4    Lukes, J.5
  • 44
    • 75549088870 scopus 로고    scopus 로고
    • TriTrypDB: A functional genomic resource for the Trypanosomatidae
    • Aslett M, et al. (2010) TriTrypDB: A functional genomic resource for the Trypanosomatidae. Nucleic Acids Res 38(Database issue):D457-D462.
    • (2010) Nucleic Acids Res , vol.38 , Issue.DATABASE ISSUE
    • Aslett, M.1
  • 45
    • 77956278708 scopus 로고    scopus 로고
    • Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 3′ trailers
    • Liao JY, et al. (2010) Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 3′ trailers. PLoS ONE 5:e10563.
    • (2010) PLoS ONE , vol.5
    • Liao, J.Y.1
  • 46
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead B, Trapnell C, Pop M, Salzberg SL (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10:R25.
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 48
    • 29144470346 scopus 로고    scopus 로고
    • Real-time quantification of microRNAs by stem-loop RT-PCR
    • Chen C, et al. (2005) Real-time quantification of microRNAs by stem-loop RT-PCR. Nucleic Acids Res 33:e179.
    • (2005) Nucleic Acids Res , vol.33
    • Chen, C.1


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