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Volumn 42, Issue 6, 2012, Pages 381-395

Identification and developmental profiling of conserved and novel microRNAs in Manduca sexta

Author keywords

Illumina sequencing; Lepidopteran insect; Metamorphosis; Posttranscriptional regulation; Small RNA

Indexed keywords

COMPLEMENTARY RNA; MICRORNA;

EID: 84862829539     PISSN: 09651748     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ibmb.2012.01.006     Document Type: Article
Times cited : (62)

References (63)
  • 1
    • 4644309196 scopus 로고    scopus 로고
    • The functions of animal microRNAs
    • Ambros V. The functions of animal microRNAs. Nature 2004, 431:350-355.
    • (2004) Nature , vol.431 , pp. 350-355
    • Ambros, V.1
  • 3
    • 0347444723 scopus 로고    scopus 로고
    • MicroRNAs: genomics, biogenesis, mechanism, and function
    • Bartel D.P. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 2004, 116:281-297.
    • (2004) Cell , vol.116 , pp. 281-297
    • Bartel, D.P.1
  • 5
    • 36749036028 scopus 로고    scopus 로고
    • Anopheles gambiae miRNAs as actors of defence reaction against Plasmodium invasion
    • Brunel C., Winter F., Edaye S., Huttenhofer A. Anopheles gambiae miRNAs as actors of defence reaction against Plasmodium invasion. Nucleic Acids Res. 2007, 35:6953-6962.
    • (2007) Nucleic Acids Res. , vol.35 , pp. 6953-6962
    • Brunel, C.1    Winter, F.2    Edaye, S.3    Huttenhofer, A.4
  • 7
    • 59649091117 scopus 로고    scopus 로고
    • Identification of conserved microRNAs in Bombyx mori (silkworm) and regulation of fibroin L chain production by microRNAs in heterologous system
    • Cao J., Tong C., Wu X., Lv J., Yang Z., Jin Y. Identification of conserved microRNAs in Bombyx mori (silkworm) and regulation of fibroin L chain production by microRNAs in heterologous system. Insect Biochem. Mol. Biol. 2008, 38:1066-1071.
    • (2008) Insect Biochem. Mol. Biol. , vol.38 , pp. 1066-1071
    • Cao, J.1    Tong, C.2    Wu, X.3    Lv, J.4    Yang, Z.5    Jin, Y.6
  • 8
    • 33745807260 scopus 로고    scopus 로고
    • An approach for the identification of microRNA with an application to Anopheles gambiae
    • Chatterjee R., Chaudhuri K. An approach for the identification of microRNA with an application to Anopheles gambiae. Acta Biochim. Pol. 2006, 53:303-309.
    • (2006) Acta Biochim. Pol. , vol.53 , pp. 303-309
    • Chatterjee, R.1    Chaudhuri, K.2
  • 10
    • 78449292347 scopus 로고    scopus 로고
    • Next-generation small RNA sequencing for microRNAs profiling in the honey bee Apis mellifera
    • Chen X., Yu X., Cai Y., Zheng H., Yu D., Liu G., Zhou Q., Hu S., Hu F. Next-generation small RNA sequencing for microRNAs profiling in the honey bee Apis mellifera. Insect Mol. Biol. 2010, 19:799-805.
    • (2010) Insect Mol. Biol. , vol.19 , pp. 799-805
    • Chen, X.1    Yu, X.2    Cai, Y.3    Zheng, H.4    Yu, D.5    Liu, G.6    Zhou, Q.7    Hu, S.8    Hu, F.9
  • 11
    • 79955727264 scopus 로고    scopus 로고
    • Deep sequencing of organ- and stage-specific microRNAs in the evolutionarily basal insect Blattella germanica (L.) (Dictyoptera, Blattellidae)
    • Cristino A.S., Tanaka E.D., Rubio M., Piulachs M.D., Belles X. Deep sequencing of organ- and stage-specific microRNAs in the evolutionarily basal insect Blattella germanica (L.) (Dictyoptera, Blattellidae). PLoS One 2011, 6:e19350.
    • (2011) PLoS One , vol.6
    • Cristino, A.S.1    Tanaka, E.D.2    Rubio, M.3    Piulachs, M.D.4    Belles, X.5
  • 12
    • 0035863097 scopus 로고    scopus 로고
    • RNA interference is mediated by 21- and 22-nucleotide RNAs
    • Elbashir S.M., Lendeckel W., Tuschl T. RNA interference is mediated by 21- and 22-nucleotide RNAs. Genes Dev. 2001, 15:188-200.
    • (2001) Genes Dev. , vol.15 , pp. 188-200
    • Elbashir, S.M.1    Lendeckel, W.2    Tuschl, T.3
  • 13
    • 75649129754 scopus 로고    scopus 로고
    • Sorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway
    • Ghildiyal M., Xu J., Seitz H., Weng Z., Zamore P.D. Sorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway. RNA 2010, 16:43-56.
    • (2010) RNA , vol.16 , pp. 43-56
    • Ghildiyal, M.1    Xu, J.2    Seitz, H.3    Weng, Z.4    Zamore, P.D.5
  • 15
    • 77955328547 scopus 로고    scopus 로고
    • The fate of miRNA* strand through evolutionary analysis: implication for degradation as merely carrier strand or potential regulatory molecule?
    • Guo L., Lu Z. The fate of miRNA* strand through evolutionary analysis: implication for degradation as merely carrier strand or potential regulatory molecule?. PLoS One 2010, 5:e11387.
    • (2010) PLoS One , vol.5
    • Guo, L.1    Lu, Z.2
  • 16
    • 77955358753 scopus 로고    scopus 로고
    • Developmental expression of mRNAs for epidermal and fat body proteins and hormonally regulated transcription factors in the tobacco hornworm, Manduca sexta
    • Hiruma K., Riddiford L.M. Developmental expression of mRNAs for epidermal and fat body proteins and hormonally regulated transcription factors in the tobacco hornworm, Manduca sexta. J. Insect Physiol. 2010, 56:1390-1395.
    • (2010) J. Insect Physiol. , vol.56 , pp. 1390-1395
    • Hiruma, K.1    Riddiford, L.M.2
  • 17
    • 0043123153 scopus 로고    scopus 로고
    • Vienna RNA secondary structure server
    • Hofacker I.L. Vienna RNA secondary structure server. Nucleic Acids Res. 2003, 31:3429-3431.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3429-3431
    • Hofacker, I.L.1
  • 18
    • 77956974049 scopus 로고    scopus 로고
    • Computational identification and characteristics of novel microRNAs from the silkworm (Bombyx mori L.)
    • Huang Y., Zou Q., Tang S.M., Wang L.G., Shen X.J. Computational identification and characteristics of novel microRNAs from the silkworm (Bombyx mori L.). Mol. Biol. Rep. 2010, 37:3171-3176.
    • (2010) Mol. Biol. Rep. , vol.37 , pp. 3171-3176
    • Huang, Y.1    Zou, Q.2    Tang, S.M.3    Wang, L.G.4    Shen, X.J.5
  • 19
    • 78751477191 scopus 로고    scopus 로고
    • Gene silencing by microRNAs: contributions of translational repression and mRNA decay
    • Huntzinger E., Izaurralde E. Gene silencing by microRNAs: contributions of translational repression and mRNA decay. Nat. Rev. Genet. 2011, 12:99-110.
    • (2011) Nat. Rev. Genet. , vol.12 , pp. 99-110
    • Huntzinger, E.1    Izaurralde, E.2
  • 20
    • 77349092849 scopus 로고    scopus 로고
    • Deep sequencing of small RNA libraries reveals dynamic regulation of conserved and novel microRNAs and microRNA-stars during silkworm development
    • Jagadeeswaran G., Zheng Y., Sumathipala N., Jiang H., Arrese E.L., Soulages J.L., Zhang W., Sunkar R. Deep sequencing of small RNA libraries reveals dynamic regulation of conserved and novel microRNAs and microRNA-stars during silkworm development. BMC Genomics 2010, 11:52.
    • (2010) BMC Genomics , vol.11 , pp. 52
    • Jagadeeswaran, G.1    Zheng, Y.2    Sumathipala, N.3    Jiang, H.4    Arrese, E.L.5    Soulages, J.L.6    Zhang, W.7    Sunkar, R.8
  • 21
    • 77958460848 scopus 로고    scopus 로고
    • Discovering conserved insect microRNAs from expressed sequence tags
    • Jia Q., Lin K., Liang J., Yu L., Li F. Discovering conserved insect microRNAs from expressed sequence tags. J. Insect Physiol. 2010, 56:1763-1769.
    • (2010) J. Insect Physiol. , vol.56 , pp. 1763-1769
    • Jia, Q.1    Lin, K.2    Liang, J.3    Yu, L.4    Li, F.5
  • 24
    • 2942672580 scopus 로고    scopus 로고
    • Computational identification of plant microRNAs and their targets, including a stress-induced miRNA
    • Jones-Rhoades M.W., Bartel D.P. Computational identification of plant microRNAs and their targets, including a stress-induced miRNA. Mol. Cell 2004, 14:787-799.
    • (2004) Mol. Cell , vol.14 , pp. 787-799
    • Jones-Rhoades, M.W.1    Bartel, D.P.2
  • 25
    • 67649663873 scopus 로고    scopus 로고
    • Dynamic expression of small non-coding RNAs, including novel microRNAs and piRNAs/21U-RNAs, during Caenorhabditis elegans development
    • Kato M., de Lencastre A., Pincus Z., Slack F.J. Dynamic expression of small non-coding RNAs, including novel microRNAs and piRNAs/21U-RNAs, during Caenorhabditis elegans development. Genome Biol. 2009, 10:R54.
    • (2009) Genome Biol. , vol.10
    • Kato, M.1    de Lencastre, A.2    Pincus, Z.3    Slack, F.J.4
  • 26
    • 78649679968 scopus 로고    scopus 로고
    • PiRNAs, transposon silencing, and Drosophila germline development
    • Khurana J.S., Theurkauf W. piRNAs, transposon silencing, and Drosophila germline development. J. Cell Biol. 2010, 191:905-913.
    • (2010) J. Cell Biol. , vol.191 , pp. 905-913
    • Khurana, J.S.1    Theurkauf, W.2
  • 27
    • 42649108354 scopus 로고    scopus 로고
    • Bioimaging of the unbalanced expression of microRNA9 and microRNA9* during the neuronal differentiation of P19 cells
    • Ko M.H., Kim S., Hwang do W., Ko H.Y., Kim Y.H., Lee D.S. Bioimaging of the unbalanced expression of microRNA9 and microRNA9* during the neuronal differentiation of P19 cells. FEBS J. 2008, 275:2605-2616.
    • (2008) FEBS J. , vol.275 , pp. 2605-2616
    • Ko, M.H.1    Kim, S.2    Hwang do, W.3    Ko, H.Y.4    Kim, Y.H.5    Lee, D.S.6
  • 28
    • 0035955374 scopus 로고    scopus 로고
    • Identification of novel genes coding for small expressed RNAs
    • Lagos-Quintana M., Rauhut R., Lendeckel W., Tuschl T. Identification of novel genes coding for small expressed RNAs. Science 2001, 294:853-858.
    • (2001) Science , vol.294 , pp. 853-858
    • Lagos-Quintana, M.1    Rauhut, R.2    Lendeckel, W.3    Tuschl, T.4
  • 30
    • 70349641600 scopus 로고    scopus 로고
    • Abundant primary piRNAs, endo-siRNAs, and microRNAs in a Drosophila ovary cell line
    • Lau N.C., Robine N., Martin R., Chung W.J., Niki Y., Berezikov E., Lai E.C. Abundant primary piRNAs, endo-siRNAs, and microRNAs in a Drosophila ovary cell line. Genome Res. 2009, 19:1776-1785.
    • (2009) Genome Res. , vol.19 , pp. 1776-1785
    • Lau, N.C.1    Robine, N.2    Martin, R.3    Chung, W.J.4    Niki, Y.5    Berezikov, E.6    Lai, E.C.7
  • 32
    • 73449112961 scopus 로고    scopus 로고
    • Direct sequencing and expression analysis of a large number of miRNAs in Aedes aegypti and a multi-species survey of novel mosquito miRNAs
    • Li S., Mead E.A., Liang S., Tu Z. Direct sequencing and expression analysis of a large number of miRNAs in Aedes aegypti and a multi-species survey of novel mosquito miRNAs. BMC Genomics 2009, 10:581.
    • (2009) BMC Genomics , vol.10 , pp. 581
    • Li, S.1    Mead, E.A.2    Liang, S.3    Tu, Z.4
  • 33
    • 79957844864 scopus 로고    scopus 로고
    • MicroRNA expression profiling during the life cycle of the silkworm (Bombyx mori)
    • Liu S., Zhang L., Li Q., Zhao P., Duan J., Cheng D., Xiang Z., Xia Q. MicroRNA expression profiling during the life cycle of the silkworm (Bombyx mori). BMC Genomics 2011, 12:284.
    • (2011) BMC Genomics , vol.12 , pp. 284
    • Liu, S.1    Zhang, L.2    Li, Q.3    Zhao, P.4    Duan, J.5    Cheng, D.6    Xiang, Z.7    Xia, Q.8
  • 35
    • 77957127423 scopus 로고    scopus 로고
    • Combination of measures distinguishes pre-miRNAs from other stem-loops in the genome of the newly sequenced Anopheles darlingi
    • Mendes N.D., Freitas A.T., Vasconcelos A.T., Sagot M.F. Combination of measures distinguishes pre-miRNAs from other stem-loops in the genome of the newly sequenced Anopheles darlingi. BMC Genomics 2010, 11:529.
    • (2010) BMC Genomics , vol.11 , pp. 529
    • Mendes, N.D.1    Freitas, A.T.2    Vasconcelos, A.T.3    Sagot, M.F.4
  • 37
    • 41649089309 scopus 로고    scopus 로고
    • The regulatory activity of microRNA* species has substantial influence on microRNA and 3' UTR evolution
    • Okamura K., Phillips M.D., Tyler D.M., Duan H., Chou Y.T., Lai E.C. The regulatory activity of microRNA* species has substantial influence on microRNA and 3' UTR evolution. Nat. Struct. Mol. Biol. 2008, 15:354-363.
    • (2008) Nat. Struct. Mol. Biol. , vol.15 , pp. 354-363
    • Okamura, K.1    Phillips, M.D.2    Tyler, D.M.3    Duan, H.4    Chou, Y.T.5    Lai, E.C.6
  • 41
    • 38149071979 scopus 로고    scopus 로고
    • Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs
    • Ruby J.G., Stark A., Johnston W.K., Kellis M., Bartel D.P., Lai E.C. Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. Genome Res. 2007, 17:1850-1864.
    • (2007) Genome Res. , vol.17 , pp. 1850-1864
    • Ruby, J.G.1    Stark, A.2    Johnston, W.K.3    Kellis, M.4    Bartel, D.P.5    Lai, E.C.6
  • 42
    • 43649096475 scopus 로고    scopus 로고
    • Identification of novel Drosophila melanogaster microRNAs
    • Sandmann T., Cohen S.M. Identification of novel Drosophila melanogaster microRNAs. PLoS One 2007, 2:e1265.
    • (2007) PLoS One , vol.2
    • Sandmann, T.1    Cohen, S.M.2
  • 43
    • 38349081145 scopus 로고    scopus 로고
    • Argonaute loading improves the 5' precision of both microRNAs and their miRNA* strands in flies
    • Seitz H., Ghildiyal M., Zamore P.D. Argonaute loading improves the 5' precision of both microRNAs and their miRNA* strands in flies. Curr. Biol. 2008, 18:147-151.
    • (2008) Curr. Biol. , vol.18 , pp. 147-151
    • Seitz, H.1    Ghildiyal, M.2    Zamore, P.D.3
  • 44
    • 78650668809 scopus 로고    scopus 로고
    • MiR-155 and its star-form partner miR-155* cooperatively regulate type I interferon production by human plasmacytoid dendritic cells
    • Shen N., Zhou H.B., Huang X.F., Cui H.J., Luo X.B., Tang Y.J., Chen S.L., Wu L. miR-155 and its star-form partner miR-155* cooperatively regulate type I interferon production by human plasmacytoid dendritic cells. Blood 2010, 116:5885-5894.
    • (2010) Blood , vol.116 , pp. 5885-5894
    • Shen, N.1    Zhou, H.B.2    Huang, X.F.3    Cui, H.J.4    Luo, X.B.5    Tang, Y.J.6    Chen, S.L.7    Wu, L.8
  • 45
    • 79959703562 scopus 로고    scopus 로고
    • MiR 488* inhibits androgen receptor expression in prostate carcinoma cells
    • Sikand K., Slaibi J.E., Singh R., Slane S.D., Shukla G.C. miR 488* inhibits androgen receptor expression in prostate carcinoma cells. Int. J. Cancer 2011, 129:810-819.
    • (2011) Int. J. Cancer , vol.129 , pp. 810-819
    • Sikand, K.1    Slaibi, J.E.2    Singh, R.3    Slane, S.D.4    Shukla, G.C.5
  • 46
    • 54549088851 scopus 로고    scopus 로고
    • In silico prediction and characterization of microRNAs from red flour beetle (Tribolium castaneum)
    • Singh J., Nagaraju J. In silico prediction and characterization of microRNAs from red flour beetle (Tribolium castaneum). Insect Mol. Biol. 2008, 17:427-436.
    • (2008) Insect Mol. Biol. , vol.17 , pp. 427-436
    • Singh, J.1    Nagaraju, J.2
  • 47
    • 77949470329 scopus 로고    scopus 로고
    • Identification of microRNAs expressed in two mosquito vectors, Aedes albopictus and Culex quinquefasciatus
    • Skalsky R.L., Vanlandingham D.L., Scholle F., Higgs S., Cullen B.R. Identification of microRNAs expressed in two mosquito vectors, Aedes albopictus and Culex quinquefasciatus. BMC Genomics 2010, 11:119.
    • (2010) BMC Genomics , vol.11 , pp. 119
    • Skalsky, R.L.1    Vanlandingham, D.L.2    Scholle, F.3    Higgs, S.4    Cullen, B.R.5
  • 51
    • 34548608865 scopus 로고    scopus 로고
    • Computational prediction of microRNA genes in silkworm genome
    • Tong C.Z., Jin Y.F., Zhang Y.Z. Computational prediction of microRNA genes in silkworm genome. J. Zhejiang Univ. Sci. B 2006, 7:806-816.
    • (2006) J. Zhejiang Univ. Sci. B , vol.7 , pp. 806-816
    • Tong, C.Z.1    Jin, Y.F.2    Zhang, Y.Z.3
  • 52
    • 38149022486 scopus 로고    scopus 로고
    • Functionally distinct regulatory RNAs generated by bidirectional transcription and processing of microRNA loci
    • Tyler D.M., Okamura K., Chung W.J., Hagen J.W., Berezikov E., Hannon G.J., Lai E.C. Functionally distinct regulatory RNAs generated by bidirectional transcription and processing of microRNA loci. Genes Dev. 2008, 22:26-36.
    • (2008) Genes Dev. , vol.22 , pp. 26-36
    • Tyler, D.M.1    Okamura, K.2    Chung, W.J.3    Hagen, J.W.4    Berezikov, E.5    Hannon, G.J.6    Lai, E.C.7
  • 53
    • 24644476482 scopus 로고    scopus 로고
    • MicroRNA identification based on sequence and structure alignment
    • Wang X., Zhang J., Li F., Gu J., He T., Zhang X., Li Y. MicroRNA identification based on sequence and structure alignment. Bioinformatics 2005, 21:3610-3614.
    • (2005) Bioinformatics , vol.21 , pp. 3610-3614
    • Wang, X.1    Zhang, J.2    Li, F.3    Gu, J.4    He, T.5    Zhang, X.6    Li, Y.7
  • 55
    • 67649885497 scopus 로고    scopus 로고
    • Characterization and comparative profiling of the small RNA transcriptomes in two phases of locust
    • Wei Y., Chen S., Yang P., Ma Z., Kang L. Characterization and comparative profiling of the small RNA transcriptomes in two phases of locust. Genome Biol. 2009, 10:R6.
    • (2009) Genome Biol. , vol.10
    • Wei, Y.1    Chen, S.2    Yang, P.3    Ma, Z.4    Kang, L.5
  • 56
    • 0032787555 scopus 로고    scopus 로고
    • Microarray analysis of Drosophila development during metamorphosis
    • White K.P., Rifkin S.A., Hurban P., Hogness D.S. Microarray analysis of Drosophila development during metamorphosis. Science 1999, 286:2179-2184.
    • (1999) Science , vol.286 , pp. 2179-2184
    • White, K.P.1    Rifkin, S.A.2    Hurban, P.3    Hogness, D.S.4
  • 57
    • 44949250838 scopus 로고    scopus 로고
    • Genome-wide mapping of conserved microRNAs and their host transcripts in Tribolium castaneum
    • Yu J., Luo Q.B., Zhou Q., Yu X.M., Lin H.B., Hu S.N. Genome-wide mapping of conserved microRNAs and their host transcripts in Tribolium castaneum. J. Genet. Genomics 2008, 35:349-355.
    • (2008) J. Genet. Genomics , vol.35 , pp. 349-355
    • Yu, J.1    Luo, Q.B.2    Zhou, Q.3    Yu, X.M.4    Lin, H.B.5    Hu, S.N.6
  • 58
    • 70449123631 scopus 로고    scopus 로고
    • A discovery of novel microRNAs in the silkworm (Bombyx mori) genome
    • Yu X., Zhou Q., Cai Y., Luo Q., Lin H., Hu S., Yu J. A discovery of novel microRNAs in the silkworm (Bombyx mori) genome. Genomics 2009, 94:438-444.
    • (2009) Genomics , vol.94 , pp. 438-444
    • Yu, X.1    Zhou, Q.2    Cai, Y.3    Luo, Q.4    Lin, H.5    Hu, S.6    Yu, J.7
  • 60
    • 79959802232 scopus 로고    scopus 로고
    • Pyrosequencing-based expression profiling and identification of differentially regulated genes from Manduca sexta, a lepidopteran model insect
    • Zhang S., Gunaratna R.T., Zhang X., Najar F., Wang Y., Roe B., Jiang H. Pyrosequencing-based expression profiling and identification of differentially regulated genes from Manduca sexta, a lepidopteran model insect. Insect Biochem. Mol. Biol. 2011, 41:733-746.
    • (2011) Insect Biochem. Mol. Biol. , vol.41 , pp. 733-746
    • Zhang, S.1    Gunaratna, R.T.2    Zhang, X.3    Najar, F.4    Wang, Y.5    Roe, B.6    Jiang, H.7
  • 62
    • 44149097554 scopus 로고    scopus 로고
    • Pyrosequence analysis of expressed sequence tags for Manduca sexta hemolymph proteins involved in immune responses
    • Zou Z., Najar F., Wang Y., Roe B., Jiang H. Pyrosequence analysis of expressed sequence tags for Manduca sexta hemolymph proteins involved in immune responses. Insect Biochem. Mol. Biol. 2008, 38:677-682.
    • (2008) Insect Biochem. Mol. Biol. , vol.38 , pp. 677-682
    • Zou, Z.1    Najar, F.2    Wang, Y.3    Roe, B.4    Jiang, H.5
  • 63
    • 0042121256 scopus 로고    scopus 로고
    • Mfold web server for nucleic acid folding and hybridization prediction
    • Zuker M. Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res. 2003, 31:3406-3415.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3406-3415
    • Zuker, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.