Defective DROSHA processing contributes to downregulation of MiR-15/-16 in chronic lymphocytic leukemia (original) (raw)

• Bartel DP . MicroRNAs: target recognition and regulatory functions. Cell 2009; 136: 215–233.
  Article CAS PubMed PubMed Central Google Scholar
• Eulalio A, Huntzinger E, Izaurralde E . Getting to the root of miRNA-mediated gene silencing. Cell 2008; 132: 9–14.
  Article CAS PubMed Google Scholar
• Kuchenbauer F, Morin RD, Argiropoulos B, Petriv OI, Griffith M, Heuser M et al. In-depth characterization of the microRNA transcriptome in a leukemia progression model. Genome Res 2008; 18: 1787–1797.
  Article CAS PubMed PubMed Central Google Scholar
• Farfsing A, Engel F, Seiffert M, Hartmann E, Ott G, Rosenwald A et al. Gene knockdown studies revealed CCDC50 as a candidate gene in mantle cell lymphoma and chronic lymphocytic leukemia. Leukemia 2009; 23: 2018–2026.
  Article CAS PubMed Google Scholar
• Grasedieck S, Scholer N, Bommer M, Niess JH, Tumani H, Rouhi A et al. Impact of serum storage conditions on microRNA stability. Leukemia 2012; 26: 2414–2416.
  Article CAS PubMed Google Scholar
• Grasedieck S, Sorrentino A, Langer C, Buske C, Dohner H, Mertens D et al. Circulating microRNAs in hematological diseases: principles, challenges and perspectives. Blood 2013; 121: 4977–4984.
  Article CAS PubMed Google Scholar
• Rucker FG, Russ AC, Cocciardi S, Kett H, Schlenk RF, Botzenhardt U et al. Altered miRNA and gene expression in acute myeloid leukemia with complex karyotype identify networks of prognostic relevance. Leukemia 2013; 27: 353–361.
  Article CAS PubMed Google Scholar
• Kuchenbauer F, Mah SM, Heuser M, McPherson A, Ruschmann J, Rouhi A et al. Comprehensive analysis of mammalian miRNA* species and their role in myeloid cells. Blood 2011; 118: 3350–3358.
  Article CAS PubMed Google Scholar
• Davis BN, Hata A . microRNA in Cancer—-The involvement of aberrant microRNA biogenesis regulatory pathways. Genes Cancer 2010; 1: 1100–1114.
  Article Google Scholar
• Bhattacharya N, Diener S, Idler IS, Barth TF, Rauen J, Habermann A et al. Non-malignant B cells and chronic lymphocytic leukemia cells induce a pro-survival phenotype in CD14+ cells from peripheral blood. Leukemia 2011; 25: 722–726.
  Article CAS PubMed Google Scholar
• Herman SE, Sun X, McAuley EM, Hsieh MM, Pittaluga S, Raffeld M et al. Modeling tumor-host interactions of chronic lymphocytic leukemia in xenografted mice to study tumor biology and evaluate targeted therapy. Leukemia 2013; e-pub ahead of print 26 April 2013 doi:10.1038/leu.2013.131.
  Article CAS PubMed PubMed Central Google Scholar
• Bullinger L, Leupolt E, Schaffner C, Mertens D, Bentz M, Lichter P et al. BCL10 is not the gene inactivated by mutation in the 1p22 deletion region in mantle cell lymphoma. Leukemia 2000; 14: 1490–1492.
  Article CAS PubMed Google Scholar
• Dohner H, Stilgenbauer S, Benner A, Leupolt E, Krober A, Bullinger L et al. Genomic aberrations and survival in chronic lymphocytic leukemia. N Engl J Med 2000; 343: 1910–1916.
  Article CAS PubMed Google Scholar
• Zenz T, Vollmer D, Trbusek M, Smardova J, Benner A, Soussi T et al. TP53 mutation profile in chronic lymphocytic leukemia: evidence for a disease specific profile from a comprehensive analysis of 268 mutations. Leukemia 2010; 24: 2072–2079.
  Article CAS PubMed Google Scholar
• Puente XS, Pinyol M, Quesada V, Conde L, Ordonez GR, Villamor N et al. Whole-genome sequencing identifies recurrent mutations in chronic lymphocytic leukaemia. Nature 2011; 475: 101–105.
  Article CAS PubMed PubMed Central Google Scholar
• Wang L, Lawrence MS, Wan Y, Stojanov P, Sougnez C, Stevenson K et al. SF3B1 and other novel cancer genes in chronic lymphocytic leukemia. N Engl J Med 2011; 365: 2497–2506.
  Article CAS PubMed PubMed Central Google Scholar
• Stilgenbauer S, Nickolenko J, Wilhelm J, Wolf S, Weitz S, Dohner K et al. Expressed sequences as candidates for a novel tumor suppressor gene at band 13q14 in B-cell chronic lymphocytic leukemia and mantle cell lymphoma. Oncogene 1998; 16: 1891–1897.
  Article CAS PubMed Google Scholar
• Haferlach C, Dicker F, Schnittger S, Kern W, Haferlach T . Comprehensive genetic characterization of CLL: a study on 506 cases analysed with chromosome banding analysis, interphase FISH, IgV(H) status and immunophenotyping. Leukemia 2007; 21: 2442–2451.
  Article CAS PubMed Google Scholar
• Mertens D, Philippen A, Ruppel M, Allegra D, Bhattacharya N, Tschuch C et al. Chronic lymphocytic leukemia and 13q14: miRs and more. Leuk Lymphoma 2009; 50: 502–505.
  Article CAS PubMed Google Scholar
• Mertens D, Wolf S, Schroeter P, Schaffner C, Dohner H, Stilgenbauer S et al. Down-regulation of candidate tumor suppressor genes within chromosome band 13q14.3 is independent of the DNA methylation pattern in B-cell chronic lymphocytic leukemia. Blood 2002; 99: 4116–4121.
  Article CAS PubMed Google Scholar
• Mertens D, Wolf S, Tschuch C, Mund C, Kienle D, Ohl S et al. Allelic silencing at the tumor-suppressor locus 13q14.3 suggests an epigenetic tumor-suppressor mechanism. Proc Natl Acad Sci USA 2006; 103: 7741–7746.
  Article CAS PubMed PubMed Central Google Scholar
• Garding A, Bhattacharya N, Claus R, Ruppel M, Tschuch C, Filarsky K et al. Epigenetic upregulation of lncRNAs at 13q14.3 in leukemia Is linked to the <italic>In Cis</italic> downregulation of a gene cluster that targets NF-kB. PLoS Genet 2013; 9: e1003373.
  Article CAS PubMed PubMed Central Google Scholar
• Allen JE, Hough RE, Goepel JR, Bottomley S, Wilson GA, Alcock HE et al. Identification of novel regions of amplification and deletion within mantle cell lymphoma DNA by comparative genomic hybridization. Br J Haematol 2002; 116: 291–298.
  Article CAS PubMed Google Scholar
• Sander S, Bullinger L, Leupolt E, Benner A, Kienle D, Katzenberger T et al. Genomic aberrations in mantle cell lymphoma detected by interphase fluorescence in situ hybridization. Incidence and clinicopathological correlations. Haematologica 2008; 93: 680–687.
  Article CAS PubMed Google Scholar
• Kohlhammer H, Schwaenen C, Wessendorf S, Holzmann K, Kestler HA, Kienle D et al. Genomic DNA-chip hybridization in t(11;14)-positive mantle cell lymphomas shows a high frequency of aberrations and allows a refined characterization of consensus regions. Blood 2004 2004; 104: 795–801.
  Article CAS PubMed Google Scholar
• Lens D, Matutes E, Catovsky D, Coignet LJ . Frequent deletions at 11q23 and 13q14 in B cell prolymphocytic leukemia (B-PLL). Leukemia 2000; 14: 427–430.
  Article CAS PubMed Google Scholar
• Corcoran MM, Hammarsund M, Zhu C, Lerner M, Kapanadze B, Wilson B et al. DLEU2 encodes an antisense RNA for the putative bicistronic RFP2/LEU5 gene in humans and mouse. Genes Chromosomes Cancer 2004; 40: 285–297.
  Article CAS PubMed Google Scholar
• Mertens D, Stilgenbauer S . CLL and deletion 13q14: merely the miRs? Blood 2012; 119: 2974–2975.
  Article CAS PubMed Google Scholar
• Lerner M, Harada M, Loven J, Castro J, Davis Z, Oscier D et al. DLEU2, frequently deleted in malignancy, functions as a critical host gene of the cell cycle inhibitory microRNAs miR-15a and miR-16-1. Exp Cell Res 2009; 315: 2941–2952.
  Article CAS PubMed Google Scholar
• Lagos-Quintana M, Rauhut R, Lendeckel W, Tuschl T . Identification of novel genes coding for small expressed RNAs. Science 2001; 294: 853–858.
  Article CAS PubMed Google Scholar
• Calin GA, Cimmino A, Fabbri M, Ferracin M, Wojcik SE, Shimizu M et al. MiR-15a and miR-16-1 cluster functions in human leukemia. Proc Natl Acad Sci USA 2008; 105: 5166–5171.
  Article CAS PubMed PubMed Central Google Scholar
• Basso K, Sumazin P, Morozov P, Schneider C, Maute RL, Kitagawa Y et al. Identification of the human mature B cell miRNome. Immunity 2009; 30: 744–752.
  Article CAS PubMed PubMed Central Google Scholar
• Klein U, Lia M, Crespo M, Siegel R, Shen Q, Mo T et al. The DLEU2/miR-15a/16-1 cluster controls B cell proliferation and its deletion leads to chronic lymphocytic leukemia. Cancer Cell 2010; 17: 28–40.
  Article CAS PubMed Google Scholar
• Lia M, Carette A, Tang H, Shen Q, Mo T, Bhagat G et al. Functional dissection of the chromosome 13q14 tumor-suppressor locus using transgenic mouse lines. Blood 2012; 119: 2981–2990.
  Article CAS PubMed Google Scholar
• Shin VY, Jin H, Ng EK, Cheng AS, Chong WW, Wong CY et al. NF-kappaB targets miR-16 and miR-21 in gastric cancer: involvement of prostaglandin E receptors. Carcinogenesis 2011; 32: 240–245.
  Article CAS PubMed Google Scholar
• Ofir M, Hacohen D, Ginsberg D . miR-15 and miR-16 Are direct transcriptional targets of E2F1 that limit E2F-induced proliferation by targeting cyclin E. Mol Cancer Res 2011; 9: 440–447.
  Article CAS PubMed Google Scholar
• Chang TC, Yu D, Lee YS, Wentzel EA, Arking DE, West KM et al. Widespread microRNA repression by Myc contributes to tumorigenesis. Nat Genet 2008; 40: 43–50.
  Article CAS PubMed Google Scholar
• Calin GA, Dumitru CD, Shimizu M, Bichi R, Zupo S, Noch E et al. Frequent deletions and down-regulation of micro- RNA genes miR15 and miR16 at 13q14 in chronic lymphocytic leukemia. Proc Natl Acad Sci USA 2002; 99: 15524–15529.
  Article CAS PubMed PubMed Central Google Scholar
• Allegra D, Mertens D . In-vivo quantification of primary microRNA processing by Drosha with a luciferase based system. Biochem Biophys Res Commun 2011; 406: 501–505.
  Article CAS PubMed Google Scholar
• Raveche ES, Salerno E, Scaglione BJ, Manohar V, Abbasi F, Lin YC et al. Abnormal microRNA-16 locus with synteny to human 13q14 linked to CLL in NZB mice. Blood 2007; 109: 5079–5086.
  Article CAS PubMed PubMed Central Google Scholar
• Kim VN, Han J, Siomi MC . Biogenesis of small RNAs in animals. Nat Rev Mol Cell Biol 2009; 10: 126–139.
  Article CAS PubMed Google Scholar
• Edelmann J, Holzmann K, Miller F, Winkler D, Buhler A, Zenz T et al. High-resolution genomic profiling of chronic lymphocytic leukemia reveals new recurrent genomic alterations. Blood 2012; 120: 4783–4794.
  Article CAS PubMed Google Scholar
• Hallek M, Fischer K, Fingerle-Rowson G, Fink AM, Busch R, Mayer J et al. Addition of rituximab to fludarabine and cyclophosphamide in patients with chronic lymphocytic leukaemia: a randomised, open-label, phase 3 trial. Lancet 2010; 376: 1164–1174.
  Article CAS PubMed Google Scholar
• Garding A, Bhattacharya N, Haebe S, Muller F, Weichenhan D, Idler I et al. TCL1A and ATM are co-expressed in chronic lymphocytic leukemia cells without deletion of 11q. Haematologica 2013; 98: 269–273.
  Article CAS PubMed PubMed Central Google Scholar
• Dyer BW, Ferrer FA, Klinedinst DK, Rodriguez R . A noncommercial dual luciferase enzyme assay system for reporter gene analysis. Anal Biochem 2000; 282: 158–161.
  Article CAS PubMed Google Scholar
• Kim YK, Yeo J, Kim B, Ha M, Kim VN . Short structured RNAs with low GC content are selectively lost during extraction from a small number of cells. Mol Cell 2012; 46: 893–895.
  Article CAS PubMed Google Scholar
• Heale BS, Keegan LP, McGurk L, Michlewski G, Brindle J, Stanton CM et al. Editing independent effects of ADARs on the miRNA/siRNA pathways. EMBO J 2009; 28: 3145–3156.
  Article CAS PubMed PubMed Central Google Scholar
• Seifert M, Sellmann L, Bloehdorn J, Wein F, Stilgenbauer S, Durig J et al. Cellular origin and pathophysiology of chronic lymphocytic leukemia. J Exp Med 2012; 209: 2183–2198.
  Article CAS PubMed PubMed Central Google Scholar
• Stadler PF, Chen JJ, Hackermuller J, Hoffmann S, Horn F, Khaitovich P et al. Evolution of vault RNAs. Mol Biol Evol 2009; 26: 1975–1991.
  Article CAS PubMed Google Scholar
• Trabucchi M, Briata P, Garcia-Mayoral M, Haase AD, Filipowicz W, Ramos A et al. The RNA-binding protein KSRP promotes the biogenesis of a subset of microRNAs. Nature 2009; 459: 1010–1014.
  Article CAS PubMed PubMed Central Google Scholar
• Fukuda T, Yamagata K, Fujiyama S, Matsumoto T, Koshida I, Yoshimura K et al. DEAD-box RNA helicase subunits of the Drosha complex are required for processing of rRNA and a subset of microRNAs. Nat Cell Biol 2007; 9: 604–611.
  Article CAS PubMed Google Scholar
• Seiffert M, Stilgenbauer S, Dohner H, Lichter P . Efficient nucleofection of primary human B cells and B-CLL cells induces apoptosis, which depends on the microenvironment and on the structure of transfected nucleic acids. Leukemia 2007; 21: 1977–1983.
  Article CAS PubMed Google Scholar
• Stacchini A, Aragno M, Vallario A, Alfarano A, Circosta P, Gottardi D et al. MEC1 and MEC2: two new cell lines derived from B-chronic lymphocytic leukaemia in prolymphocytoid transformation. Leuk Res 1999; 23: 127–136.
  Article CAS PubMed Google Scholar
• Lu D, Zhao Y, Tawatao R, Cottam HB, Sen M, Leoni LM et al. Activation of the Wnt signaling pathway in chronic lymphocytic leukemia. Proc Natl Acad Sci USA 2004; 101: 3118–3123.
  Article CAS PubMed PubMed Central Google Scholar
• Gandhirajan RK, Staib PA, Minke K, Gehrke I, Plickert G, Schlosser A et al. Small molecule inhibitors of Wnt/beta-catenin/lef-1 signaling induces apoptosis in chronic lymphocytic leukemia cells in vitro and in vivo. Neoplasia 2010; 12: 326–335.
  Article CAS PubMed PubMed Central Google Scholar
• Baudry A, Mouillet-Richard S, Schneider B, Launay JM, Kellermann O . miR-16 targets the serotonin transporter: a new facet for adaptive responses to antidepressants. Science 2010; 329: 1537–1541.
  Article CAS PubMed Google Scholar
• Lee J, Tattoli I, Wojtal KA, Vavricka SR, Philpott DJ, Girardin SE . pH-dependent internalization of muramyl peptides from early endosomes enables Nod1 and Nod2 signaling. J Biol Chem 2009; 284: 23818–23829.
  Article CAS PubMed PubMed Central Google Scholar
• Laxminarayana D, O'Rourke KS, Maas S, Olorenshaw I . Altered editing in RNA editing adenosine deaminase ADAR2 gene transcripts of systemic lupus erythematosus T lymphocytes. Immunology 2007; 121: 359–369.
  Article CAS PubMed PubMed Central Google Scholar
• Xu M, Wells KS, Emeson RB . Substrate-dependent contribution of double-stranded RNA-binding motifs to ADAR2 function. Mol Biol Cell 2006; 17: 3211–3220.
  Article CAS PubMed PubMed Central Google Scholar
• Hundley HA, Bass BL . ADAR editing in double-stranded UTRs and other noncoding RNA sequences. Trends Biochem Sci 2010; 35: 377–383.
  Article CAS PubMed PubMed Central Google Scholar
• Liu J, Chen G, Feng L, Zhang W, Pelicano H, Wang F et al. Loss of p53 and altered miR15-a/16-1short right arrowMCL-1 pathway in CLL: insights from TCL1-Tg:p53 mouse model and primary human leukemia cells. Leukemia 2013; e-pub ahead of print 23 April 2013 doi:10.1038/leu.2013.125.
  Article CAS PubMed PubMed Central Google Scholar
• Winter J, Jung S, Keller S, Gregory RI, Diederichs S . Many roads to maturity: microRNA biogenesis pathways and their regulation. Nat Cell Biol 2009; 11: 228–234.
  Article CAS PubMed Google Scholar
• Kumar MS, Lu J, Mercer KL, Golub TR, Jacks T . Impaired microRNA processing enhances cellular transformation and tumorigenesis. Nat Genet 2007; 39: 673–677.
  Article CAS PubMed Google Scholar
• Kumar MS, Pester RE, Chen CY, Lane K, Chin C, Lu J et al. Dicer1 functions as a haploinsufficient tumor suppressor. Genes Dev 2009; 23: 2700–2704.
  Article CAS PubMed PubMed Central Google Scholar
• Melo SA, Ropero S, Moutinho C, Aaltonen LA, Yamamoto H, Calin GA et al. A TARBP2 mutation in human cancer impairs microRNA processing and DICER1 function. Nat Genet 2009; 41: 365–370.
  Article CAS PubMed PubMed Central Google Scholar
• Muralidhar B, Winder D, Murray M, Palmer R, Barbosa-Morais N, Saini H et al. Functional evidence that Drosha overexpression in cervical squamous cell carcinoma affects cell phenotype and microRNA profiles. J Pathol 2011 Mar, 14.
• Kefas B, Godlewski J, Comeau L, Li Y, Abounader R, Hawkinson M et al. microRNA-7 inhibits the epidermal growth factor receptor and the Akt pathway and is down-regulated in glioblastoma. Cancer Res 2008; 68: 3566–3572.
  Article CAS PubMed Google Scholar
• Ota H, Sakurai M, Gupta R, Valente L, Wulff BE, Ariyoshi K et al. ADAR1 Forms a complex with dicer to promote microRNA processing and RNA-induced gene silencing. Cell 2013; 153: 575–589.
  Article CAS PubMed PubMed Central Google Scholar
• Yang JH, Nie Y, Zhao Q, Su Y, Pypaert M, Su H et al. Intracellular localization of differentially regulated RNA-specific adenosine deaminase isoforms in inflammation. J Biol Chem 2003; 278: 45833–45842.
  Article CAS PubMed Google Scholar
• Caligaris-Cappio F . Inflammation, the microenvironment and chronic lymphocytic leukemia. Haematologica 2011; 96: 353–355.
  Article CAS PubMed PubMed Central Google Scholar
• Rice GI, Bond J, Asipu A, Brunette RL, Manfield IW, Carr IM et al. Mutations involved in Aicardi-Goutieres syndrome implicate SAMHD1 as regulator of the innate immune response. Nature Genet 2009; 41: 829–832.
  Article CAS PubMed Google Scholar
• Schuh A, Becq J, Humphray S, Alexa A, Burns A, Clifford R et al. Monitoring chronic lymphocytic leukemia progression by whole genome sequencing reveals heterogeneous clonal evolution patterns. Blood 2012; 120: 4191–4196.
  Article CAS PubMed Google Scholar
• Desterro JM, Keegan LP, Lafarga M, Berciano MT, O’Connell M, Carmo-Fonseca M . Dynamic association of RNA-editing enzymes with the nucleolus. J Cell Sci 2003; 116 (Pt 9): 1805–1818.
  Article CAS PubMed Google Scholar
• George CX, Gan Z, Liu Y, Samuel CE . Adenosine deaminases acting on RNA, RNA editing, and interferon action. J Interferon Cytokine Res 2011; 31: 99–117.
  Article CAS PubMed PubMed Central Google Scholar