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Mechanisms of Microrna-Mediated Gene Regulation in Animal Cells

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Mechanisms of Microrna-Mediated Gene Regulation in Animal Cells

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Lee Y, Kim M, Han J, Yeom KH, Lee S, et al. 2004.

MicroRNA genes are transcribed by RNA


polymerase II. EMBO J. 23:4051–60

Abbott AL, Alvarez-Saavedra E, Miska EA, Lau NC, Bartel DP, et al. 2005. The let-7
MicroRNA family members mir-48, mir-84, and mir-241 function together to regulate
developmental timing in Caenorhabditis elegans. Dev. Cell 9:403–14

Bartel DP, Chen CZ. 2004. Micromanagers of gene expression: the potentially widespread
influence of metazoan microRNAs. Nat. Rev. Genet. 5:396–400

Cai X, Hagedorn CH, Cullen BR. 2004. Human microRNAs are processed from capped,
polyadenylated transcripts that can also function as mRNAs. RNA 10:1957–66

Bartel DP (2004). MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116: 281-97.

Ambros V (2004). The functions of animal microRNAs. Nature 431: 350-5.

Ambros V, Lee RC, Lavanway A,Williams PT, Jewell D: MicroRNAs


and other tiny endogenous RNAs in C. elegans. Curr Biol 2003,
13:807-818.

Lee RC, Ambros V (2001). An extensive class of small RNAs in Caenorhabditis elegans. Science 294: 862-4.

Lee RC, Feinbaum RL, Ambros V (1993). The C. elegans heterochronic gene lin-4 encodes small RNAs with
antisense complementarity to lin-14. Cell 75: 843-54.

Lee Y, Ahn C, Han J, Choi H, Kim J, Yim J et al (2003). The nuclear RNase III Drosha initiates microRNA processing.
Nature 425: 415-9.

Lee Y, Kim M, Han J, Yeom KH, Lee S, Baek SH et al (2004). MicroRNA genes are transcribed by RNA
polymerase II. EMBO J 23: 4051-60.

Landthaler M, Yalcin A, Tuschl T (2004). The human DiGeorge syndrome critical region gene 8 and Its D.
melanogaster homolog are required for miRNA biogenesis. Curr Biol 14: 2162-7.

Lund, E., Guttinger, S., Calado, A., Dahlberg, J. E. &


Kutay, U. Nuclear export of microRNA precursors.
Science 303, 95–98 (2004).
50. Yi, R., Qin, Y., Macara, I. G. & Cullen, B. R. Exportin-5
mediates the nuclear export of pre-microRNAs and short
hairpin RNAs. Genes Dev. 17, 3011–3016 (2003).
51. Bohnsack, M. T., Czaplinski, K. & Gorlich, D. Exportin 5
is a RanGTP-dependent dsRNA-binding protein that
mediates nuclear export of pre-miRNAs. RNA 10, 185–191
(2004).

21. Reinhart BJ, Weinstein EG, Rhoades MW, Bartel B, Bartel DP:
MicroRNAs in plants. Genes Dev 2002, 16:1616-1626.

Lagos-Quintana M, Rauhut R, Meyer J, Borkhardt A, Tuschl T:


New microRNAs from mouse and human. RNA 2003,
9:175-179.

Lagos-Quintana M, Rauhut R, Meyer J, Borkhardt A, Tuschl T:


New microRNAs from mouse and human. RNA 2003,
9:175-179.

Mechanisms of microRNA-mediated
gene regulation in animal cells
Timothy W. Nilsen
Kloosterman, W.P. and Plasterk, R.H.A. (2006) The diverse functions
of microRNAs in animal development and disease. Dev. Cell 11, 441–
450

Doench, J.G., Petersen, C.P., and Sharp, P.A. (2003). siRNAs can function as
miRNAs. Genes Dev. 17, 438–442.

Eulalio, A., Behm-Ansmant, I., Schweizer, D., and Izaurralde, E. (2007a).


P-body formation is a consequence, not the cause, of RNA-mediated gene
silencing. Mol. Cell. Biol. 27, 3970–3981.

Kuss AW, Chen W (2008) MicroRNAs in brain function and disease. Curr Neurol Neurosci Rep. May;8(3):190-7.

Liang Y., Ridzon D., Wong L., Caifu C.


(2007) BMC Genomics, 8: 166,
PMC1904203.

Houbaviy, H.B., Murray, M.F. and Sharp, P.A. (2003) Embryonic stem
cell-specific microRNAs. Dev. Cell, 5, 351–358.

Suh, M.R., Lee, Y., Kim, J.Y., Kim, S.K., Moon, S.H., Lee, J.Y.,
Cha, K.Y., Chung, H.M., Yoon, H.S., Moon, S.Y. et al. (2004) Human
embryonic stem cells express a unique set of microRNAs. Dev. Biol.,
270, 488–498.

Krichevsky, A.M., King, K.S., Donahue, C.P., Khrapko, K. and


Kosik, K.S. (2003) A microRNA array reveals extensive regulation of
microRNAs during brain development. RNA, 9, 1274–1281.

Sempere, L.F., Freemantle, S., Pitha-Rowe, I., Moss, E., Dmitrovsky, E.


and Ambros, V. (2004) Expression profiling of mammalian microRNAs
uncovers a subset of brain-expressed microRNAs with possible roles in
murine and human neuronal differentiation. Genome Biol., 5, R13.

Miska, E.A., Alvarez-Saavedra, E., Townsend, M., Yoshii, A., Sestan, N.,
Rakic, P., Constantine-Paton, M. and Horvitz, H.R. (2004) Microarray
analysis of microRNA expression in the developing mammalian brain.
Genome Biol., 5, R68.
114. Rogelj, B. and Giese, K.P. (2004) Expression and function of brain
specific small RNAs. Rev. Neurosci., 15, 185–198.

Kim, J., Krichevsky, A., Grad, Y., Hayes, G.D., Kosik, K.S.,
Church, G.M. and Ruvkun, G. (2004) Identification of many microRNAs
that copurify with polyribosomes in mammalian neurons. Proc. Natl
Acad. Sci. USA, 101, 360–365.

Dostie, J., Mourelatos, Z., Yang, M., Sharma, A. and Dreyfuss, G. (2003)
Numerous microRNPs in neuronal cells containing novel microRNAs.
RNA, 9, 180–186.

Bernstein, E., Caudy, A. A., Hammond, S. M. & Hannon, G. J.


Role for a bidentate ribonuclease in the initiation step of RNA

Mechanisms of microRNA-mediated
gene regulation in animal cells
Timothy W. Nilsen
interference. Nature 409, 363–366 (2001).

Lee, Y. S. et al. Distinct roles for Drosophila Dicer-1 and


Dicer-2 in the siRNA/miRNA silencing pathways. Cell 117,
69–81 (2004).

Yan, K. S. et al. Structure and conserved RNA binding of the


PAZ domain. Nature 426, 468–474 (2003).

Ma, J. B., Ye, K. & Patel, D. J. Structural basis for overhangspecific


small interfering RNA recognition by the PAZ
domain. Nature 429, 318–322 (2004).

Behm-Ansmant, I., Rehwinkel, J., Doerks, T.,


Stark, A., Bork, P., and Izaurralde, E. (2006). Genes
Dev. 20, 1885–1898.

Eulalio, A., Rehwinkel, J., Stricker, M., Huntzinger,


E., Yang, S.-F., Doerks, T., Dorner, S., Peer Bork,
P., Boutros, M., and Izaurralde, E. (2007a). Genes
Dev. 21, 2558–2570.

Giraldez, A.J., Mishima, Y., Rihel, J., Grocock,


R.J., Van Dongen, S., Inoue, K., Enright, A.J., and
Schier, A.F. (2006). Science 312, 75–79.

Maroney, P.A., Yu, Y., Fisher, J., and Nilsen, T.W.


(2006). Nat. Struct. Mol. Biol. 13, 1102–1107.

Wu, L., and Belasco, J.G. (2005). Mol. Cell. Biol.


25, 9198–9208.
Wu, L., Fan, J., and Belasco, J.G. (2006). Proc.
Natl. Acad. Sci. USA 103, 4034–4039.
Eulalio, A., Rehwinkel, J., Stricker, M., Huntzinger, E., Yang, S.F., Doerks, T.,
Dorner, S., Bork, P., Boutros, M., and Izaurralde, E. (2007b). Target-specific
requirements for enhancers of decapping in miRNA-mediated gene silencing.
Genes Dev. 21, 2558–2570.

Giraldez, A.J., Mishima, Y., Rihel, J., Grocock, R.J., Van Dongen, S., Inoue, K.,
Enright, A.J., and Schier, A.F. (2006). Zebrafish MiR-430 promotes deadenylation
and clearance of maternal mRNAs. Science 312, 75–79.

Kiriakidou, M., Tan, G.S., Lamprinaki, S., De Planell-Saguer, M., Nelson, P.T.,
and Mourelatos, Z. (2007). An mRNA m7G cap binding-like motif within human
Ago2 represses translation. Cell 129, 1141–1151.
Lagos-Quintana, M., Rauhut, R., Lendeckel, W., and Tuschl, T. (2001).
Identification of novel genes coding for small expressed RNAs. Science 294,
853–858.

Wu, L., and Belasco, J.G. (2005). Micro-RNA regulation of the mammalian
lin-28 gene during neuronal differentiation of embryonal carcinoma cells.
Mol. Cell. Biol. 25, 9198–9208.
Wu, L., Fan, J., and Belasco, J.G. (2006). MicroRNAs direct rapid deadenylation
of mRNA. Proc. Natl. Acad. Sci. USA 103, 4034–4039.
Yekta, S., Shih, I.H., and Bartel, D.P. (2004). MicroRNA-directed cleavage of
HOXB8 mRNA. Science 304, 594–596.

Nottrott, S., Simard, M.J., and Richter, J.D. (2006). Human let-7a miRNA
blocks protein production on actively translating polyribosomes. Nat. Struct.
Mol. Biol. 13, 1108–1114.

Maroney, P.A., Yu, Y., Fisher, J., and Nilsen, T.W. (2006). Evidence that micro-
RNAs are associated with translating messenger RNAs in human cells. Nat.
Struct. Mol. Biol. 13, 1102–1107.
Martinez, J., Patkaniowska, A., Urlaub, H., Luhrmann, R., and Tuschl, T. (2002).
Single-stranded antisense siRNAs guide target RNA cleavage in RNAi. Cell
110, 563–574.

Llave, C., Xie, Z., Kasschau, K.D., and Carrington, J.C. (2002). Cleavage of
Scarecrow-like mRNA targets directed by a class of Arabidopsis miRNA.
Science 297, 2053–2056.

Lee, R.C., and Ambros, V. (2001). An extensive class of small RNAs in Caenorhabditis

Mechanisms of microRNA-mediated
gene regulation in animal cells
Timothy W. Nilsen
elegans. Science 294, 862–864.
Lee, R.C., Feinbaum, R.L., and Ambros, V. (1993). The C. elegans heterochronic
gene lin-4 encodes small RNAs with antisense complementarity to
lin-14. Cell 75, 843–854.

Bartel, D.P. (2004). MicroRNAs: genomics, biogenesis, mechanism, and


function. Cell 116, 281–297.
Behm-Ansmant, I., Rehwinkel, J., Doerks, T., Stark, A., Bork, P., and
Izaurralde, E. (2006). mRNA degradation by miRNAs and GW182 requires
both CCR4:NOT deadenylase and DCP1:DCP2 decapping complexes. Genes
Dev. 20, 1885–1898.

Zeng, Y., Yi, R., and Cullen, B.R. (2003). MicroRNAs and small interfering RNAs
can inhibit mRNA expression by similar mechanisms. Proc. Natl. Acad. Sci.
USA 100, 9779–9784.
Zhang, L., Ding, L., Cheung, T.H., Dong, M.Q., Chen, J., Sewell, A.K., Liu, X.,
Yates, J.R., III, and Han, M. (2007). Systematic identification of C. elegans miRISC
proteins, miRNAs, and mRNA targets by their interactions with GW182
proteins AIN-1 and AIN-2. Mol. Cell 28, 598–613.

30 Valencia-Sanchez, M.A. et al. (2006) Control of translation and mRNA


degradation by miRNAs and siRNAs. Genes Dev. 20, 515–524
31 Eulalio, A. et al. (2007) P bodies: at the crossroads of posttranscriptional
pathways. Nat. Rev. Mol. Cell Biol. 8, 9–22

Pillai, R.S. et al. (2005) Inhibition of translational initiation by let-7


microRNA in human cells. Science 309, 1573–1576

Liu, J. et al. (2005) MicroRNA-dependent localization of targeted


mRNAs to mammalian P-bodies. Nat. Cell Biol. 7, 719–723

Bhattacharyya, S.N. et al. (2006) Relief of microRNA-mediated


translational repression in human cells subjected to stress. Cell 125,
1111–1124

Meister, G. et al. (2005) Identification of novel Argonaute-associated


proteins. Curr. Biol. 15, 2149–2155
37 Chu, C.Y. and Rana, T.M. (2006) Translation repression in human cells
by microRNA-induced gene silencing requires RCK/p54. PLoS Biol.4,
e210 DOI: 10.1371/journal.pbio.0040210 (biology.plosjournals.org)

He L, Thomson JM, Hemann MT, Hernando-Monge E, Mu D, et al. 2005. A


microRNA polycistron as a potential human oncogene. Nature 435:828–33

Ota A, Tagawa H, Karnan S, Tsuzuki S, Karpas A, et al. 2004. Identification and characterization
of a novel gene, C13orf25, as a target for 13q31-q32 amplification in malignant
lymphoma. Cancer Res. 64:3087–95

49. Mattick JS, Igor V. Makunin. Non-coding RNA.


Hum Mol Genet 2006;15(Suppl 1):R17-R29.
50. McManus MT. MicroRNAs and cancer. Semin
Cancer Biol 2003;13(4):253-258.

Lu J, Getz G, Miska EA, Alvarez-Saavedra E, Lamb J, et al. 2005. MicroRNA


expression profiles classify human cancers. Nature 435:834–38

Volinia S, Calin GA, Liu CG, Ambs S, Cimmino A, et al. 2006. A microRNA expression
signature of human solid tumors defines cancer gene targets. Proc. Natl. Acad. Sci. USA
103:2257–61

Calin GA, Dumitru CD, Shimizu M, Bichi R, Zupo S, et al. 2002. Frequent deletions
and down-regulation of micro-RNA genes miR15 and miR16 at 13q14 in
chronic lymphocytic leukemia. Proc. Natl. Acad. Sci. USA 99:15524–29

Mechanisms of microRNA-mediated
gene regulation in animal cells
Timothy W. Nilsen
Landgraf P, Rusu M, Sheridan R, Sewer A, Iovino
N, Aravin A, et al. A mammalian microRNA expression
atlas based on small RNA library sequencing.
Cell 2007;129(7):1401-1414.

Chan JA, Krichevsky AM, Kosik KS. 2005. MicroRNA-21 is an antiapoptotic factor in
human glioblastoma cells. Cancer Res. 65:6029–33
25. Chen CZ, Li L, Lodish HF, Bartel DP. 2004. MicroRNAs modulate hematopoietic
lineage differentiation. Science 303:83–86
He, L. et al. A microRNA polycistron as a potential
human oncogene. Nature 435, 828–833 (2005).
Shows that the mir-17–92 cluster works together
with MYC and accelerates tumour progression in a
B-cell lymphoma model.
110. O’Donnell, K. A., Wentzel, E. A., Zeller, K. I., Dang, C. V.
& Mendell, J. T. c-Myc-regulated microRNAs modulate
E2F1 expression. Nature 435, 839–843 (2005).
Reveals that the MYC oncogene induces the
expression of the mir-17–92 cluster, and, in turn,
the mir-17–92 cluster negatively regulates the
MYC-target gene, E2F1, revealing a complex
genetic circuit that tightly controls cellular
proliferation.

Johnson, S. M. et al. RAS is regulated by the let-7


microRNA family. Cell 120, 635–647 (2005).
Implicates a tumour-suppressor role for the let-7
family by directly regulating the expression of the
Ras oncogenes.

Takamizawa, J. et al. Reduced expression of the let-7


microRNAs in human lung cancers in association with
shortened postoperative survival. Cancer Res. 64,
3753–3756 (2004).
Describes a strong correlation between expression
levels of members of the let-7 family and postoperative
survival in patients with lung cancer, and
therefore supports the notion that let-7 family
members function as tumour suppressors

Iorio, M. V. et al. MicroRNA gene expression


deregulation in human breast cancer. Cancer Res. 65,
7065–7070 (2005).

Michael, M. Z., O’Connor, S. M., van Holst Pellekaan,


N. G., Young, G. P. & James, R. J. Reduced
accumulation of specific microRNAs in colorectal
neoplasia. Mol. Cancer Res.1, 882–891 (2003).
Reveals that mir-143 and mir-145 RNA levels are
often reduced in colorectal cancer.

Felli, N. et al. MicroRNAs 221 and 222 inhibit normal


erythropoiesis and erythroleukemic cell growth via kit
receptor down-modulation. Proc. Natl Acad. Sci. USA
102, 18081–18086 (2005).

Lee, Y. S., Kim, H. K., Chung, S., Kim, K. S. & Dutta, A.


Depletion of human micro-RNA miR-125b reveals that
it is critical for the proliferation of differentiated cells
but not for the down-regulation of putative targets
during differentiation. J. Biol. Chem. 280,
16635–16641 (2005).

Calin, G. A. et al. Human microRNA genes are


frequently located at fragile sites and genomic regions
involved in cancers. Proc. Natl Acad. Sci. USA 101,
2999–3004 (2004).

Sonoki, T., Iwanaga, E., Mitsuya, H. & Asou, N.


Insertion of microRNA-125b-1, a human homologue
of lin-4, into a rearranged immunoglobulin heavy
chain gene locus in a patient with precursor B-cell
acute lymphoblastic leukemia. Leukemia 19,
2009–2010 (2005).

Thum T, Catalucci D, Bauersachs J. MicroRNAs:


novel regulators in cardiac development and disease.

Mechanisms of microRNA-mediated
gene regulation in animal cells
Timothy W. Nilsen
Cardiovas Res 2008;79:562-570.

RETT A., TEUBEL R. (1964) Neugeborenen Krampfe im Rahmen einer epileptisch belasten Familie. Wiener
Klin Wochenschr 76, 609-613

LEWIS T.B., LEACH R.J., WARD K. et al (1993) Genetic heterogeneity in benign familial neonatal
convulsions: identification of a new locus on chromosome 8q. Am J Hum Genet 53, 670-675.

DEDEK K., KUNATH B., KANANURA C. et al (2001) Myokymia and neonatal epilepsy caused by a mutation
in the voltage sensor of the KCNQ2 K+ channel. Proc Natl Acad Sci U S A 98(21), 12272-7.

SCHEFFER I.E., BHATIA K.P., LOPES-CENDES I. et al (1994) Autosomal dominant frontal epilepsy
misdiagnosed as sleep disorder. Lancet 343, 515-517.
15. PHILLIPS H.A., SCHEFFER I.E., BERKOVIC S.F. et al (1995) Localization of a gene for autosomal dominant
nocturnal frontal lobe epilepsy to chromosome 20q13.2. Nature Genet 10, 117-118.
16. STEINLEIN O.K., MULLEY J.C., PROPPING P. et al (1995) A missense mutation in the neuronal nicotinic
acetylcholine receptor alpha 4 subunit is associated with autosomal dominant nocturnal frontal lobe epilepsy.
Nature Genet 11(2), 201-3.

DE FUSCO M., BECCHETTI A., PATRIGNANI A. et al (2000) The nicotinic receptor beta 2 subunit is mutant
in nocturnal frontal lobe epilepsy. Nature Genet 26(3), 275-6.

SCHEFFER I.E., BERKOVIC S.F. (1997) Generalized epilepsy with febrile seizures plus. A genetic disorder
with heterogeneous clinical phenotypes. Brain 120(Pt 3), 479-90.

ESCAYG A., MACDONALD B.T., MEISLER M.H. et al (2000) Mutations of SCN1A, encoding a neuronal
sodium channel, in two families with GEFS+2. Nature Genet 24(4), 343-5.

SUGAWARA T., TSURUBUCHI Y., AGARWALA K.L. et al (2001) A missense mutation of the Na+ channel
alpha II subunit gene Na(v)1.2 in a patient with febrile and afebrile seizures causes channel dysfunction. Proc
Natl Acad Sci USA 98(11), 6384-9.

BIANCHI M.T., SONG L., ZHANG H. et al (2002) Two different mechanisms of disinhibition produced by
GABAA receptor mutations linked to epilepsy in humans. J Neurosci 22(13), 5321-7.

WALLACE R.H., MARINI C., PETROU S. et al (2001) Mutant GABAA receptor gamma2-subunit in childhood
absence epilepsy and febrile seizures. Nature Genet 28(1), 49-52.

SANDER T., SCHULZ H., SAAR K. et al (2000) Genome search for susceptibility loci of common idiopathic
generalised epilepsies. Hum Mol Genet 9(10), 1465-72.

KANTHETI P., QIAO X., DIAZ M.E. et al (1998) Mutation in AP-3 delta in the mocha mouse links endosomal
transport to storage deficiency in platelets, melanosomes, and synaptic vesicles. Neuron 21(1), 111-22.
116. SPAUSCHUS A., EUNSON L., HANNA M.G. et al (1999) Functional characterization of a novel mutation in
KCNA1 in episodic ataxia type 1 associated with epilepsy. Ann N Y Acad Sci 868, 442-6.

SOMERVILLE R.P., CHERNOVA O., LIU S. et al (2000) Identification of the promoter, genomic structure, and
mouse ortholog of LGI1. Mamm Genome 11(8), 622-7.
43. SCHEEL H., TOMIUK S., HOFMANN K. (2002) A common protein interaction domain links two recently
identified epilepsy genes. Hum Mol Genet 11(15), 1757-62.
44. NAKAYAMA J., FU Y.H., CLARK A.M. et al (2002) A nonsense mutation of the MASS1 gene in a family with
febrile and afebrile seizures. Ann Neurol 52(5), 654-7.

Mechanisms of microRNA-mediated
gene regulation in animal cells
Timothy W. Nilsen

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