Publications

2018

Ibrahim F*, Maragkakis M*, Alexiou P, Mourelatos Z. Ribothrypsis, a novel process of canonical mRNA decay, mediates ribosome-phased mRNA endonucleolysis. Nat Struct Mol Biol. 2018 Mar 5. doi: 10.1038/s41594-018-0042-8. PubMed PMID: 29507394.
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2017

Richman SA, Nunez-Cruz S, Moghimi B, Li LZ, Gershenson ZT, Mourelatos Z, Barrett DM, Grupp SA, Milone MC. High-Affinity GD2-Specific CAR T Cells Induce Fatal Encephalitis in a Preclinical Neuroblastoma Model. Cancer Immunol Res. 2018 Jan;6(1):36-46. doi: 10.1158/2326-6066.CIR-17-0211. Epub 2017 Nov 27. PubMed PMID: 29180536.

Alexiou P, Maragkakis M, Mourelatos Z, Vourekas A. cCLIP-Seq: Retrieval of Chimeric Reads from HITS-CLIP (CLIP-Seq) Libraries. Methods Mol Biol. 2018;1680:87-100. doi: 10.1007/978-1-4939-7339-2_6. PubMed PMID: 29030843.

Vrettos N*, Maragkakis M*, Alexiou P, Mourelatos Z. Kc167, a widely used Drosophila cell line, contains an active primary piRNA pathway. RNA. 2017 Jan;23(1):108-118. Epub 2016 Oct 27. PubMed PMID: 27789612.

2016

Vourekas A*, Alexiou P*, Vrettos N, Maragkakis M, Mourelatos Z. Sequence-dependent but not sequence-specific piRNA adhesion traps mRNAs to the germ plasm. Nature. 2016 Mar 17;531(7594):390-394. doi: 10.1038/nature17150. Epub 2016 Mar 7. PubMed PMID: 26950602.

2015

Maragkakis M*, Alexiou P*, Nakaya T, Mourelatos Z. CLIPSeqTools–a novel bioinformatics CLIP-seq analysis suite. RNA. 2016 Jan;22(1):1-9. doi: 10.1261/rna.052167.115. Epub 2015 Nov 17. PubMed PMID: 26577377.

Vourekas A*, Zheng K*, Fu Q*, Maragkakis M*, Alexiou P, Ma J, Pillai RS, Mourelatos Z, Wang PJ. The RNA helicase MOV10L1 binds piRNA precursors to initiate piRNA processing. Genes Dev. 2015 Mar 15;29(6):617-29. doi: 10.1101/gad.254631.114. Epub 2015 Mar 11. PubMed PMID: 25762440.

Liu X, Mourelatos Z. Native gel analysis for mammalian microRNPs assembled from pre-microRNAs. Methods Mol Biol. 2015;1206:39-51. doi: 10.1007/978-1-4939-1369-5_4. PubMed PMID: 25240885.

2014

Liu X, Zheng Q, Vrettos N, Maragkakis M, Alexiou P, Gregory BD, Mourelatos Z. A MicroRNA precursor surveillance system in quality control of MicroRNA synthesis. Mol Cell. 2014 Sep 18;55(6):868-879. doi: 10.1016/j.molcel.2014.07.017. Epub 2014 Aug 28. PubMed PMID: 25175028.

Vourekas A, Mourelatos Z. HITS-CLIP (CLIP-Seq) for mouse Piwi proteins. Methods Mol Biol. 2014;1093:73-95. doi: 10.1007/978-1-62703-694-8_7. PubMed PMID: 24178558.

2013

Honda S, Kirino Y, Maragkakis M, Alexiou P, Ohtaki A, Murali R, Mourelatos Z, Kirino Y. Mitochondrial protein BmPAPI modulates the length of mature piRNAs. RNA. 2013 Oct;19(10):1405-18. doi: 10.1261/rna.040428.113. Epub 2013 Aug 22. PubMed PMID: 23970546.

Ibrahim F, Maragkakis M*, Alexiou P*, Maronski MA, Dichter MA, Mourelatos Z. Identification of in vivo, conserved, TAF15 RNA binding sites reveals the impact of TAF15 on the neuronal transcriptome. Cell Rep. 2013 Feb 21;3(2):301-8. doi: 10.1016/j.celrep.2013.01.021. Epub 2013 Feb 14. PubMed PMID: 23416048.

Nakaya T, Alexiou P*, Maragkakis M*, Chang A, Mourelatos Z. FUS regulates genes coding for RNA-binding proteins in neurons by binding to their highly conserved introns. RNA. 2013 Apr;19(4):498-509. doi: 10.1261/rna.037804.112. Epub 2013 Feb 6. PubMed PMID: 23389473.

2012

Vourekas A, Zheng Q, Alexiou P, Maragkakis M, Kirino Y, Gregory BD, Mourelatos Z. Mili and Miwi target RNA repertoire reveals piRNA biogenesis and function of Miwi in spermiogenesis. Nat Struct Mol Biol. 2012 Aug;19(8):773-81. doi: 10.1038/nsmb.2347. Epub 2012 Jul 29. PubMed PMID: 22842725.

Liu X, Jin DY, McManus MT, Mourelatos Z. Precursor microRNA-programmed silencing complex assembly pathways in mammals. Mol Cell. 2012 May 25;46(4):507-17. doi: 10.1016/j.molcel.2012.03.010. Epub 2012 Apr 12. PubMed PMID: 22503104.

Couthouis J, Hart MP, Erion R, King OD, Diaz Z, Nakaya T, Ibrahim F, Kim HJ, Mojsilovic-Petrovic J, Panossian S, Kim CE, Frackelton EC, Solski JA, Williams KL, Clay-Falcone D, Elman L, McCluskey L, Greene R, Hakonarson H, Kalb RG, Lee VM, Trojanowski JQ, Nicholson GA, Blair IP, Bonini NM, Van Deerlin VM, Mourelatos Z, Shorter J, Gitler AD. Evaluating the role of the FUS/TLS-related gene EWSR1 in amyotrophic lateral sclerosis. Hum Mol Genet. 2012 Jul 1;21(13):2899-911. doi: 10.1093/hmg/dds116. Epub 2012 Mar 27. PubMed PMID: 22454397.

2011

Venneti S, Boateng LA, Friedman JR, Baldwin DA, Tobias JW, Judkins AR, Mourelatos Z, Lal P. MiRNA-9 and MiRNA-200a distinguish hemangioblastomas from metastatic clear cell renal cell carcinomas in the CNS. Brain Pathol. 2012 Jul;22(4):522-9. doi: 10.1111/j.1750-3639.2011.00551.x. Epub 2011 Dec 9. PubMed PMID: 22082152.

Couthouis J, Hart MP, Shorter J, DeJesus-Hernandez M, Erion R, Oristano R, Liu AX, Ramos D, Jethava N, Hosangadi D, Epstein J, Chiang A, Diaz Z, Nakaya T, Ibrahim F, Kim HJ, Solski JA, Williams KL, Mojsilovic-Petrovic J, Ingre C, Boylan K, Graff-Radford NR, Dickson DW, Clay-Falcone D, Elman L, McCluskey L, Greene R, Kalb RG, Lee VM, Trojanowski JQ, Ludolph A, Robberecht W, Andersen PM, Nicholson GA, Blair IP, King OD, Bonini NM, Van Deerlin V, Rademakers R, Mourelatos Z, Gitler AD. A yeast functional screen predicts new candidate ALS disease genes. Proc Natl Acad Sci U S A. 2011 Dec 27;108(52):20881-90. doi: 10.1073/pnas.1109434108. Epub 2011 Nov 7. PubMed PMID: 22065782.

Ibrahim F, Nakaya T, Mourelatos Z. RNA dysregulation in diseases of motor neurons. Annu Rev Pathol. 2012;7:323-52. doi: 10.1146/annurev-pathol-011110-130307. Epub 2011 Oct 24. Review. PubMed PMID: 22035195.

Kirino Y, Vourekas A, Khandros E, Mourelatos Z. Immunoprecipitation of piRNPs and directional, next generation sequencing of piRNAs. Methods Mol Biol. 2011;725:281-93. doi: 10.1007/978-1-61779-046-1_18. PubMed PMID: 21528460.

Venneti S, Moss HE, Levin MH, Vagefi MR, Brozena SC, Pruitt AA, Mourelatos Z, Trojanowski JQ, Galetta SL, Balcer LJ. Asymmetric bilateral demyelinating optic neuropathy from tacrolimus toxicity. J Neurol Sci. 2011 Feb 15;301(1-2):112-5. doi: 10.1016/j.jns.2010.10.014. Epub 2010 Nov 26. PubMed PMID: 21112060.

2010

Vourekas A, Kirino Y, Mourelatos Z. Elective affinities: a Tudor-Aubergine tale of germline partnership. Genes Dev. 2010 Sep 15;24(18):1963-6. doi: 10.1101/gad.1977010. PubMed PMID: 20844011.

de Planell-Saguer M, Rodicio MC, Mourelatos Z. Rapid in situ codetection of noncoding RNAs and proteins in cells and formalin-fixed paraffin-embedded tissue sections without protease treatment. Nat Protoc. 2010 Jun;5(6):1061-73. doi: 10.1038/nprot.2010.62. Epub 2010 May 20. PubMed PMID: 20539282.

Nelson PT, Kiriakidou M, Mourelatos Z, Tan GS, Jennings MH, Xie K, Wang WX. High-throughput experimental studies to identify miRNA targets directly, with special focus on the mammalian brain. Brain Res. 2010 Jun 18;1338:122-30. doi: 10.1016/j.brainres.2010.03.108. Epub 2010 Apr 7. Review. PubMed PMID: 20380813.

Kirino Y, Vourekas A, Kim N, de Lima Alves F, Rappsilber J, Klein PS, Jongens TA, Mourelatos Z. Arginine methylation of vasa protein is conserved across phyla. J Biol Chem. 2010 Mar 12;285(11):8148-54. doi: 10.1074/jbc.M109.089821. Epub 2010 Jan 15. PubMed PMID: 20080973.

Kirino Y, Vourekas A, Sayed N, de Lima Alves F, Thomson T, Lasko P, Rappsilber J, Jongens TA, Mourelatos Z. Arginine methylation of Aubergine mediates Tudor binding and germ plasm localization. RNA. 2010 Jan;16(1):70-8. doi: 10.1261/rna.1869710. Epub 2009 Nov 19. PubMed PMID: 19926723.

-2009

Sotiropoulou G, Pampalakis G, Lianidou E, Mourelatos Z. Emerging roles of microRNAs as molecular switches in the integrated circuit of the cancer cell. RNA. 2009 Aug;15(8):1443-61. doi: 10.1261/rna.1534709. Epub 2009 Jun 26. Review. PubMed PMID: 19561119.

Kirino Y, Kim N, de Planell-Saguer M, Khandros E, Chiorean S, Klein PS, Rigoutsos I, Jongens TA, Mourelatos Z. Arginine methylation of Piwi proteins catalysed by dPRMT5 is required for Ago3 and Aub stability. Nat Cell Biol. 2009 May;11(5):652-8. doi: 10.1038/ncb1872. Epub 2009 Apr 19. PubMed PMID: 19377467.

de Planell-Saguer M, Schroeder DG, Rodicio MC, Cox GA, Mourelatos Z. Biochemical and genetic evidence for a role of IGHMBP2 in the translational machinery. Hum Mol Genet. 2009 Jun 15;18(12):2115-26. doi: 10.1093/hmg/ddp134. Epub 2009 Mar 19. PubMed PMID: 19299493.

Mourelatos Z. Small RNAs: The seeds of silence. Nature. 2008 Sep 4;455(7209):44-5. doi: 10.1038/455044a. PubMed PMID: 18769430.

Kirino Y, Mourelatos Z. Site-specific crosslinking of human microRNPs to RNA targets. RNA. 2008 Oct;14(10):2254-9. doi: 10.1261/rna.1133808. Epub 2008 Aug 21. PubMed PMID: 18719246.

Liu X, Fortin K, Mourelatos Z. MicroRNAs: biogenesis and molecular functions. Brain Pathol. 2008 Jan;18(1):113-21. doi: 10.1111/j.1750-3639.2007.00121.x. Review. PubMed PMID: 18226106.

Mourelatos Z. MicroRNAs: biology and roles in neurodegeneration and brain tumours. Introduction and historical background. Brain Pathol. 2008 Jan;18(1):110-2. doi: 10.1111/j.1750-3639.2007.00118.x. Review. PubMed PMID: 18226105.

Kirino Y, Mourelatos Z. 2′-O-methyl modification in mouse piRNAs and its methylase. Nucleic Acids Symp Ser (Oxf). 2007;(51):417-8. PubMed PMID: 18029764.

Mourelatos Z. Small regulatory RNAs: biogenesis & functions. Nucleic Acids Symp Ser (Oxf). 2007;(51):105. PubMed PMID: 18029608.

Nelson PT, De Planell-Saguer M, Lamprinaki S, Kiriakidou M, Zhang P, O’Doherty U, Mourelatos Z. A novel monoclonal antibody against human Argonaute proteins reveals unexpected characteristics of miRNAs in human blood cells. RNA. 2007 Oct;13(10):1787-92. Epub 2007 Aug 24. PubMed PMID: 17720879.

Kirino Y, Mourelatos Z. The mouse homolog of HEN1 is a potential methylase for Piwi-interacting RNAs. RNA. 2007 Sep;13(9):1397-401. Epub 2007 Jul 24. PubMed PMID: 17652135.

Kiriakidou M, Tan GS, Lamprinaki S, De Planell-Saguer M, Nelson PT, Mourelatos Z. An mRNA m7G cap binding-like motif within human Ago2 represses translation. Cell. 2007 Jun 15;129(6):1141-51. Epub 2007 May 24. PubMed PMID: 17524464.

Kirino Y, Mourelatos Z. Mouse Piwi-interacting RNAs are 2′-O-methylated at their 3′ termini. Nat Struct Mol Biol. 2007 Apr;14(4):347-8. Epub 2007 Mar 25. PubMed PMID: 17384647.

Hsu CT, Ganong AL, Reinap B, Mourelatos Z, Huebner J, Wang JY. Immunochemical characterization of polysaccharide antigens from six clinical strains of Enterococci. BMC Microbiol. 2006 Jul 12;6:62. PubMed PMID: 16836754.

Nelson PT, Baldwin DA, Kloosterman WP, Kauppinen S, Plasterk RH, Mourelatos Z. RAKE and LNA-ISH reveal microRNA expression and localization in archival human brain. RNA. 2006 Feb;12(2):187-91. Epub 2005 Dec 22. PubMed PMID: 16373485.

Maniataki E, Mourelatos Z. A human, ATP-independent, RISC assembly machine fueled by pre-miRNA. Genes Dev. 2005 Dec 15;19(24):2979-90. PubMed PMID: 16357216.

Kiriakidou M, Nelson P, Lamprinaki S, Sharma A, Mourelatos Z. Detection of microRNAs and assays to monitor microRNA activities in vivo and in vitro. Methods Mol Biol. 2005;309:295-310. PubMed PMID: 15990409.

Maniataki E, De Planell Saguer MD, Mourelatos Z. Immunoprecipitation of microRNPs and directional cloning of microRNAs. Methods Mol Biol. 2005;309:283-94. PubMed PMID: 15990408.

Maniataki E, Mourelatos Z. Human mitochondrial tRNAMet is exported to the cytoplasm and associates with the Argonaute 2 protein. RNA. 2005 Jun;11(6):849-52. Epub 2005 May 4. PubMed PMID: 15872185.

Nelson PT, Baldwin DA, Scearce LM, Oberholtzer JC, Tobias JW, Mourelatos Z. Microarray-based, high-throughput gene expression profiling of microRNAs. Nat Methods. 2004 Nov;1(2):155-61. Epub 2004 Oct 21. PubMed PMID: 15782179.

Kiriakidou M, Nelson PT, Kouranov A, Fitziev P, Bouyioukos C, Mourelatos Z, Hatzigeorgiou A. A combined computational-experimental approach predicts human microRNA targets. Genes Dev. 2004 May 15;18(10):1165-78. Epub 2004 May 6. PubMed PMID: 15131085.

Nelson PT, Hatzigeorgiou AG, Mourelatos Z. miRNP:mRNA association in polyribosomes in a human neuronal cell line. RNA. 2004 Mar;10(3):387-94. PubMed PMID: 14970384.

Nelson P, Kiriakidou M, Sharma A, Maniataki E, Mourelatos Z. The microRNA world: small is mighty. Trends Biochem Sci. 2003 Oct;28(10):534-40. Review. PubMed PMID: 14559182.

Mourelatos Z, McGarvey M, French JA, Wells G. October 2002: 27-year-old female with epilepsy. Brain Pathol. 2003 Apr;13(2):233-4, 239. PubMed PMID: 12744477.

Dostie J, Mourelatos Z, Yang M, Sharma A, Dreyfuss G. Numerous microRNPs in neuronal cells containing novel microRNAs. RNA. 2003 Feb;9(2):180-6. Erratum in: RNA. 2003 May;9(5):631-2. PubMed PMID: 12554860.

Mourelatos Z, Dostie J, Paushkin S, Sharma A, Charroux B, Abel L, Rappsilber J, Mann M, Dreyfuss G. miRNPs: a novel class of ribonucleoproteins containing numerous microRNAs. Genes Dev. 2002 Mar 15;16(6):720-8. PubMed PMID: 11914277.

Gubitz AK, Mourelatos Z, Abel L, Rappsilber J, Mann M, Dreyfuss G. Gemin5, a novel WD repeat protein component of the SMN complex that binds Sm proteins. J Biol Chem. 2002 Feb 15;277(7):5631-6. Epub 2001 Nov 19. PubMed PMID: 11714716.

Mourelatos Z, Abel L, Yong J, Kataoka N, Dreyfuss G. SMN interacts with a novel family of hnRNP and spliceosomal proteins. EMBO J. 2001 Oct 1;20(19):5443-52. PubMed PMID: 11574476.

Jacobs DA, Lesser RL, Mourelatos Z, Galetta SL, Balcer LJ. The Heidenhain variant of Creutzfeldt-Jakob disease: clinical, pathologic, and neuroimaging findings. J Neuroophthalmol. 2001 Jun;21(2):99-102. PubMed PMID: 11450911.

Mourelatos Z, Golden JA. September 1999: 24 year old female with progressive lower extremity dystonia, dysarthia, dysphagia and mental impairment. Brain Pathol. 2000 Jan;10(1):171-2. PubMed PMID: 10668908.

Bennett JL, Galetta SL, Frohman LP, Mourelatos Z, Gultekin SH, Dalmau JO, Posner JB. Neuro-ophthalmologic manifestations of a paraneoplastic syndrome and testicular carcinoma. Neurology. 1999 Mar 10;52(4):864-7. PubMed PMID: 10078744.

Bennett JL, Pelak VA, Mourelatos Z, Bird S, Galetta SL. Acute sensorimotor polyneuropathy with tonic pupils and an abduction deficit: an unusual presentation of polyarteritis nodosa. Surv Ophthalmol. 1999 Jan-Feb;43(4):341-4. PubMed PMID: 10025516.

Abraham S, Lieberman A, Pack A, Judy K, Wells G, Mourelatos Z. Case of the month: July 1998 – 21 year old man with new-onset seizures and a temporal lobe mass. Brain Pathol. 1999 Jan;9(1):187-8. PubMed PMID: 9989459.

Stieber A, Chen Y, Wei S, Mourelatos Z, Gonatas J, Okamoto K, Gonatas NK. The fragmented neuronal Golgi apparatus in amyotrophic lateral sclerosis includes the trans-Golgi-network: functional implications. Acta Neuropathol. 1998 Mar;95(3):245-53. PubMed PMID: 9542589.

Gonatas JO, Chen YJ, Stieber A, Mourelatos Z, Gonatas NK. Truncations of the C-terminal cytoplasmic domain of MG160, a medial Golgi sialoglycoprotein, result in its partial transport to the plasma membrane and filopodia. J Cell Sci. 1998 Jan;111 ( Pt 2):249-60. PubMed PMID: 9405313.

Gopez EV, Mourelatos Z, Rosato EF, Livolsi VA. Acute appendicitis secondary to metastatic bronchogenic adenocarcinoma. Am Surg. 1997 Sep;63(9):778-80. PubMed PMID: 9290520.

Mourelatos Z, Gonatas JO, Cinato E, Gonatas NK. Cloning and sequence analysis of the human MG160, a fibroblast growth factor and E-selectin binding membrane sialoglycoprotein of the Golgi apparatus. DNA Cell Biol. 1996 Dec;15(12):1121-8. PubMed PMID: 8985126.

Tomaszewski JE, Abraham S, Bell K, Mourelatos Z, Reynolds C, Seykora J, LiVolsi VA. The measurement of complexity in surgical pathology. Am J Clin Pathol. 1996 Oct;106(4 Suppl 1):S65-9. PubMed PMID: 8853059.

Mourelatos Z, Gonatas NK, Stieber A, Gurney ME, Dal Canto MC. The Golgi apparatus of spinal cord motor neurons in transgenic mice expressing mutant Cu,Zn superoxide dismutase becomes fragmented in early, preclinical stages of the disease. Proc Natl Acad Sci U S A. 1996 May 28;93(11):5472-7. PubMed PMID: 8643599.

Stieber A, Mourelatos Z, Gonatas NK. In Alzheimer’s disease the Golgi apparatus of a population of neurons without neurofibrillary tangles is fragmented and atrophic. Am J Pathol. 1996 Feb;148(2):415-26. PubMed PMID: 8579105.

Stieber A, Mourelatos Z, Chen YJ, Le Douarin N, Gonatas NK. MG160, a membrane protein of the Golgi apparatus which is homologous to a fibroblast growth factor receptor and to a ligand for E-selectin, is found only in the Golgi apparatus and appears early in chicken embryo development. Exp Cell Res. 1995 Aug;219(2):562-70. PubMed PMID: 7543854.

Mourelatos Z, Gonatas JO, Nycum LM, Gonatas NK, Biegel JA. Assignment of the GLG1 gene for MGF-160, a fibroblast growth factor and E-selectin binding membrane sialoglycoprotein of the Golgi apparatus, to chromosome 16q22-q23 by fluorescence in situ hybridization. Genomics. 1995 Jul 20;28(2):354-5. PubMed PMID: 8530051.

Tascos N, Mourelatos Z, Gonatas NK. On the significance and reproducibility of the fragmentation of the Golgi apparatus of motor neurons in human spinal cords. J Neuropathol Exp Neurol. 1995 May;54(3):331-8. PubMed PMID: 7745432.

Gonatas JO, Mourelatos Z, Stieber A, Lane WS, Brosius J, Gonatas NK. MG-160, a membrane sialoglycoprotein of the medial cisternae of the rat Golgi apparatus, binds basic fibroblast growth factor and exhibits a high level of sequence identity to a chicken fibroblast growth factor receptor. J Cell Sci. 1995 Feb;108 ( Pt 2):457-67. PubMed PMID: 7768993.

Mourelatos Z, Hirano A, Rosenquist AC, Gonatas NK. Fragmentation of the Golgi apparatus of motor neurons in amyotrophic lateral sclerosis (ALS). Clinical studies in ALS of Guam and experimental studies in deafferented neurons and in beta,beta’-iminodipropionitrile axonopathy. Am J Pathol. 1994 Jun;144(6):1288-300. PubMed PMID: 8203467.

Mourelatos Z, Yachnis A, Rorke L, Mikol J, Gonatas NK. The Golgi apparatus of motor neurons in amyotrophic lateral sclerosis. Ann Neurol. 1993 Jun;33(6):608-15. PubMed PMID: 8498841.

Gonatas NK, Stieber A, Mourelatos Z, Chen Y, Gonatas JO, Appel SH, Hays AP, Hickey WF, Hauw JJ. Fragmentation of the Golgi apparatus of motor neurons in amyotrophic lateral sclerosis. Am J Pathol. 1992 Mar;140(3):731-7. PubMed PMID: 1546747.

Mourelatos Z, Adler H, Hirano A, Donnenfeld H, Gonatas JO, Gonatas NK. Fragmentation of the Golgi apparatus of motor neurons in amyotrophic lateral sclerosis revealed by organelle-specific antibodies. Proc Natl Acad Sci U S A. 1990 Jun;87(11):4393-5. PubMed PMID: 2349244.

Zissimos Mourelatos Research Lab website