{"id":423,"date":"2015-01-12T15:02:17","date_gmt":"2015-01-12T15:02:17","guid":{"rendered":"http:\/\/lab-dev.research.sickkids.ca\/sevan-hopyan-lab\/?page_id=423"},"modified":"2024-01-02T20:58:36","modified_gmt":"2024-01-02T20:58:36","slug":"retrovirus-silencing","status":"publish","type":"page","link":"https:\/\/lab.research.sickkids.ca\/ellis\/research\/retrovirus-silencing\/","title":{"rendered":"Gene Expression and retrovirus silencing"},"content":{"rendered":"

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\"iPS<\/a><\/div>
iPS cell-derived neurons<\/strong><\/div>\n
Green: MAP2 \u2013\u00a0neuronal marker<\/div>\n
Red: DCP1A \u2013\u00a0P-body marker<\/div>\n
Courtesy: Dr. Deivid Rodrigues<\/em><\/div>\n<\/div><\/section>[\/vc_column][vc_column width=”3\/4″][vc_column_text]<\/p>\n

Post-transcriptional gene regulation<\/h3>\n

 <\/p>\n

Post-transcriptional gene regulation<\/h4>\n

A new direction for our research concerns post-transcriptional regulation in stem cell and neurons.\u00a0 We contributed to Ben Blencowe\u2019s lab discovery that knockdown of the MBNL<\/em> splicing family promotes reprogramming.\u00a0 In addition, many genes important for neuron function are highly transcribed in ES and iPS cells, but the mRNA is not efficiently translated into protein until neurons are made.\u00a0 We first investigated post-transcriptional pathways that regulate the MECP2<\/em> transcript and protein accumulation with an emphasis on RNA binding proteins that recognize elements in the 3\u2019UTR. Together with the Blencowe lab, we are examining genome-wide regulation of transcript stability and ribosome engagement. We are also initiating studies of activity-dependent translation in control and ASD neurons.\u00a0 These RNA biology projects are funded by CIHR, MbD, SFARI and the POND network, and were initiated with funds from OIRM and IRSF.[\/vc_column_text][\/vc_column][\/vc_row][vc_row][vc_column]

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Selected Publications<\/span><\/h3>\n<\/div><\/div><\/div><\/div>[\/vc_column][vc_column width=”1\/3″][\/vc_column][vc_column width=”1\/3″][\/vc_column][\/vc_row][vc_row][vc_column]
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  1. Rodrigues D.C+<\/sup>, Mufteev M+<\/sup>, Yuki KE, Narula A, Wei W, Piekna A, Liu J, Pasceri P, Rissland OS, Wilson MD, Ellis J. 2023. Buffering of transcription rate by mRNA half-life is a conserved feature of Rett syndrome models<\/a>. +<\/sup>Co-first authors. Nature Communications<\/strong>,14:1896.<\/li>\n
  2. Murtaza N, Cheng AA, Brown CO, Meka DP, Hong S, Uy JA, El-Hajjar J, Pipko N, Unda BK, Schwanke B, Xing S, Thiruvahindrapuram B, Engchuan W, Trost B, Deneault E, Calderon de Anda F, Doble BW, Ellis J, Anagnostou E, Bader GD, Scherer SW, Lu Y, Singh KK. 2022. Neuron-specific protein network mapping of autism risk genes identifies shared biological mechanisms and disease-relevant pathologies<\/a>. Cell Reports<\/strong>, 41:111678<\/li>\n
  3. Subramanian A, Hall M, Hou H, Mufteev M, Yu B, Yuki KE, Nishimura H, Sathaseevan A, Lant B, Zhai B, Ellis J, Wilson MD, Daugaard M, Derry WB. 2021. Alternative polyadenylation is a determinant of oncogenic Ras function.<\/a> Science Advances<\/strong> 7: eabh0562.<\/li>\n
  4. Byres LP, Mufteev M, Yuki KE, Wei W, Piekna A, Wilson MD, Rodrigues DC* and Ellis J*. 2021. Identification of TIA-1 mRNA targets during human neuronal development<\/a>. *Co-corresponding authors. Molecular Biology Reports<\/strong>, 48:6349-6361<\/li>\n
  5. Rodrigues D.C.*, Mufteev M, Ellis J. 2020. Quantification of mRNA ribosomal engagement in human neurons using parallel translating ribosome affinity purification (TRAP) and RNA sequencing<\/a>. *Corresponding author. STAR Protocols<\/strong>, 2:100229.<\/li>\n
  6. Rodrigues DC, Mufteev M, Ellis J. 2020. Regulation, diversity and function of MECP2 exon and 3’UTR isoforms<\/a>. Human Molecular Genetics,<\/strong> ddaa154.<\/li>\n
  7. Rodrigues DC,\u00a0Harvey EM,\u00a0Suraj R,\u00a0Erickson SL,\u00a0Mohammad L,\u00a0Ren M,\u00a0Liu H,\u00a0He G,\u00a0Kaplan DR,\u00a0Ellis J,\u00a0Yang G. 2020.\u00a0<\/strong>Methylglyoxal couples metabolic and translational control of Notch signalling in mammalian neural stem cells.<\/a> Nat Commun<\/strong>. 24;11(1):2018<\/li>\n
  8. Rodrigues DC,\u00a0Mufteev M,\u00a0Weatheritt RJ,\u00a0Djuric U,\u00a0Ha KCH,\u00a0Ross PJ,\u00a0Wei W,\u00a0Piekna A,\u00a0Sartori MA,\u00a0Byres L,\u00a0Mok RSF,\u00a0Zaslavsky K,\u00a0Pasceri P,\u00a0Diamandis P,\u00a0Morris Q,\u00a0Blencowe BJ,\u00a0Ellis J. 2020. Shifts in Ribosome Engagement Impact Key Gene Sets in Neurodevelopment and Ubiquitination in Rett Syndrome Neurons<\/a>.\u00a0Cell Reports<\/strong>\u00a030:4179-96.<\/li>\n
  9. A. Narula, J. Ellis, J.M. Taliaferro and O.S. Rissland. 2019. Coding regions affect mRNA Stability in Human Cells.<\/a>\u00a0RNA\u00a0<\/strong>25:1751-64.<\/li>\n
  10. Djuric U,\u00a0Rodrigues DC,\u00a0Batruch I,\u00a0Ellis J,\u00a0Shannon P,\u00a0Diamandis P. 2017. Spatiotemporal proteomic profiling of human cerebral development<\/a>. Djuric U, et al.\u00a0Molecular and cellular proteomics<\/strong>. 16(9):1548-1562.<\/li>\n
  11. Rodrigues DC,\u00a0Kim DS,\u00a0Yang G,\u00a0Zaslavsky K,\u00a0Ha KC,\u00a0Mok RS,\u00a0Ross PJ,\u00a0Zhao M,\u00a0Piekna A,\u00a0Wei W,\u00a0Blencowe BJ,\u00a0Morris Q,\u00a0Ellis J. 2016. MECP2 is post-transcriptionally regulated during human neurodevelopment by combinatorial action of RNA-binding proteins and miRNAs<\/a>.\u00a0Cell Reports<\/strong>. 17(3); 720-734.<\/li>\n
  12. Han H, Irimia M, Ross PJ, Sung HK, Alipanahi B, David L, Golipour A, Gabut M, Michael IP, Nachman EN, Wang E, Trcka D, Thompson T, O’Hanlon D, Slobodeniuc V, Barbosa-Morais NL, Burge CB, Moffat J, Frey BJ, Nagy A, Ellis J, Wrana JL, and Blencowe BJ. 2013. MBNL proteins repress ES-cell-specific alternative splicing and reprogramming<\/a>. Nature.\u00a0<\/b>498(7453):241-5.<\/li>\n<\/ol>\n<\/div>[\/vc_column][\/vc_row][vc_row][vc_column]
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    [vc_row][vc_column width=”1\/4″][\/vc_column][vc_column width=”3\/4″][vc_column_text] Post-transcriptional gene regulation   Post-transcriptional gene regulation A new direction for our research concerns post-transcriptional regulation in stem cell and neurons.\u00a0 We contributed to Ben Blencowe\u2019s lab discovery that knockdown of the MBNL splicing family promotes reprogramming.\u00a0 In addition, many genes important for neuron function are highly transcribed in ES and iPS…<\/p>\n","protected":false},"author":2,"featured_media":0,"parent":19,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-423","page","type-page","status-publish","hentry","description-off"],"yoast_head":"\nGene Expression and retrovirus silencing - Ellis Lab<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/lab.research.sickkids.ca\/ellis\/research\/retrovirus-silencing\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Gene Expression and retrovirus silencing\" \/>\n<meta property=\"og:description\" content=\"[vc_row][vc_column width=”1\/4″][\/vc_column][vc_column width=”3\/4″][vc_column_text] Post-transcriptional gene regulation   Post-transcriptional gene regulation A new direction for our research concerns post-transcriptional regulation in stem cell and neurons.\u00a0 We contributed to Ben Blencowe\u2019s lab discovery that knockdown of the MBNL splicing family promotes reprogramming.\u00a0 In addition, many genes important for neuron function are highly transcribed in ES and iPS…\" \/>\n<meta property=\"og:url\" content=\"https:\/\/lab.research.sickkids.ca\/ellis\/research\/retrovirus-silencing\/\" \/>\n<meta property=\"og:site_name\" content=\"Ellis Lab\" \/>\n<meta property=\"article:modified_time\" content=\"2024-01-02T20:58:36+00:00\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:label1\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data1\" content=\"4 minutes\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"WebPage\",\"@id\":\"https:\/\/lab.research.sickkids.ca\/ellis\/research\/retrovirus-silencing\/\",\"url\":\"https:\/\/lab.research.sickkids.ca\/ellis\/research\/retrovirus-silencing\/\",\"name\":\"Gene Expression and retrovirus silencing - 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