DOCSLIB.ORG

Mir-212-3P Functions As a Tumor Suppressor Gene in Group 3 Medulloblastoma Via Targeting Nuclear Factor I/B (NFIB)

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Mir-212-3P Functions As a Tumor Suppressor Gene in Group 3 Medulloblastoma Via Targeting Nuclear Factor I/B (NFIB) bioRxiv preprint doi: https://doi.org/10.1101/2021.04.15.440074; this version posted April 16, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. MiR-212-3p functions as a tumor suppressor gene in group 3 medulloblastoma via targeting Nuclear Factor I/B (NFIB) Naveenkumar Perumal1, Ranjana K. Kanchan1, David Doss2, Noah Bastola3, Pranita Atri1, Ramakanth C. Venkata1, Ishwor Thapa4, Raghupathy Vengoji1, Shailendra K. Maurya1, David Klinkebiel1, Geoffrey A. Talmon5, Mohd W. Nasser1, Surinder K. Batra1, and Sidharth Mahapatra1,6 1 Department of Biochemistry, University of Nebraska Medical Center, Omaha, NE 2 Creighton University School of Medicine 3 Department of Ophthalmology, University of Washington St. Louis, St. Louis, MI 4 School of Interdisciplinary Informatics, University of Nebraska at Omaha, Omaha, NE 5 Department of Pathology, University of Nebraska Medical Center, Omaha, NE 6 Department of Pediatrics, University of Nebraska Medical Center, Omaha, NE Corresponding author: Sidharth Mahapatra, MD, PhD, Department of Pediatrics, University of Nebraska Medical Center, 601 South Saddle Creek Road, Omaha, Nebraska 68106, U.S.A. Telephone number: (402) 559-7754. Email: [email protected] Running title: MiR-212-3p, tumor suppressor gene in medulloblastoma Word Count: 5010; Figures: 5; References: 50 Abbreviations: 3’UTR, 3’ untranslated region; 5-AzaC, 5-Aza-2′-deoxycytidine; AKT, Protein kinase B; ANOVA, analysis of variance; Bin-1, Myc box-dependent-interacting protein 1; c-Myc, Avian myelocytomatosis virus oncogene cellular homolog; CB, cerebellum; CDK4, Cyclin-dependent kinase 4; CDK6, Cyclin-dependent kinase 6; CNS, central nervous system; MBSC, medulloblastoma stem like cells; CTGF, Connective tissue growth factor; DNA, deoxyribonucleic acid; EMT, epithelial- mesenchymal transition; EZH2, Enhancer of zeste homolog 2; FACS, fluorescence-activated cell sorting; FFPE, formalin-fixed paraffin-embedded; FISH, fluorescence in situ hybridization; HIC1, hypermethylated in cancer-1; HCC, Hepatocellular carcinoma; HDAC, histone de-acetylase; HRP, horseradish peroxidase; i(17q), isochromosome 17q; IHC, immunohistochemistry; IRB, Institutional Review Board; MB, medulloblastoma; miR, microRNA; miR-1253, microRNA 1253; miR-212-3p, microRNA 212-3p; MITF, Microphthalmia-associated transcription factor; MNT, Max network transcription factor; MTT, 3-(4, 5-dimethylthiazol-2-yl)-2, 5-diphenyl- 2H-tetrazolium bromide; NFIB, Nuclear factor I/B; Nl, normal; Non-SHH/WNT, Non-Sonic Hedgehog/Non-Wingless; NSCLC, Non- small cell lung cancer; Oct4, Octamer-binding transcription factor-4; p19ARF, p19 alternative reading frame protein; p-Akt, Phosphorylated protein kinase B; PARP, Poly ADP ribose polymerase; PCR, polymerase chain reaction; Ped, pediatric; p-Erk, Phosphorylated extracellular signal related kinase; PI3K, Phosphoinositide 3-kinase; RNA, ribonucleic acid; SCLC, non-small cell lung cancer; SHH, Sonic Hedgehog; SD, standard deviation; SGK3, Serum and glucocorticoid-inducible kinase 3; SMYD4, SET And MYND domain containing 4; Sox-2, Sry-box transcription factor-2; TCF7L2, Transcription factor 7-like 2; TNBC, triple-negative breast cancer; TSA, Tricostatin A; WNT, Wingless bioRxiv preprint doi: https://doi.org/10.1101/2021.04.15.440074; this version posted April 16, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 1 ABSTRACT 2 Background: Medulloblastoma (MB), the most frequent malignant pediatric brain tumor, is subdivided 3 into four primary subgroups, wingless-type (WNT), sonic hedgehog (SHH), group 3, and group 4. 4 Haploinsufficiency of chromosome 17p13.3 and c-Myc amplification distinguish high-risk group 3 5 tumors associated with rapid metastasis, recurrence and early mortality. We sought to identify the role of 6 miR-212-3p, which resides on chromosome 17p13.3, in the pathophysiology of group 3 MB. 7 Methods: We first determined miR-212-3p expression in group 3 MB using several publicly-available 8 datasets with confirmatory studies in vitro. We then identified epigenetic regulation by studying 9 methylation and HDAC modifications along the promoter region. We used two systems for expression 10 restoration, i.e. transient transfection or stable induction, to delineate miR-212-3p’s tumor suppressive 11 and biochemical properties via assays assessing cancer proliferation, migration, invasion, colony 12 formation, along with cell cycle and apoptosis analyses. We then compared MB and miR target 13 databases to isolate a putative target whose biochemical and oncogenic properties were similarly 14 elucidated using either transient silencing of target expression or stable induction of miR-212-3p. 15 Results: RNA expression analyses revealed dramatically reduced miR-212-3p levels in group 3 tumors 16 and cell lines mainly through epigenetic silencing via histone modifications. Restoring miR-212-3p 17 expression reduced in vitro cancer cell proliferation, migration, colony formation, and wound healing. 18 Elevated miR-212-3p levels shifted c-Myc phosphorylation (from serine-62 to threonine-58), triggering 19 destabilization and degradation; concurrently, its pro-apoptotic binding partners, i.e., Bin-1 and P19ARF, 20 were upregulated with subsequent elevated apoptotic signals. Using a combination of transcriptomic data 21 and dual luciferase assay, we isolated an oncogenic target of miR-212-3p, i.e. NFIB, a nuclear 22 transcription factor implicated in metastasis and recurrence in various cancers. Increased expression of 23 NFIB was confirmed in group 3 tumors, with poor survival shown in high-expressing patients. Transient 24 NFIB silencing in vitro reduced cancer cell proliferation, colony formation, migration, and invasion. 25 Concurrently, in group 3 MB cells, reduced medullosphere formation along with decreased expression of 26 stem cell markers (Nanog, Oct4, Sox2, CD133) were noted. 1 bioRxiv preprint doi: https://doi.org/10.1101/2021.04.15.440074; this version posted April 16, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 27 Conclusion: These results substantiate the tumor-suppressive role of miR-212-3p in group 3 MB and 28 provide a potential therapeutic oncogenic target implicated in metastasis and tumor recurrence. 29 Keywords: Group 3 medulloblastoma, chromosome 17p13.3, miR-212-3p, NIFB 30 BACKGROUND 31 Medulloblastoma (MB), the most common malignant brain tumor of childhood, accounts for 20% of 32 pediatric central nervous system (CNS) neoplasms with annual age-adjusted incidence ranging from 0.38 33 to 0.42 per 100,000 persons.1,2 Wingless-type (WNT), sonic hedgehog (SHH), group 3, and group 4 are 34 the classic subgroups of MB with distinctive clinicopathologic and molecular features.3 The most 35 aggressive tumors fall into group 3 (non-SHH/WNT MB), which account for approximately 25-30% of 36 all MB cases and belong to a high-risk subgroup punctuated by haploinsufficiency of 17p (20-50% 37 incidence), c-Myc amplification (15-20% incidence), metastases at diagnosis (30-40%), all resulting in 38 very poor prognosis with <50% 5-year survivorship.4-7 Current treatment regimens involve surgical 39 resection followed by a combination of craniospinal radiation and multi-agent chemotherapy, including 40 vincristine, cisplatin, and either cyclophosphamide or lomustine.8,9 Recent studies have highlighted the 41 importance of MB tumor-initiating (stem) cells, which are known to evade chemotherapeutic regimens, 42 in tumorigenesis and recurrence.10,11 While the overall prognosis is poor in group 3 MB, recurrence can 43 reduce 5-year survival to <10%.5,12 Thus, there is an urgent need to understand group 3 MB pathobiology 44 and key signaling pathways involved in disease progression and tumor recurrence to provide a more 45 accurate risk-adapted targeted treatment approach that can mitigate the dismal survivorship of these 46 patients. 47 Frequent cytogenetic events target the 17p13.3 locus in group 3 MB and are associated with poor 48 prognosis.13-15 Along this locus are multiple tumor suppressor genes and microRNAs (miRNAs), short 49 nucleotide noncoding RNAs capable of inhibiting expression of target genes by preventing translation or 50 promoting degradation.16 We recently reported on the tumor-suppressive properties of miR-1253, which 51 lies on the terminal part of this locus, in MB.17 Similarly along this locus lies miR-212-3p, a tumor 2 bioRxiv preprint doi: https://doi.org/10.1101/2021.04.15.440074; this version posted April 16, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 52 suppressor gene in various cancers, including lung cancer18, hepatocellular carcinoma19, prostate 53 cancer20, and glioblastoma21. In colorectal cancer22 and nasopharyngeal carcinoma23, miR-212-3p targets 54 MnSOD and Sox4, respectively, to prevent metastasis and invasion. In breast cancer, miR-212-3p 55 regulates angiogenesis through Sp1 and VEGFA.24 It can also sensitize cetuximab-resistant cells to 56 growth inhibition in Head and Neck Squamous Cell Carcinoma by targeting HBEGF.25 Other oncogenic 57 targets of miR-212-3p include CTGF19, Engrailed-220, and SGK321, which are
Load more

Recommended publications
  • Watsonjn2018.Pdf (1.780Mb)
    UNIVERSITY OF CENTRAL OKLAHOMA Edmond, Oklahoma Department of Biology Investigating Differential Gene Expression in vivo of Cardiac Birth Defects in an Avian Model of Maternal Phenylketonuria A THESIS SUBMITTED TO THE GRADUATE FACULTY In partial fulfillment of the requirements For the degree of MASTER OF SCIENCE IN BIOLOGY By Jamie N. Watson Edmond, OK June 5, 2018 J. Watson/Dr. Nikki Seagraves ii J. Watson/Dr. Nikki Seagraves Acknowledgements It is difficult to articulate the amount of gratitude I have for the support and encouragement I have received throughout my master’s thesis. Many people have added value and support to my life during this time. I am thankful for the education, experience, and friendships I have gained at the University of Central Oklahoma. First, I would like to thank Dr. Nikki Seagraves for her mentorship and friendship. I lucked out when I met her. I have enjoyed working on this project and I am very thankful for her support. I would like thank Thomas Crane for his support and patience throughout my master’s degree. I would like to thank Dr. Shannon Conley for her continued mentorship and support. I would like to thank Liz Bullen and Dr. Eric Howard for their training and help on this project. I would like to thank Kristy Meyer for her friendship and help throughout graduate school. I would like to thank my committee members Dr. Robert Brennan and Dr. Lilian Chooback for their advisement on this project. Also, I would like to thank the biology faculty and staff. I would like to thank the Seagraves lab members: Jailene Canales, Kayley Pate, Mckayla Muse, Grace Thetford, Kody Harvey, Jordan Guffey, and Kayle Patatanian for their hard work and support.
    [Show full text]
  • A Computational Approach for Defining a Signature of Β-Cell Golgi Stress in Diabetes Mellitus
    Page 1 of 781 Diabetes A Computational Approach for Defining a Signature of β-Cell Golgi Stress in Diabetes Mellitus Robert N. Bone1,6,7, Olufunmilola Oyebamiji2, Sayali Talware2, Sharmila Selvaraj2, Preethi Krishnan3,6, Farooq Syed1,6,7, Huanmei Wu2, Carmella Evans-Molina 1,3,4,5,6,7,8* Departments of 1Pediatrics, 3Medicine, 4Anatomy, Cell Biology & Physiology, 5Biochemistry & Molecular Biology, the 6Center for Diabetes & Metabolic Diseases, and the 7Herman B. Wells Center for Pediatric Research, Indiana University School of Medicine, Indianapolis, IN 46202; 2Department of BioHealth Informatics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202; 8Roudebush VA Medical Center, Indianapolis, IN 46202. *Corresponding Author(s): Carmella Evans-Molina, MD, PhD ([email protected]) Indiana University School of Medicine, 635 Barnhill Drive, MS 2031A, Indianapolis, IN 46202, Telephone: (317) 274-4145, Fax (317) 274-4107 Running Title: Golgi Stress Response in Diabetes Word Count: 4358 Number of Figures: 6 Keywords: Golgi apparatus stress, Islets, β cell, Type 1 diabetes, Type 2 diabetes 1 Diabetes Publish Ahead of Print, published online August 20, 2020 Diabetes Page 2 of 781 ABSTRACT The Golgi apparatus (GA) is an important site of insulin processing and granule maturation, but whether GA organelle dysfunction and GA stress are present in the diabetic β-cell has not been tested. We utilized an informatics-based approach to develop a transcriptional signature of β-cell GA stress using existing RNA sequencing and microarray datasets generated using human islets from donors with diabetes and islets where type 1(T1D) and type 2 diabetes (T2D) had been modeled ex vivo. To narrow our results to GA-specific genes, we applied a filter set of 1,030 genes accepted as GA associated.
    [Show full text]
  • 4-6 Weeks Old Female C57BL/6 Mice Obtained from Jackson Labs Were Used for Cell Isolation
    Methods Mice: 4-6 weeks old female C57BL/6 mice obtained from Jackson labs were used for cell isolation. Female Foxp3-IRES-GFP reporter mice (1), backcrossed to B6/C57 background for 10 generations, were used for the isolation of naïve CD4 and naïve CD8 cells for the RNAseq experiments. The mice were housed in pathogen-free animal facility in the La Jolla Institute for Allergy and Immunology and were used according to protocols approved by the Institutional Animal Care and use Committee. Preparation of cells: Subsets of thymocytes were isolated by cell sorting as previously described (2), after cell surface staining using CD4 (GK1.5), CD8 (53-6.7), CD3ε (145- 2C11), CD24 (M1/69) (all from Biolegend). DP cells: CD4+CD8 int/hi; CD4 SP cells: CD4CD3 hi, CD24 int/lo; CD8 SP cells: CD8 int/hi CD4 CD3 hi, CD24 int/lo (Fig S2). Peripheral subsets were isolated after pooling spleen and lymph nodes. T cells were enriched by negative isolation using Dynabeads (Dynabeads untouched mouse T cells, 11413D, Invitrogen). After surface staining for CD4 (GK1.5), CD8 (53-6.7), CD62L (MEL-14), CD25 (PC61) and CD44 (IM7), naïve CD4+CD62L hiCD25-CD44lo and naïve CD8+CD62L hiCD25-CD44lo were obtained by sorting (BD FACS Aria). Additionally, for the RNAseq experiments, CD4 and CD8 naïve cells were isolated by sorting T cells from the Foxp3- IRES-GFP mice: CD4+CD62LhiCD25–CD44lo GFP(FOXP3)– and CD8+CD62LhiCD25– CD44lo GFP(FOXP3)– (antibodies were from Biolegend). In some cases, naïve CD4 cells were cultured in vitro under Th1 or Th2 polarizing conditions (3, 4).
    [Show full text]
  • Genome-Wide DNA Methylation Analysis of KRAS Mutant Cell Lines Ben Yi Tew1,5, Joel K
    www.nature.com/scientificreports OPEN Genome-wide DNA methylation analysis of KRAS mutant cell lines Ben Yi Tew1,5, Joel K. Durand2,5, Kirsten L. Bryant2, Tikvah K. Hayes2, Sen Peng3, Nhan L. Tran4, Gerald C. Gooden1, David N. Buckley1, Channing J. Der2, Albert S. Baldwin2 ✉ & Bodour Salhia1 ✉ Oncogenic RAS mutations are associated with DNA methylation changes that alter gene expression to drive cancer. Recent studies suggest that DNA methylation changes may be stochastic in nature, while other groups propose distinct signaling pathways responsible for aberrant methylation. Better understanding of DNA methylation events associated with oncogenic KRAS expression could enhance therapeutic approaches. Here we analyzed the basal CpG methylation of 11 KRAS-mutant and dependent pancreatic cancer cell lines and observed strikingly similar methylation patterns. KRAS knockdown resulted in unique methylation changes with limited overlap between each cell line. In KRAS-mutant Pa16C pancreatic cancer cells, while KRAS knockdown resulted in over 8,000 diferentially methylated (DM) CpGs, treatment with the ERK1/2-selective inhibitor SCH772984 showed less than 40 DM CpGs, suggesting that ERK is not a broadly active driver of KRAS-associated DNA methylation. KRAS G12V overexpression in an isogenic lung model reveals >50,600 DM CpGs compared to non-transformed controls. In lung and pancreatic cells, gene ontology analyses of DM promoters show an enrichment for genes involved in diferentiation and development. Taken all together, KRAS-mediated DNA methylation are stochastic and independent of canonical downstream efector signaling. These epigenetically altered genes associated with KRAS expression could represent potential therapeutic targets in KRAS-driven cancer. Activating KRAS mutations can be found in nearly 25 percent of all cancers1.
    [Show full text]
  • Noelia Díaz Blanco
    Effects of environmental factors on the gonadal transcriptome of European sea bass (Dicentrarchus labrax), juvenile growth and sex ratios Noelia Díaz Blanco Ph.D. thesis 2014 Submitted in partial fulfillment of the requirements for the Ph.D. degree from the Universitat Pompeu Fabra (UPF). This work has been carried out at the Group of Biology of Reproduction (GBR), at the Department of Renewable Marine Resources of the Institute of Marine Sciences (ICM-CSIC). Thesis supervisor: Dr. Francesc Piferrer Professor d’Investigació Institut de Ciències del Mar (ICM-CSIC) i ii A mis padres A Xavi iii iv Acknowledgements This thesis has been made possible by the support of many people who in one way or another, many times unknowingly, gave me the strength to overcome this "long and winding road". First of all, I would like to thank my supervisor, Dr. Francesc Piferrer, for his patience, guidance and wise advice throughout all this Ph.D. experience. But above all, for the trust he placed on me almost seven years ago when he offered me the opportunity to be part of his team. Thanks also for teaching me how to question always everything, for sharing with me your enthusiasm for science and for giving me the opportunity of learning from you by participating in many projects, collaborations and scientific meetings. I am also thankful to my colleagues (former and present Group of Biology of Reproduction members) for your support and encouragement throughout this journey. To the “exGBRs”, thanks for helping me with my first steps into this world. Working as an undergrad with you Dr.
    [Show full text]
  • SMYD4 Antibody
    Efficient Professional Protein and Antibody Platforms SMYD4 Antibody Basic information: Catalog No.: UPA06235 Source: Rabbit Size: 50ul/100ul Clonality: Polyclonal Concentration: 1mg/ml Isotype: IgG Purification: The antibody was purified by immunogen affinity chromatography. Useful Information: WB: 1:500 - 1:2000 Applications: IHC: 1:50-1:200 IF/IC: 1:50-1:100 Reactivity: Human, Mouse Specificity: Recognizes endogenous levels of SMYD4 protein. Immunogen: Recombinant full length protein of human SMYD4 Description: Rabbit polyclonal antibody to SMYD4 Uniprot: Q8IYR2(Human), Q8BTK5(Mouse) BiowMW: Refer to Figures Liquid in 0.42% Potassium phosphate, 0.87% Sodium chloride, pH 7.3, 30% Buffer: glycerol, and 0.01% sodium azide. Storage: Store at 4°C short term and -20°C long term. Avoid freeze-thaw cycles. Note: For research use only, not for use in diagnostic procedure. Data: Western blot analysis of SMYD4 expression in mouse brain (A), mouse ovary (B), rat kidney (C) whole cell lysates. Gene Universal Technology Co. Ltd www.universalbiol.com Tel: 0550-3121009 E-mail: [email protected] Efficient Professional Protein and Antibody Platforms Immunohistochemical analysis of SMYD4 staining in human stomach cancer formalin fixed paraffin embedded tissue section. The section was pre-treated using heat mediated antigen retrieval with sodium citrate buffer (pH 6.0). The section was then incubated with the antibody at room temperature and detected using an HRP conju- gated compact polymer system. DAB was used as the chromogen. The section was then counter- stained with haematoxylin and mounted with DPX. Immunofluorescent analysis of SMYD4 staining in MCF7 cells. Formalin-fixed cells were permea- bilized with 0.1% Triton X-100 in TBS for 5-10 minutes and blocked with 3% BSA-PBS for 30 minutes at room temperature.
    [Show full text]
  • Genetic Regulation of Pigment Epithelium-Derived Factor (PEDF): an Exome-Chip Association Analysis in Chinese Subjects with Type 2 Diabetes
    198 Diabetes Volume 68, January 2019 Genetic Regulation of Pigment Epithelium-Derived Factor (PEDF): An Exome-Chip Association Analysis in Chinese Subjects With Type 2 Diabetes Chloe Y.Y. Cheung,1,2 Chi-Ho Lee,1 Clara S. Tang,3 Aimin Xu,1,2,4,5 Ka-Wing Au,1 Carol H.Y. Fong,1 Kelvin K.K. Ng,1 Kelvin H.M. Kwok,1 Wing-Sun Chow,1 Yu-Cho Woo,1 Michele M.A. Yuen,1 JoJo Hai,1 Kathryn C.B. Tan,1 Tai-Hing Lam,6 Hung-Fat Tse,1,7 Pak-Chung Sham,8,9,10 and Karen S.L. Lam1,2,4 Diabetes 2019;68:198–206 | https://doi.org/10.2337/db18-0500 Elevated circulating levels of pigment epithelium-derived (P = 0.085). Our study provided new insights into the factor (PEDF) have been reported in patients with type genetic regulation of PEDF and further support for its po- 2 diabetes (T2D) and its associated microvascular com- tential application as a biomarker for diabetic nephrop- plications. This study aimed to 1) identify the genetic athy and sight-threatening diabetic retinopathy. Further determinants influencing circulating PEDF levels in a studies to explore the causal relationship of PEDF with clinical setting of T2D, 2) examine the relationship be- diabetes complications are warranted. tween circulating PEDF and diabetes complications, and 3) explore the causal relationship between PEDF and di- abetes complications. An exome-chip association study Pigment epithelium-derived factor (PEDF) is a multifunc- on circulating PEDF levels was conducted in 5,385 Chi- tional glycoprotein that belongs to the serine protease nese subjects with T2D.
    [Show full text]
  • Expression, Purification and Characterization of Lysine Methyltransferase Smyd5 Wen Xue Wayne State University
    Wayne State University Wayne State University Theses 1-1-2017 Expression, Purification And Characterization Of Lysine Methyltransferase Smyd5 Wen Xue Wayne State University, Follow this and additional works at: https://digitalcommons.wayne.edu/oa_theses Part of the Biochemistry Commons, and the Molecular Biology Commons Recommended Citation Xue, Wen, "Expression, Purification And Characterization Of Lysine Methyltransferase Smyd5" (2017). Wayne State University Theses. 596. https://digitalcommons.wayne.edu/oa_theses/596 This Open Access Thesis is brought to you for free and open access by DigitalCommons@WayneState. It has been accepted for inclusion in Wayne State University Theses by an authorized administrator of DigitalCommons@WayneState. Expression, Purification and Characterization of Lysine Methyltransferase SMYD5 by Wen Xue THESIS Submitted to the Graduate School Of Wayne State University, Detroit, Michigan In partial fulfillment of the requirements for the degree of MASTERS OF SCIENCE 2017 MAJOR: BIOCHEMISTRY AND MOLECULAR BIOLOGY Approved by: Advisor Date © COPYRIGHT BY WEN XUE 2017 All Rights Reserved DEDICATION To everyone who contributed to the better version of myself ii ACKNOWLEDGEMENTS I would like to thank all of my committee members, Dr. Zhe Yang, Dr. Ladislau Kovari, Dr. David Evans, for the academic support and advice they have provided to me throughout the last two years. I am very grateful to have met such an inspirational and kind group of individuals. All of you truly make the Wayne State University feel like a community for me. I would also like to say a very special thanks to my mentor Dr. Zhe Yang, who has taught me how to learn things and solve problems.
    [Show full text]
  • Bat Methylation Ms 162021Cleanba
    bioRxiv preprint doi: https://doi.org/10.1101/2020.09.04.283655; this version posted January 6, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Genome Methylation Predicts Age and Longevity of Bats Gerald S. Wilkinson1*†, Danielle M. Adams1, Amin Haghani2, Ake T. Lu2, Joseph Zoller3, Charles E. Breeze4, Bryan D. Arnold5, Hope C. Ball6, Gerald Carter7, Lisa Noelle Cooper6, Dina K.N. Dechmann8,9,10, Paolo Devanna11, Nicolas J. Fasel12, Alexander V. Galazyuk6, Linus Günther13, Edward Hurme1,9, Gareth Jones14, Mirjam Knörnschild10,13, Ella Z. Lattenkamp11,15, Caesar Z. Li3, Frieder Mayer13, Josephine A. Reinhardt16, Rodrigo A. Medellin17, Martina Nagy13, Brian Pope18, Megan L. Power19, Roger D. Ransome14, Emma C. Teeling19, Sonja C. Vernes11,20,21, Daniel Zamora-Mejías17, Joshua Zhang2, and Steve Horvath2,3*† 1 Department of Biology, University of Maryland, College Park 20742 USA 2 Department of Human GenetiCs, David Geffen School of MediCine, University of California, Los Angeles 90095 USA 3 Department of BiostatistiCs, Fielding School of PubliC Health, University of California, Los Angeles 90095 USA 4 Altius Institute for BiomediCal Sciences, Seattle, WA, 98121 USA 5 Department of Biology, Illinois College, Jacksonville, IL 62650 USA 6 Department of Anatomy and Neurobiology, Northeast Ohio MediCal University, Rootstown, Ohio, U.S.A. 44272-0095 7 Department of Evolution, ECology and Organismal Biology, The Ohio State University,
    [Show full text]
  • The Tumor Suppressor HHEX Inhibits Axon Growth When Prematurely Expressed in Developing Central Nervous System Neurons
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by epublications@Marquette Marquette University e-Publications@Marquette Biological Sciences Faculty Research and Biological Sciences, Department of Publications 9-1-2015 The umorT Suppressor HHEX Inhibits Axon Growth when Prematurely Expressed in Developing Central Nervous System Neurons Matthew .T Simpson Marquette University Ishwariya Venkatesh Marquette University Ben L. Callif Marquette University Laura K. Thiel Marquette University Denise M. Coley Marquette University See next page for additional authors Accepted version. Molecular and Cellular Neuroscience, Vol 68 )September 2015): 272-283. DOI. © 2015 Elsevier Inc. Used with permission. NOTICE: this is the author’s version of a work that was accepted for publication in Molecular and Cellular Neuroscience. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. A definitive version was subsequently published in Molecular and Cellular Neuroscience, Vol 68 )September 2015): 272-283. DOI. Authors Matthew T. Simpson, Ishwariya Venkatesh, Ben L. Callif, Laura K. Thiel, Denise M. Coley, Kristen N. Winsor, Zimei Wang, Audra A. Kramer, Jessica K. Lerch, and Murray G. Blackmore This article is available at e-Publications@Marquette: https://epublications.marquette.edu/bio_fac/515 NOT THE PUBLISHED VERSION; this is the author’s final, peer-reviewed manuscript. The published version may be accessed by following the link in the citation at the bottom of the page. The Tumor Suppressor HHEX Inhibits Axon Growth When Prematurely Expressed in Developing Central Nervous System Neurons Matthew T.
    [Show full text]
  • Insertional Mutagenesis in Mice Deficient for P15ink4b, P16ink4a, P21cip1, P27kip1 Reveals Cancer Gene Interactions and Correlations with Tumor Phenotypes
    Published in final edited form as: Cancer Res. 2010 January 15; 70(2): 520–531. doi:10.1158/0008-5472.CAN-09-2736. Insertional mutagenesis in mice deficient for p15Ink4b, p16Ink4a, p21Cip1, p27Kip1 reveals cancer gene interactions and correlations with tumor phenotypes Jaap Kool1, Anthony G. Uren1, Carla P. Martins1,7, Daoud Sie2, Jeroen de Ridder3,4, Geoffrey Turner5,8, Miranda van Uitert3, Konstantin Matentzoglu1,9, Wendy Lagcher1, Paul Krimpenfort1, Jules Gadiot1, Colin Pritchard1, Jack Lenz5, Anders H. Lund1,10, Jos Jonkers3, Jane Rogers6,11, David J. Adams6, Lodewyk Wessels3,4, Anton Berns1, and Maarten van Lohuizen1 1Division of Molecular Genetics, The Centre of Biomedical Genetics, Academic Medical Center and Cancer Genomics Centre, Netherlands Cancer Institute, Amsterdam, The Netherlands 2Central Microarray Facility, Netherlands Cancer Institute, Amsterdam, The Netherlands 3Division of Molecular Biology, Netherlands Cancer Institute, Amsterdam, The Netherlands 4Faculty of Electrical Engineering, Mathematics, and Computer Science, Delft University of Technology, Delft, The Netherlands 5Albert Einstein College of Medicine, Bronx, NY, U.S.A. 6Wellcome Trust Sanger Institute, Hinxton, UK Abstract The cyclin dependent kinase (CDK) inhibitors p15, p16, p21 and p27 are frequently deleted, silenced or downregulated in many malignancies. Inactivation of CDK inhibitors predisposes mice to tumor development demonstrating that these genes can act as tumor suppressors. Here we describe high-throughput murine leukemia virus (MuLV) insertional mutagenesis screens in mice deficient for one or a combination of two CDK inhibitors. We retrieved 9117 retroviral insertions from 476 lymphomas and find hundreds of loci that are mutated significantly more frequently than expected by chance. Many of these are skewed toward a specific genetic context of predisposing germline and somatic mutations.
    [Show full text]
  • The Lysine Methylase SMYD3 Modulates Mesendodermal Commitment During Development
    cells Article The Lysine Methylase SMYD3 Modulates Mesendodermal Commitment during Development Raffaella Fittipaldi 1,†, Pamela Floris 1,† , Valentina Proserpio 1,2 , Franco Cotelli 1, Monica Beltrame 1 and Giuseppina Caretti 1,* 1 Department of Biosciences, University of Milan, Via Celoria 26, 20133 Milan, Italy; raffaella.fi[email protected] (R.F.); pamela.fl[email protected] (P.F.); [email protected] (V.P.); [email protected] (F.C.); [email protected] (M.B.) 2 Candiolo Cancer Institute, FPO-IRCCS, 10060 Candiolo, Italy * Correspondence: [email protected]; Tel.: +39-025-031-5002 † These authors contributed equally. Abstract: SMYD3 (SET and MYND domain containing protein 3) is a methylase over-expressed in cancer cells and involved in oncogenesis. While several studies uncovered key functions for SMYD3 in cancer models, the SMYD3 role in physiological conditions has not been fully elucidated yet. Here, we dissect the role of SMYD3 at early stages of development, employing mouse embryonic stem cells (ESCs) and zebrafish as model systems. We report that SMYD3 depletion promotes the induction of the mesodermal pattern during in vitro differentiation of ESCs and is linked to an upregulation of cardiovascular lineage markers at later stages. In vivo, smyd3 knockdown in zebrafish favors the upregulation of mesendodermal markers during zebrafish gastrulation. Overall, our study reveals that SMYD3 modulates levels of mesendodermal markers, both in development and in embryonic stem cell differentiation. Citation: Fittipaldi, R.; Floris, P.; Proserpio, V.; Cotelli, F.; Beltrame, M.; Keywords: embryonic stem cells; SMYD3; zebrafish; development Caretti, G. The Lysine Methylase SMYD3 Modulates Mesendodermal Commitment during Development. Cells 2021, 10, 1233.
    [Show full text]