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S1 Supplemental Materials Supplemental Methods Supplemental Figure 1. Immune Phenotype of Mcd19 Targeted CAR T and Dose Titratio
Supplemental Materials Supplemental Methods Supplemental Figure 1. Immune phenotype of mCD19 targeted CAR T and dose titration of in vivo efficacy. Supplemental Figure 2. Gene expression of fluorescent-protein tagged CAR T cells. Supplemental Figure 3. Fluorescent protein tagged CAR T cells function similarly to non-tagged counterparts. Supplemental Figure 4. Transduction efficiency and immune phenotype of mCD19 targeted CAR T cells for survival study (Figure 2D). Supplemental Figure 5. Transduction efficiency and immune phenotype of CAR T cells used in irradiated CAR T study (Fig. 3B-C). Supplemental Figure 6. Differential gene expression of CD4+ m19-humBBz CAR T cells. Supplemental Figure 7. CAR expression and CD4/CD8 subsets of human CD19 targeted CAR T cells for Figure 5E-G. Supplemental Figure 8. Transduction efficiency and immune phenotype of mCD19 targeted wild type (WT) and TRAF1-/- CAR T cells used for in vivo study (Figure 6D). Supplemental Figure 9. Mutated m19-musBBz CAR T cells have increased NF-κB signaling, improved cytokine production, anti-apoptosis, and in vivo function. Supplemental Figure 10. TRAF and CAR co-expression in human CD19-targeted CAR T cells. Supplemental Figure 11. TRAF2 over-expressed h19BBz CAR T cells show similar in vivo efficacy to h19BBz CAR T cells in an aggressive leukemia model. S1 Supplemental Table 1. Probesets increased in m19z and m1928z vs m19-musBBz CAR T cells. Supplemental Table 2. Probesets increased in m19-musBBz vs m19z and m1928z CAR T cells. Supplemental Table 3. Probesets differentially expressed in m19z vs m19-musBBz CAR T cells. Supplemental Table 4. Probesets differentially expressed in m1928z vs m19-musBBz CAR T cells. -
Aneuploidy: Using Genetic Instability to Preserve a Haploid Genome?
Health Science Campus FINAL APPROVAL OF DISSERTATION Doctor of Philosophy in Biomedical Science (Cancer Biology) Aneuploidy: Using genetic instability to preserve a haploid genome? Submitted by: Ramona Ramdath In partial fulfillment of the requirements for the degree of Doctor of Philosophy in Biomedical Science Examination Committee Signature/Date Major Advisor: David Allison, M.D., Ph.D. Academic James Trempe, Ph.D. Advisory Committee: David Giovanucci, Ph.D. Randall Ruch, Ph.D. Ronald Mellgren, Ph.D. Senior Associate Dean College of Graduate Studies Michael S. Bisesi, Ph.D. Date of Defense: April 10, 2009 Aneuploidy: Using genetic instability to preserve a haploid genome? Ramona Ramdath University of Toledo, Health Science Campus 2009 Dedication I dedicate this dissertation to my grandfather who died of lung cancer two years ago, but who always instilled in us the value and importance of education. And to my mom and sister, both of whom have been pillars of support and stimulating conversations. To my sister, Rehanna, especially- I hope this inspires you to achieve all that you want to in life, academically and otherwise. ii Acknowledgements As we go through these academic journeys, there are so many along the way that make an impact not only on our work, but on our lives as well, and I would like to say a heartfelt thank you to all of those people: My Committee members- Dr. James Trempe, Dr. David Giovanucchi, Dr. Ronald Mellgren and Dr. Randall Ruch for their guidance, suggestions, support and confidence in me. My major advisor- Dr. David Allison, for his constructive criticism and positive reinforcement. -
Adracalin (AAAS) Rabbit Polyclonal Antibody – TA349454 | Origene
OriGene Technologies, Inc. 9620 Medical Center Drive, Ste 200 Rockville, MD 20850, US Phone: +1-888-267-4436 [email protected] EU: [email protected] CN: [email protected] Product datasheet for TA349454 Adracalin (AAAS) Rabbit Polyclonal Antibody Product data: Product Type: Primary Antibodies Applications: IHC, WB Recommended Dilution: ELISA: 1000-2000, WB: 200-1000, IHC: 50-200 Reactivity: Human, Mouse Host: Rabbit Isotype: IgG Clonality: Polyclonal Immunogen: Fusion protein of human AAAS Formulation: pH7.4 PBS, 0.05% NaN3, 40% Glyceroln Concentration: lot specific Purification: Antigen affinity purification Conjugation: Unconjugated Storage: Store at -20°C as received. Stability: Stable for 12 months from date of receipt. Predicted Protein Size: 60 kDa Gene Name: aladin WD repeat nucleoporin Database Link: NP_056480 Entrez Gene 223921 MouseEntrez Gene 8086 Human Q9NRG9 Background: The protein encoded by this gene is a member of the WD-repeat family of regulatory proteins and may be involved in normal development of the peripheral and central nervous system. The encoded protein is part of the nuclear pore complex and is anchored there by NDC1. Defects in this gene are a cause of achalasia-addisonianism-alacrima syndrome (AAAS), also called triple-A syndrome or Allgrove syndrome. Two transcript variants encoding different isoforms have been found for this gene. Synonyms: AAA; AAASb; ADRACALA; ADRACALIN; ALADIN; GL003 This product is to be used for laboratory only. Not for diagnostic or therapeutic use. View online » ©2021 -
NLS-Mediated NPC Functions of the Nucleoporin Pom121
FEBS Letters 584 (2010) 3292–3298 journal homepage: www.FEBSLetters.org NLS-mediated NPC functions of the nucleoporin Pom121 Sevil Yavuz, Rachel Santarella-Mellwig, Birgit Koch, Andreas Jaedicke, Iain W. Mattaj *,1, Wolfram Antonin **,1 European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany article info abstract Article history: RanGTP mediates nuclear import and mitotic spindle assembly by dissociating import receptors Received 23 February 2010 from nuclear localization signal (NLS) bearing proteins. We investigated the interplay between Revised 31 May 2010 import receptors and the transmembrane nucleoporin Pom121. We found that Pom121 interacts Accepted 2 July 2010 with importin a/b and a group of nucleoporins in an NLS-dependent manner. In vivo, replacement Available online 14 July 2010 of Pom121 with an NLS mutant version resulted in defective nuclear transport, induction of aber- Edited by Ulrike Kuttay rant cytoplasmic membrane stacks and decreased cell viability. We propose that the NLS sites of Pom121 affect its function in NPC assembly both by influencing nucleoporin interactions and pore membrane structure. Keywords: Pom121 Nucleoporin Structured summary: Importin MINT-7951230: pom121 (uniprotkb:Q5EWX9) physically interacts (MI:0914) with nup155 (uni- protkb:O75694), Nup133 (uniprotkb:Q8WUM0) and Importin beta (uniprotkb:Q14974) by pull down (MI:0096) MINT-7951210: pom121 (uniprotkb:Q5EWX9) physically interacts (MI:0915) with Importin alpha (uni- protkb:P52170) and Importin beta (uniprotkb:P52297) -
Genome-Wide Association for Testis Weight in the Diversity Outbred Mouse Population
Genome-wide association for testis weight in the diversity outbred mouse population Joshua T. Yuan, Daniel M. Gatti, Vivek M. Philip, Steven Kasparek, Andrew M. Kreuzman, Benjamin Mansky, Kayvon Sharif, et al. Mammalian Genome ISSN 0938-8990 Volume 29 Combined 5-6 Mamm Genome (2018) 29:310-324 DOI 10.1007/s00335-018-9745-8 1 23 Your article is protected by copyright and all rights are held exclusively by Springer Science+Business Media, LLC, part of Springer Nature. This e-offprint is for personal use only and shall not be self-archived in electronic repositories. If you wish to self- archive your article, please use the accepted manuscript version for posting on your own website. You may further deposit the accepted manuscript version in any repository, provided it is only made publicly available 12 months after official publication or later and provided acknowledgement is given to the original source of publication and a link is inserted to the published article on Springer's website. The link must be accompanied by the following text: "The final publication is available at link.springer.com”. 1 23 Author's personal copy Mammalian Genome (2018) 29:310–324 https://doi.org/10.1007/s00335-018-9745-8 Genome-wide association for testis weight in the diversity outbred mouse population Joshua T. Yuan1 · Daniel M. Gatti2 · Vivek M. Philip2 · Steven Kasparek3 · Andrew M. Kreuzman4 · Benjamin Mansky4 · Kayvon Sharif4 · Dominik Taterra4 · Walter M. Taylor4 · Mary Thomas4 · Jeremy O. Ward5 · Andrew Holmes6 · Elissa J. Chesler2 · Clarissa C. Parker3,4 Received: 30 November 2017 / Accepted: 16 April 2018 / Published online: 24 April 2018 © Springer Science+Business Media, LLC, part of Springer Nature 2018 Abstract Testis weight is a genetically mediated trait associated with reproductive efficiency across numerous species. -
Nuclear Pore Complexes Cluster in Dysmorphic Nuclei of Normal and Progeria Cells During Replicative Senescence
Nuclear Pore Complexes Cluster in Dysmorphic Nuclei of Normal and Progeria Cells during Replicative Senescence Jennifer M. Röhrl, Rouven Arnold and Karima Djabali * Epigenetics of Aging, Department of Dermatology and Allergy, TUM School of Medicine, Technical University of Munich (TUM), 85748 Garching, Germany; [email protected] (J.M.R.); [email protected] (R.A.) * Correspondence: [email protected] Supplementary Figures Figure S1: Seeding of NPCs, by ELYS on anaphase chromosomes was not affected in HGPS. Immunocytochemistry of (a) control (GMO1652c) and (b) HGPS (HGADFN003) fibroblasts using α‐ELYS and α‐LA antibody, counterstained with DAPI. NPCs cluster in interphase HGPS cells (b), unlike the evenly distributed punctate pattern in interphase control cells (a). Recruitment of ELYS to anaphase chromosomes is not affected in HGPS cells, compared to control. No defect in ELYS localization can be observed in HGPS from prophase to cytokinesis. NPC, nuclear pore complex; HGPS, Hutchinson‐Gilford progeria. n ≥3. Figure S2: Recruitment of basket nucleoporin NUP153 and scaffold nucleoporin NUP107 were not affected in HGPS. Immunocytochemistry of (a) control (GMO1652c) and (b) HGPS (HGADFN003) fibroblasts using α‐ NUP107 and α‐NUP153 antibodies, counterstained with DAPI. NPCs cluster in interphase HGPS cells (b), unlike the evenly spread out punctate pattern in control interphase (a). Recruitment of NUP153 to anaphase chromosomes is not affected in HGPS cells, compared to the control. No defect in NUP153 or NUP107 localization can be observed in HGPS from prophase to cytokinesis. n ≥3. Figure S3: SUN1 aggregates did not colocalize with mAb414. Immunocytochemistry of (a) control (GMO1652c) and (b) HGPS (HGADFN003) fibroblasts using mAb414 and α‐SUN1 antibodies, counterstained with DAPI. -
Snapshot: the Nuclear Envelope II Andrea Rothballer and Ulrike Kutay Institute of Biochemistry, ETH Zurich, 8093 Zurich, Switzerland
SnapShot: The Nuclear Envelope II Andrea Rothballer and Ulrike Kutay Institute of Biochemistry, ETH Zurich, 8093 Zurich, Switzerland H. sapiens D. melanogaster C. elegans S. pombe S. cerevisiae Cytoplasmic filaments RanBP2 (Nup358) Nup358 CG11856 NPP-9 – – – Nup214 (CAN) DNup214 CG3820 NPP-14 Nup146 SPAC23D3.06c Nup159 Cytoplasmic ring and Nup88 Nup88 (Mbo) CG6819 – Nup82 SPBC13A2.02 Nup82 associated factors GLE1 GLE1 CG14749 – Gle1 SPBC31E1.05 Gle1 hCG1 (NUP2L1, NLP-1) tbd CG18789 – Amo1 SPBC15D4.10c Nup42 (Rip1) Nup98 Nup98 CG10198 Npp-10N Nup189N SPAC1486.05 Nup145N, Nup100, Nup116 Nup 98 complex RAE1 (GLE2) Rae1 CG9862 NPP-17 Rae1 SPBC16A3.05 Gle2 (Nup40) Nup160 Nup160 CG4738 NPP-6 Nup120 SPBC3B9.16c Nup120 Nup133 Nup133 CG6958 NPP-15 Nup132, Nup131 SPAC1805.04, Nup133 SPBP35G2.06c Nup107 Nup107 CG6743 NPP-5 Nup107 SPBC428.01c Nup84 Nup96 Nup96 CG10198 NPP-10C Nup189C SPAC1486.05 Nup145C Outer NPC scaffold Nup85 (PCNT1) Nup75 CG5733 NPP-2 Nup-85 SPBC17G9.04c Nup85 (Nup107-160 complex) Seh1 Nup44A CG8722 NPP-18 Seh1 SPAC15F9.02 Seh1 Sec13 Sec13 CG6773 Npp-20 Sec13 SPBC215.15 Sec13 Nup37 tbd CG11875 – tbd SPAC4F10.18 – Nup43 Nup43 CG7671 C09G9.2 – – – Centrin-21 tbd CG174931, CG318021 R08D7.51 Cdc311 SPCC1682.04 Cdc311 Nup205 tbd CG11943 NPP-3 Nup186 SPCC290.03c Nup192 Nup188 tbd CG8771 – Nup184 SPAP27G11.10c Nup188 Central NPC scaffold Nup155 Nup154 CG4579 NPP-8 tbd SPAC890.06 Nup170, Nup157 (Nup53-93 complex) Nup93 tbd CG7262 NPP-13 Nup97, Npp106 SPCC1620.11, Nic96 SPCC1739.14 Nup53(Nup35, MP44) tbd CG6540 NPP-19 Nup40 SPAC19E9.01c -
Two Distinct Human POM121 Genes: Requirement for the Formation of Nuclear Pore Complexes
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector FEBS Letters 581 (2007) 4910–4916 Two distinct human POM121 genes: Requirement for the formation of nuclear pore complexes Tomoko Funakoshia, Kazuhiro Maeshimaa, Kazuhide Yahatab, Sumio Suganoc, Fumio Imamotob, Naoko Imamotoa,* a Cellular Dynamics Laboratory, Discovery Research Institute, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan b Department of Molecular Biology, BIKEN, Osaka University, Osaka, Japan c The Institute of Medical Science, The University of Tokyo, Tokyo, Japan Received 30 March 2007; revised 12 September 2007; accepted 12 September 2007 Available online 21 September 2007 Edited by Ulrike Kutay essential in somatic cells, as this protein is not ubiquitously ex- Abstract Pom121 is one of the integral membrane components of the nuclear pore complex (NPC) in vertebrate cells. Unlike ro- pressed in mammalian cells [6]. Pom121 is recruited at an early dent cells carrying a single POM121 gene, human cells possess stage of post-mitotic nuclear reassembly in vertebrate cells, multiple POM121 gene loci on chromosome 7q11.23, as a conse- and its turnover on the interphase NPC is very slow [7]. These quence of complex segmental-duplications in this region during findings make Pom121 a strong candidate that could possess human evolution. In HeLa cells, two ‘‘full-length’’ Pom121 are essential roles in anchoring the NPC to the NE. Indeed, transcribed and translated by two distinct genetic loci. RNAi Pom121 was shown to be essential for NPC formation, but experiments showed that efficient depletion of both Pom121 pro- not gp210 in the Xenopus egg extracts [8]. -
Compositionally Distinct Nuclear Pore Complexes of Functionally Distinct Dimorphic Nuclei in the Ciliate Tetrahymena
© 2017. Published by The Company of Biologists Ltd | Journal of Cell Science (2017) 130, 1822-1834 doi:10.1242/jcs.199398 RESEARCH ARTICLE Compositionally distinct nuclear pore complexes of functionally distinct dimorphic nuclei in the ciliate Tetrahymena Masaaki Iwamoto1, Hiroko Osakada1, Chie Mori1, Yasuhiro Fukuda2, Koji Nagao3, Chikashi Obuse3, Yasushi Hiraoka1,4,5 and Tokuko Haraguchi1,4,5,* ABSTRACT targeted transport of components to the MIC versus MAC, for which The nuclear pore complex (NPC), a gateway for nucleocytoplasmic differences in the NPCs may be important determinants. trafficking, is composed of ∼30 different proteins called nucleoporins. Previously, we analyzed 13 Tetrahymena nucleoporins (Nups), It remains unknown whether the NPCs within a species are and discovered that four paralogs of Nup98 were differentially homogeneous or vary depending on the cell type or physiological localized to the MAC and MIC (Iwamoto et al., 2009). The MAC- condition. Here, we present evidence for compositionally distinct and MIC-specific Nup98s are characterized by Gly-Leu-Phe-Gly NPCs that form within a single cell in a binucleated ciliate. In (GLFG) and Asn-Ile-Phe-Asn (NIFN) repeats, respectively, and this Tetrahymena thermophila, each cell contains both a transcriptionally difference is important for the nucleus-specific import of linker active macronucleus (MAC) and a germline micronucleus (MIC). By histones (Iwamoto et al., 2009). The full extent of the compositional combining in silico analysis, mass spectrometry analysis for immuno- differentiation of MAC and MIC NPCs could not, however, isolated proteins and subcellular localization analysis of GFP-fused be assessed, since only a small subset of the expected NPC proteins, we identified numerous novel components of MAC and MIC components were detected. -
Nuclear Pore Density Controls Heterochromatin Reorganization During 2 Senescence 3 4 Charlene Boumendil1, Priya Hari2, Karl C
bioRxiv preprint doi: https://doi.org/10.1101/374033; this version posted July 21, 2018. 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 Nuclear pore density controls heterochromatin reorganization during 2 senescence 3 4 Charlene Boumendil1, Priya Hari2, Karl C. F. Olsen1, Juan Carlos Acosta2, Wendy A. 5 Bickmore1* 6 7 1MRC Human Genetics Unit, Institute oF Genetics and Molecular Medicine, University 8 of Edinburgh, Crewe Road South, Edinburgh EH4 2XU 9 10 2Cancer Research UK Edinburgh Centre, Institute oF Genetics and Molecular Medicine, 11 University oF Edinburgh, Crewe Road South, Edinburgh EH4 2XR 12 13 *correspondence to WAB, MRC Human Genetics Unit, Institute oF Genetics and Molecular 14 Medicine, University oF Edinburgh, Crewe Road South, Edinburgh EH4 2XU. 15 [email protected] 16 17 18 19 Abstract 20 Oncogene induced senescence (OIS) is a cell cycle arrest program triggered by oncogenic signalling. 21 An important characteristic oF OIS is activation oF the senescence associated secretory phenotype 22 (SASP)1 which can reinForce cell cycle arrest, lead to paracrine senescence but also promote tumour 23 progression2–4. Concomitant with cell cycle arrest and the SASP activation, OIS cells undergo a striking 24 nuclear chromatin reorganization, with loss oF heterochromatin From the nuclear periphery and the 25 appearance oF internal senescence-associated heterochromatin Foci (SAHF)5. The mechanisms by 26 which SAHF are Formed, and their role in cell cycle arrest and expression oF the SASP, remain poorly 27 understood. -
Nucleocytoplasmic Transport: Regulatory Mechanisms and the Implications in Neurodegeneration
International Journal of Molecular Sciences Review Nucleocytoplasmic Transport: Regulatory Mechanisms and the Implications in Neurodegeneration Baojin Ding * and Masood Sepehrimanesh Department of Biology, University of Louisiana at Lafayette, 410 East Saint Mary Boulevard, Lafayette, LA 70503, USA; [email protected] * Correspondence: [email protected] Abstract: Nucleocytoplasmic transport (NCT) across the nuclear envelope is precisely regulated in eukaryotic cells, and it plays critical roles in maintenance of cellular homeostasis. Accumulating evidence has demonstrated that dysregulations of NCT are implicated in aging and age-related neurodegenerative diseases, including amyotrophic lateral sclerosis (ALS), frontotemporal dementia (FTD), Alzheimer’s disease (AD), and Huntington disease (HD). This is an emerging research field. The molecular mechanisms underlying impaired NCT and the pathogenesis leading to neurodegener- ation are not clear. In this review, we comprehensively described the components of NCT machinery, including nuclear envelope (NE), nuclear pore complex (NPC), importins and exportins, RanGTPase and its regulators, and the regulatory mechanisms of nuclear transport of both protein and transcript cargos. Additionally, we discussed the possible molecular mechanisms of impaired NCT underlying aging and neurodegenerative diseases, such as ALS/FTD, HD, and AD. Keywords: Alzheimer’s disease; amyotrophic lateral sclerosis; Huntington disease; neurodegenera- tive diseases; nuclear pore complex; nucleocytoplasmic transport; Ran GTPase Citation: Ding, B.; Sepehrimanesh, M. Nucleocytoplasmic Transport: Regulatory Mechanisms and the Implications in Neurodegeneration. 1. Introduction Int. J. Mol. Sci. 2021, 22, 4165. As a hallmark of eukaryotic cells, the genetic materials are separated from the cyto- https://doi.org/10.3390/ijms plasmic contents by a highly regulated membrane, called nuclear envelope (NE), which 22084165 has two concentric bilayer membranes, the inner nuclear membrane (INM), and outer nuclear membrane (ONM). -
Mutations in NUP160 Are Implicated in Steroid-Resistant Nephrotic Syndrome
BASIC RESEARCH www.jasn.org Mutations in NUP160 Are Implicated in Steroid-Resistant Nephrotic Syndrome Feng Zhao,1,2,3,4 Jun-yi Zhu ,2 Adam Richman,2 Yulong Fu,2 Wen Huang,2 Nan Chen,5 Xiaoxia Pan,5 Cuili Yi,1 Xiaohua Ding,1 Si Wang,1 Ping Wang,1 Xiaojing Nie,1,3,4 Jun Huang,1,3,4 Yonghui Yang,1,3,4 Zihua Yu ,1,3,4 and Zhe Han2,6 1Department of Pediatrics, Fuzhou Dongfang Hospital, Fujian, People’s Republic of China; 2Center for Genetic Medicine Research, Children’s National Health System, Washington, DC; 3Department of Pediatrics, Affiliated Dongfang Hospital, Xiamen University, Fujian, People’s Republic of China; 4Department of Pediatrics, Fuzhou Clinical Medical College, Fujian Medical University, Fujian, People’s Republic of China; 5Department of Nephrology, Ruijin Hospital, Shanghai Jiaotong University School of Medicine, Shanghai, People’s Republic of China; and 6Department of Genomics and Precision Medicine, The George Washington University School of Medicine and Health Sciences, Washington, DC ABSTRACT Background Studies have identified mutations in .50 genes that can lead to monogenic steroid-resistant nephrotic syndrome (SRNS). The NUP160 gene, which encodes one of the protein components of the nuclear pore complex nucleoporin 160 kD (Nup160), is expressed in both human and mouse kidney cells. Knockdown of NUP160 impairs mouse podocytes in cell culture. Recently, siblings with SRNS and pro- teinuria in a nonconsanguineous family were found to carry compound-heterozygous mutations in NUP160. Methods We identified NUP160 mutations by whole-exome and Sanger sequencing of genomic DNA from a young girl with familial SRNS and FSGS who did not carry mutations in other genes known to be associated with SRNS.