Regulates Cellular Telomerase Activity by Methylation of TERT Promoter
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A New Class of Disordered Elements Controls DNA Replication Through
RESEARCH ARTICLE A new class of disordered elements controls DNA replication through initiator self-assembly Matthew W Parker1,2, Maren Bell2, Mustafa Mir2, Jonchee A Kao2, Xavier Darzacq2, Michael R Botchan2*, James M Berger1* 1Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Baltimore, United States; 2Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, United States Abstract The initiation of DNA replication in metazoans occurs at thousands of chromosomal sites known as origins. At each origin, the Origin Recognition Complex (ORC), Cdc6, and Cdt1 co- assemble to load the Mcm2-7 replicative helicase onto chromatin. Current replication models envisage a linear arrangement of isolated origins functioning autonomously; the extent of inter- origin organization and communication is unknown. Here, we report that the replication initiation machinery of D. melanogaster unexpectedly undergoes liquid-liquid phase separation (LLPS) upon binding DNA in vitro. We find that ORC, Cdc6, and Cdt1 contain intrinsically disordered regions (IDRs) that drive LLPS and constitute a new class of phase separating elements. Initiator IDRs are shown to regulate multiple functions, including chromosome recruitment, initiator-specific co- assembly, and Mcm2-7 loading. These data help explain how CDK activity controls replication initiation and suggest that replication programs are subject to higher-order levels of inter-origin organization. DOI: https://doi.org/10.7554/eLife.48562.001 *For -
NBN Gene Analysis and It's Impact on Breast Cancer
Journal of Medical Systems (2019) 43: 270 https://doi.org/10.1007/s10916-019-1328-z IMAGE & SIGNAL PROCESSING NBN Gene Analysis and it’s Impact on Breast Cancer P. Nithya1 & A. ChandraSekar1 Received: 8 March 2019 /Accepted: 7 May 2019 /Published online: 5 July 2019 # Springer Science+Business Media, LLC, part of Springer Nature 2019 Abstract Single Nucleotide Polymorphism (SNP) researches have become essential in finding out the congenital relationship of structural deviations with quantitative traits, heritable diseases and physical responsiveness to different medicines. NBN is a protein coding gene (Breast Cancer); Nibrin is used to fix and rebuild the body from damages caused because of strand breaks (both singular and double) associated with protein nibrin. NBN gene was retrieved from dbSNP/NCBI database and investigated using computational SNP analysis tools. The encrypted region in SNPs (exonal SNPs) were analyzed using software tools, SIFT, Provean, Polyphen, INPS, SNAP and Phd-SNP. The 3’ends of SNPs in un-translated region were also investigated to determine the impact of binding. The association of NBN gene polymorphism leads to several diseases was studied. Four SNPs were predicted to be highly damaged in coding regions which are responsible for the diseases such as, Aplastic Anemia, Nijmegan breakage syndrome, Microsephaly normal intelligence, immune deficiency and hereditary cancer predisposing syndrome (clivar). The present study will be helpful in finding the suitable drugs in future for various diseases especially for breast cancer. Keywords NBN . Single nucleotide polymorphism . Double strand breaks . nsSNP . Associated diseases Introduction NBN has a more complex structure due to its interaction with large proteins formed from the ATM gene which is NBN (Nibrin) is a protein coding gene, it is also known as highly essential in identifying damaged strands of DNA NBS1, Cell cycle regulatory Protein P95, is situated on and facilitating their repair [1]. -
Genetic and Genomic Analysis of Hyperlipidemia, Obesity and Diabetes Using (C57BL/6J × TALLYHO/Jngj) F2 Mice
University of Tennessee, Knoxville TRACE: Tennessee Research and Creative Exchange Nutrition Publications and Other Works Nutrition 12-19-2010 Genetic and genomic analysis of hyperlipidemia, obesity and diabetes using (C57BL/6J × TALLYHO/JngJ) F2 mice Taryn P. Stewart Marshall University Hyoung Y. Kim University of Tennessee - Knoxville, [email protected] Arnold M. Saxton University of Tennessee - Knoxville, [email protected] Jung H. Kim Marshall University Follow this and additional works at: https://trace.tennessee.edu/utk_nutrpubs Part of the Animal Sciences Commons, and the Nutrition Commons Recommended Citation BMC Genomics 2010, 11:713 doi:10.1186/1471-2164-11-713 This Article is brought to you for free and open access by the Nutrition at TRACE: Tennessee Research and Creative Exchange. It has been accepted for inclusion in Nutrition Publications and Other Works by an authorized administrator of TRACE: Tennessee Research and Creative Exchange. For more information, please contact [email protected]. Stewart et al. BMC Genomics 2010, 11:713 http://www.biomedcentral.com/1471-2164/11/713 RESEARCH ARTICLE Open Access Genetic and genomic analysis of hyperlipidemia, obesity and diabetes using (C57BL/6J × TALLYHO/JngJ) F2 mice Taryn P Stewart1, Hyoung Yon Kim2, Arnold M Saxton3, Jung Han Kim1* Abstract Background: Type 2 diabetes (T2D) is the most common form of diabetes in humans and is closely associated with dyslipidemia and obesity that magnifies the mortality and morbidity related to T2D. The genetic contribution to human T2D and related metabolic disorders is evident, and mostly follows polygenic inheritance. The TALLYHO/ JngJ (TH) mice are a polygenic model for T2D characterized by obesity, hyperinsulinemia, impaired glucose uptake and tolerance, hyperlipidemia, and hyperglycemia. -
A Balanced Transcription Between Telomerase and the Telomeric DNA
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by HAL-ENS-LYON A balanced transcription between telomerase and the telomeric DNA-binding proteins TRF1, TRF2 and Pot1 in resting, activated, HTLV-1-transformed and Tax-expressing human T lymphocytes. Emmanuelle Escoffier, Am´elieRezza, Aude Roborel de Climens, Aur´elie Belleville, Louis Gazzolo, Eric Gilson, Madeleine Duc Dodon To cite this version: Emmanuelle Escoffier, Am´elieRezza, Aude Roborel de Climens, Aur´elieBelleville, Louis Gaz- zolo, et al.. A balanced transcription between telomerase and the telomeric DNA-binding proteins TRF1, TRF2 and Pot1 in resting, activated, HTLV-1-transformed and Tax-expressing human T lymphocytes.. Retrovirology, BioMed Central, 2005, 2, pp.77. <10.1186/1742-4690- 2-77>. <inserm-00089278> HAL Id: inserm-00089278 http://www.hal.inserm.fr/inserm-00089278 Submitted on 16 Aug 2006 HAL is a multi-disciplinary open access L'archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destin´eeau d´ep^otet `ala diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publi´esou non, lished or not. The documents may come from ´emanant des ´etablissements d'enseignement et de teaching and research institutions in France or recherche fran¸caisou ´etrangers,des laboratoires abroad, or from public or private research centers. publics ou priv´es. Retrovirology BioMed Central Research Open Access A balanced transcription between telomerase and the -
Anti-TERF2 / Trf2 Antibody (ARG59099)
Product datasheet [email protected] ARG59099 Package: 50 μg anti-TERF2 / Trf2 antibody Store at: -20°C Summary Product Description Rabbit Polyclonal antibody recognizes TERF2 / Trf2 Tested Reactivity Hu, Rat Tested Application IHC-P, WB Host Rabbit Clonality Polyclonal Isotype IgG Target Name TERF2 / Trf2 Antigen Species Human Immunogen Recombinant protein corresponding to A81-K287 of Human TERF2 / Trf2. Conjugation Un-conjugated Alternate Names Telomeric DNA-binding protein; TRF2; TTAGGG repeat-binding factor 2; TRBF2; Telomeric repeat- binding factor 2 Application Instructions Application table Application Dilution IHC-P 0.5 - 1 µg/ml WB 0.1 - 0.5 µg/ml Application Note IHC-P: Antigen Retrieval: By heat mediation. * The dilutions indicate recommended starting dilutions and the optimal dilutions or concentrations should be determined by the scientist. Calculated Mw 60 kDa Properties Form Liquid Purification Affinity purification with immunogen. Buffer 0.9% NaCl, 0.2% Na2HPO4, 0.05% Sodium azide and 5% BSA. Preservative 0.05% Sodium azide Stabilizer 5% BSA Concentration 0.5 mg/ml Storage instruction For continuous use, store undiluted antibody at 2-8°C for up to a week. For long-term storage, aliquot and store at -20°C or below. Storage in frost free freezers is not recommended. Avoid repeated freeze/thaw cycles. Suggest spin the vial prior to opening. The antibody solution should be gently mixed before use. www.arigobio.com 1/3 Note For laboratory research only, not for drug, diagnostic or other use. Bioinformation Gene Symbol TERF2 Gene Full Name telomeric repeat binding factor 2 Background This gene encodes a telomere specific protein, TERF2, which is a component of the telomere nucleoprotein complex. -
TRF2-Mediated ORC Recruitment Underlies Telomere Stability Upon DNA Replication Stress
bioRxiv preprint doi: https://doi.org/10.1101/2021.02.08.430303; this version posted February 8, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. 1 TRF2-mediated ORC recruitment underlies telomere stability upon DNA replication stress 2 3 Mitsunori Higa,1 Yukihiro Matsuda,1 Jumpei Yamada,1 Nozomi Sugimoto,1 Kazumasa Yoshida,1,* and 4 Masatoshi Fujita1,* 5 6 1Department of Cellular Biochemistry, Graduate SChool of PharmaCeutiCal SCiences, Kyushu 7 University, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582, Japan 8 9 *Correspondence to: Kazumasa Yoshida, Department of Cellular Biochemistry, Graduate SChool of 10 PharmaCeutiCal SCiences, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582, Japan; 11 Tel: +81-92-642-6635; Fax: +81-92-642-6635; E-mail: [email protected] 12 13 *Correspondence to: Masatoshi Fujita, Department of Cellular Biochemistry, Graduate SChool of 14 PharmaCeutiCal SCiences, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582, Japan; 15 Tel: +81-92-642-6635; Fax: +81-92-642-6635; E-mail: [email protected] 16 17 Keywords: MCM /ORC / RepliCation stress / Telomere / TRF2 18 Running title: TRF2-ORC ensures telomere stability 19 1 bioRxiv preprint doi: https://doi.org/10.1101/2021.02.08.430303; this version posted February 8, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. -
Abnormal Function of Telomere Protein TRF2 Induces Cell Mutation and the Effects of Environmental Tumor‑Promoting Factors (Review)
ONCOLOGY REPORTS 46: 184, 2021 Abnormal function of telomere protein TRF2 induces cell mutation and the effects of environmental tumor‑promoting factors (Review) ZHENGYI WANG1‑3 and XIAOYING WU4 1Good Clinical Practice Center, Sichuan Academy of Medical Sciences and Sichuan Provincial People's Hospital, Chengdu, Sichuan 610071; 2Institute of Laboratory Animals of Sichuan Academy of Medical Sciences and Sichuan Provincial People's Hospital; 3Yinglongwan Laboratory Animal Research Institute, Zhonghe Community, High‑Tech Zone, Chengdu, Sichuan 610212; 4Ministry of Education and Training, Chengdu Second People's Hospital, Chengdu, Sichuan 610000, P.R. China Received March 24, 2021; Accepted June 14, 2021 DOI: 10.3892/or.2021.8135 Abstract. Recent studies have found that somatic gene muta‑ microenvironment, and maintains the stemness characteris‑ tions and environmental tumor‑promoting factors are both tics of tumor cells. TRF2 levels are abnormally elevated by a indispensable for tumor formation. Telomeric repeat‑binding variety of tumor control proteins, which are more conducive factor (TRF)2 is the core component of the telomere shelterin to the protection of telomeres and the survival of tumor cells. complex, which plays an important role in chromosome In brief, the various regulatory mechanisms which tumor cells stability and the maintenance of normal cell physiological rely on to survive are organically integrated around TRF2, states. In recent years, TRF2 and its role in tumor forma‑ forming a regulatory network, which is conducive to the tion have gradually become a research hot topic, which has optimization of the survival direction of heterogeneous tumor promoted in‑depth discussions into tumorigenesis and treat‑ cells, and promotes their survival and adaptability. -
Supplementary Table S1. Correlation Between the Mutant P53-Interacting Partners and PTTG3P, PTTG1 and PTTG2, Based on Data from Starbase V3.0 Database
Supplementary Table S1. Correlation between the mutant p53-interacting partners and PTTG3P, PTTG1 and PTTG2, based on data from StarBase v3.0 database. PTTG3P PTTG1 PTTG2 Gene ID Coefficient-R p-value Coefficient-R p-value Coefficient-R p-value NF-YA ENSG00000001167 −0.077 8.59e-2 −0.210 2.09e-6 −0.122 6.23e-3 NF-YB ENSG00000120837 0.176 7.12e-5 0.227 2.82e-7 0.094 3.59e-2 NF-YC ENSG00000066136 0.124 5.45e-3 0.124 5.40e-3 0.051 2.51e-1 Sp1 ENSG00000185591 −0.014 7.50e-1 −0.201 5.82e-6 −0.072 1.07e-1 Ets-1 ENSG00000134954 −0.096 3.14e-2 −0.257 4.83e-9 0.034 4.46e-1 VDR ENSG00000111424 −0.091 4.10e-2 −0.216 1.03e-6 0.014 7.48e-1 SREBP-2 ENSG00000198911 −0.064 1.53e-1 −0.147 9.27e-4 −0.073 1.01e-1 TopBP1 ENSG00000163781 0.067 1.36e-1 0.051 2.57e-1 −0.020 6.57e-1 Pin1 ENSG00000127445 0.250 1.40e-8 0.571 9.56e-45 0.187 2.52e-5 MRE11 ENSG00000020922 0.063 1.56e-1 −0.007 8.81e-1 −0.024 5.93e-1 PML ENSG00000140464 0.072 1.05e-1 0.217 9.36e-7 0.166 1.85e-4 p63 ENSG00000073282 −0.120 7.04e-3 −0.283 1.08e-10 −0.198 7.71e-6 p73 ENSG00000078900 0.104 2.03e-2 0.258 4.67e-9 0.097 3.02e-2 Supplementary Table S2. -
Supplementary Materials
Supplementary materials Supplementary Table S1: MGNC compound library Ingredien Molecule Caco- Mol ID MW AlogP OB (%) BBB DL FASA- HL t Name Name 2 shengdi MOL012254 campesterol 400.8 7.63 37.58 1.34 0.98 0.7 0.21 20.2 shengdi MOL000519 coniferin 314.4 3.16 31.11 0.42 -0.2 0.3 0.27 74.6 beta- shengdi MOL000359 414.8 8.08 36.91 1.32 0.99 0.8 0.23 20.2 sitosterol pachymic shengdi MOL000289 528.9 6.54 33.63 0.1 -0.6 0.8 0 9.27 acid Poricoic acid shengdi MOL000291 484.7 5.64 30.52 -0.08 -0.9 0.8 0 8.67 B Chrysanthem shengdi MOL004492 585 8.24 38.72 0.51 -1 0.6 0.3 17.5 axanthin 20- shengdi MOL011455 Hexadecano 418.6 1.91 32.7 -0.24 -0.4 0.7 0.29 104 ylingenol huanglian MOL001454 berberine 336.4 3.45 36.86 1.24 0.57 0.8 0.19 6.57 huanglian MOL013352 Obacunone 454.6 2.68 43.29 0.01 -0.4 0.8 0.31 -13 huanglian MOL002894 berberrubine 322.4 3.2 35.74 1.07 0.17 0.7 0.24 6.46 huanglian MOL002897 epiberberine 336.4 3.45 43.09 1.17 0.4 0.8 0.19 6.1 huanglian MOL002903 (R)-Canadine 339.4 3.4 55.37 1.04 0.57 0.8 0.2 6.41 huanglian MOL002904 Berlambine 351.4 2.49 36.68 0.97 0.17 0.8 0.28 7.33 Corchorosid huanglian MOL002907 404.6 1.34 105 -0.91 -1.3 0.8 0.29 6.68 e A_qt Magnogrand huanglian MOL000622 266.4 1.18 63.71 0.02 -0.2 0.2 0.3 3.17 iolide huanglian MOL000762 Palmidin A 510.5 4.52 35.36 -0.38 -1.5 0.7 0.39 33.2 huanglian MOL000785 palmatine 352.4 3.65 64.6 1.33 0.37 0.7 0.13 2.25 huanglian MOL000098 quercetin 302.3 1.5 46.43 0.05 -0.8 0.3 0.38 14.4 huanglian MOL001458 coptisine 320.3 3.25 30.67 1.21 0.32 0.9 0.26 9.33 huanglian MOL002668 Worenine -
Overexpression of TP53, TP53I3 and BIRC5, Alterations of Gene Regulation of Apoptosis and Aging of Human Immune Cells in a Remote Period After Radiation Exposure
КЛІНІЧНІ ДОСЛІДЖЕННЯ ISSN 23048336. Проблеми радіаційної медицини та радіобіології = Problems of radiation medicine and radiobiology. 2016. Вип. 21. UDC I. N. Ilienko✉, D. A. Bazyka State Institution «National Research Center for Radiation Medicine of the National Academy of Medical Sciences of Ukraine», Melnykov str., 53, Kyiv, 04050, Ukraine Overexpression of TP53, TP53I3 and BIRC5, alterations of gene regulation of apoptosis and aging of human immune cells in a remote period after radiation exposure Objective. To identify a contributive role of changes in gene regulation of apoptosis and telomere length at tran& scriptional and translational levels to the formation of radiation&induced effects in immune system. Patients and Methods. Study groups included 310 Chornobyl (Chornobyl) cleanup workers (dose of external expo& sure (360.82 ± 32.3) mSv; age 58.9 ± 0.6 (M ± SD) years) and control (n = 77; age (52.9 ± 0.64) (M ± SD) years). Expression of CD95, phosphatidylserine receptors, bcl2 and p53 proteins was studied by flow cytometry; the relative expression (RQ) of BAX, BIRC5, FASLG, MADD, MAPK14, TP53, TP53I3, TERT, TERF1, TERF2 genes was performed using 7900 HT Fast RT&PCR System and TagMan technology. Relative telomere length (RTL) was quantified by flow&FISH assay. Results. Dose&dependent deregulation of apoptosis was shown at transcriptional level (TP53, TP53 I3, BAX, BIRC5, FASL genes) and translational level (bcl&2 and p53 proteins) with blocking entry to apoptosis, dose&dependent activation of anti&apoptotic proteins and TP53&mediated expression of genes&inhibitors of apoptosis. After exposure below 100 mSv a decrease in TERT gene RQ was associated with shortened telomeres, after exposure to doses over 500 mSv the TERT RQ and RTL increase were associated with imbalance in TERF1 and TERF2 genes expression. -
SUPPLEMENTARY APPENDIX a Homozygous Missense Variant in UBE2T Is Associated with a Mild Fanconi Anemia Phenotype
SUPPLEMENTARY APPENDIX A homozygous missense variant in UBE2T is associated with a mild Fanconi anemia phenotype Laura Schultz-Rogers, 1* Francis P. Lach, 2* Kimberly A. Rickman, 2 Alejandro Ferrer, 1 Abhishek A. Mangaonkar, 3 Tanya L. Schwab, 4 Christo - pher T. Schmitz, 4 Karl J. Clark, 4 Nikita R. Dsouza, 5 Michael T. Zimmermann, 5,6 Mark Litzow, 3 Nicole Jacobi, 7 Eric W. Klee, 1,8 Agata Smogorzewska 2# and Mrinal M. Patnaik 3# 1Center for Individualized Medicine, Mayo Clinic, Rochester, MN; 2Laboratory of Genome Maintenance, The Rockefeller University, New York, NY; 3De - partment of Hematology, Mayo Clinic, Rochester, MN; 4Department of Biochemistry and Molecular Biology, Mayo Clinic, Rochester, MN; 5Bioinformatics Re - search and Development Laboratory, Genomics Sciences and Precision Medicine Center, Medical College of Wisconsin, Milwaukee, WI; 6Clinical and Translational Sciences Institute, Medical College of Wisconsin, Milwaukee, WI; 7Department of Hematology Oncology, Hennepin County Medical Center, Min - neapolis, MN and 8Department of Clinical Genomics, Mayo Clinic, Rochester, MN, USA *LS-R and FPL contributed equally as co-first authors. #EWK, AS and MMP contributed equally as co-senior authors. Correspondence: MRINAL PATNAIK - [email protected] AGATA SMOGORZEWSKA - [email protected] doi:10.3324/haematol.2020.259275 Supplemental Information Homozygous missense variant in UBE2T is associated with mild Fanconi anemia phenotype Laura Schultz-Rogers1*, Francis P. Lach2*, Kimberly A. Rickman2, Alejandro Ferrer1, -
Arsenic Hexoxide Has Differential Effects on Cell Proliferation And
www.nature.com/scientificreports OPEN Arsenic hexoxide has diferential efects on cell proliferation and genome‑wide gene expression in human primary mammary epithelial and MCF7 cells Donguk Kim1,7, Na Yeon Park2,7, Keunsoo Kang3, Stuart K. Calderwood4, Dong‑Hyung Cho2, Ill Ju Bae5* & Heeyoun Bunch1,6* Arsenic is reportedly a biphasic inorganic compound for its toxicity and anticancer efects in humans. Recent studies have shown that certain arsenic compounds including arsenic hexoxide (AS4O6; hereafter, AS6) induce programmed cell death and cell cycle arrest in human cancer cells and murine cancer models. However, the mechanisms by which AS6 suppresses cancer cells are incompletely understood. In this study, we report the mechanisms of AS6 through transcriptome analyses. In particular, the cytotoxicity and global gene expression regulation by AS6 were compared in human normal and cancer breast epithelial cells. Using RNA‑sequencing and bioinformatics analyses, diferentially expressed genes in signifcantly afected biological pathways in these cell types were validated by real‑time quantitative polymerase chain reaction and immunoblotting assays. Our data show markedly diferential efects of AS6 on cytotoxicity and gene expression in human mammary epithelial normal cells (HUMEC) and Michigan Cancer Foundation 7 (MCF7), a human mammary epithelial cancer cell line. AS6 selectively arrests cell growth and induces cell death in MCF7 cells without afecting the growth of HUMEC in a dose‑dependent manner. AS6 alters the transcription of a large number of genes in MCF7 cells, but much fewer genes in HUMEC. Importantly, we found that the cell proliferation, cell cycle, and DNA repair pathways are signifcantly suppressed whereas cellular stress response and apoptotic pathways increase in AS6‑treated MCF7 cells.