The Spindle Checkpoint Requires Cyclin-Dependent Kinase Activity
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Mouse Cdc27 Knockout Project (CRISPR/Cas9)
https://www.alphaknockout.com Mouse Cdc27 Knockout Project (CRISPR/Cas9) Objective: To create a Cdc27 knockout Mouse model (C57BL/6J) by CRISPR/Cas-mediated genome engineering. Strategy summary: The Cdc27 gene (NCBI Reference Sequence: NM_145436 ; Ensembl: ENSMUSG00000020687 ) is located on Mouse chromosome 11. 19 exons are identified, with the ATG start codon in exon 1 and the TAA stop codon in exon 19 (Transcript: ENSMUST00000093923). Exon 2~7 will be selected as target site. Cas9 and gRNA will be co-injected into fertilized eggs for KO Mouse production. The pups will be genotyped by PCR followed by sequencing analysis. Note: Exon 2 starts from about 1.13% of the coding region. Exon 2~7 covers 32.93% of the coding region. The size of effective KO region: ~8408 bp. The KO region does not have any other known gene. Page 1 of 8 https://www.alphaknockout.com Overview of the Targeting Strategy Wildtype allele 5' gRNA region gRNA region 3' 1 2 3 4 5 6 7 19 Legends Exon of mouse Cdc27 Knockout region Page 2 of 8 https://www.alphaknockout.com Overview of the Dot Plot (up) Window size: 15 bp Forward Reverse Complement Sequence 12 Note: The 2000 bp section upstream of Exon 2 is aligned with itself to determine if there are tandem repeats. Tandem repeats are found in the dot plot matrix. The gRNA site is selected outside of these tandem repeats. Overview of the Dot Plot (down) Window size: 15 bp Forward Reverse Complement Sequence 12 Note: The 1285 bp section downstream of Exon 7 is aligned with itself to determine if there are tandem repeats. -
The Involvement of Ubiquitination Machinery in Cell Cycle Regulation and Cancer Progression
International Journal of Molecular Sciences Review The Involvement of Ubiquitination Machinery in Cell Cycle Regulation and Cancer Progression Tingting Zou and Zhenghong Lin * School of Life Sciences, Chongqing University, Chongqing 401331, China; [email protected] * Correspondence: [email protected] Abstract: The cell cycle is a collection of events by which cellular components such as genetic materials and cytoplasmic components are accurately divided into two daughter cells. The cell cycle transition is primarily driven by the activation of cyclin-dependent kinases (CDKs), which activities are regulated by the ubiquitin-mediated proteolysis of key regulators such as cyclins, CDK inhibitors (CKIs), other kinases and phosphatases. Thus, the ubiquitin-proteasome system (UPS) plays a pivotal role in the regulation of the cell cycle progression via recognition, interaction, and ubiquitination or deubiquitination of key proteins. The illegitimate degradation of tumor suppressor or abnormally high accumulation of oncoproteins often results in deregulation of cell proliferation, genomic instability, and cancer occurrence. In this review, we demonstrate the diversity and complexity of the regulation of UPS machinery of the cell cycle. A profound understanding of the ubiquitination machinery will provide new insights into the regulation of the cell cycle transition, cancer treatment, and the development of anti-cancer drugs. Keywords: cell cycle regulation; CDKs; cyclins; CKIs; UPS; E3 ubiquitin ligases; Deubiquitinases (DUBs) Citation: Zou, T.; Lin, Z. The Involvement of Ubiquitination Machinery in Cell Cycle Regulation and Cancer Progression. 1. Introduction Int. J. Mol. Sci. 2021, 22, 5754. https://doi.org/10.3390/ijms22115754 The cell cycle is a ubiquitous, complex, and highly regulated process that is involved in the sequential events during which a cell duplicates its genetic materials, grows, and di- Academic Editors: Kwang-Hyun Bae vides into two daughter cells. -
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. -
The APC/C in Female Mammalian Meiosis I
REPRODUCTIONREVIEW The APC/C in female mammalian meiosis I Hayden Homer1,2 1Mammalian Oocyte and Embryo Research Laboratory, Cell and Developmental Biology, UCL, London WC1E 6BT, UK and 2Reproductive Medicine Unit, Institute for Women’s Health, UCLH Elizabeth Garrett Anderson Wing, London NW1 2BU, UK Correspondence should be addressed to H Homer; Email: [email protected] Abstract The anaphase-promoting complex or cyclosome (APC/C) orchestrates a meticulously controlled sequence of proteolytic events critical for proper cell cycle progression, the details of which have been most extensively elucidated during mitosis. It has become apparent, however, that the APC/C, particularly when acting in concert with its Cdh1 co-activator (APC/CCdh1), executes a staggeringly diverse repertoire of functions that extend its remit well outside the bounds of mitosis. Findings over the past decade have not only earmarked mammalian oocyte maturation as one such case in point but have also begun to reveal a complex pattern of APC/C regulation that underpins many of the oocyte’s unique developmental attributes. This review will encompass the latest findings pertinent to the APC/C, especially APC/CCdh1, in mammalian oocytes and how its activity and substrates shape the stop–start tempo of female mammalian first meiotic division and the challenging requirement for assembling spindles in the absence of centrosomes. Reproduction (2013) 146 R61–R71 Introduction associated somatic follicular compartment at the time of ovulation. Significantly, although primordial germ cells Meiosis is the unique cell division that halves the in the ovary commit to meiosis during fetal life, it is chromosome compliment by coupling two successive not until postnatal adulthood that mature oocytes (or nuclear divisions with a single round of DNA replication. -
WO 2019/079361 Al 25 April 2019 (25.04.2019) W 1P O PCT
(12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization I International Bureau (10) International Publication Number (43) International Publication Date WO 2019/079361 Al 25 April 2019 (25.04.2019) W 1P O PCT (51) International Patent Classification: CA, CH, CL, CN, CO, CR, CU, CZ, DE, DJ, DK, DM, DO, C12Q 1/68 (2018.01) A61P 31/18 (2006.01) DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, HN, C12Q 1/70 (2006.01) HR, HU, ID, IL, IN, IR, IS, JO, JP, KE, KG, KH, KN, KP, KR, KW, KZ, LA, LC, LK, LR, LS, LU, LY, MA, MD, ME, (21) International Application Number: MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, PCT/US2018/056167 OM, PA, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SA, (22) International Filing Date: SC, SD, SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, TN, 16 October 2018 (16. 10.2018) TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW. (25) Filing Language: English (84) Designated States (unless otherwise indicated, for every kind of regional protection available): ARIPO (BW, GH, (26) Publication Language: English GM, KE, LR, LS, MW, MZ, NA, RW, SD, SL, ST, SZ, TZ, (30) Priority Data: UG, ZM, ZW), Eurasian (AM, AZ, BY, KG, KZ, RU, TJ, 62/573,025 16 October 2017 (16. 10.2017) US TM), European (AL, AT, BE, BG, CH, CY, CZ, DE, DK, EE, ES, FI, FR, GB, GR, HR, HU, ΓΕ , IS, IT, LT, LU, LV, (71) Applicant: MASSACHUSETTS INSTITUTE OF MC, MK, MT, NL, NO, PL, PT, RO, RS, SE, SI, SK, SM, TECHNOLOGY [US/US]; 77 Massachusetts Avenue, TR), OAPI (BF, BJ, CF, CG, CI, CM, GA, GN, GQ, GW, Cambridge, Massachusetts 02139 (US). -
1 Spindle Assembly Checkpoint Is Sufficient for Complete Cdc20
Spindle assembly checkpoint is sufficient for complete Cdc20 sequestering in mitotic control Bashar Ibrahim Bio System Analysis Group, Friedrich-Schiller-University Jena, and Jena Centre for Bioinformatics (JCB), 07743 Jena, Germany Email: [email protected] Abstract The spindle checkpoint assembly (SAC) ensures genome fidelity by temporarily delaying anaphase onset, until all chromosomes are properly attached to the mitotic spindle. The SAC delays mitotic progression by preventing activation of the ubiquitin ligase anaphase-promoting complex (APC/C) or cyclosome; whose activation by Cdc20 is required for sister-chromatid separation marking the transition into anaphase. The mitotic checkpoint complex (MCC), which contains Cdc20 as a subunit, binds stably to the APC/C. Compelling evidence by Izawa and Pines (Nature 2014; 10.1038/nature13911) indicates that the MCC can inhibit a second Cdc20 that has already bound and activated the APC/C. Whether or not MCC per se is sufficient to fully sequester Cdc20 and inhibit APC/C remains unclear. Here, a dynamic model for SAC regulation in which the MCC binds a second Cdc20 was constructed. This model is compared to the MCC, and the MCC-and-BubR1 (dual inhibition of APC) core model variants and subsequently validated with experimental data from the literature. By using ordinary nonlinear differential equations and spatial simulations, it is shown that the SAC works sufficiently to fully sequester Cdc20 and completely inhibit APC/C activity. This study highlights the principle that a systems biology approach is vital for molecular biology and could also be used for creating hypotheses to design future experiments. Keywords: Mathematical biology, Spindle assembly checkpoint; anaphase promoting complex, MCC, Cdc20, systems biology 1 Introduction Faithful DNA segregation, prior to cell division at mitosis, is vital for maintaining genomic integrity. -
Bub1 Positions Mad1 Close to KNL1 MELT Repeats to Promote Checkpoint Signalling
ARTICLE Received 14 Dec 2016 | Accepted 3 May 2017 | Published 12 June 2017 DOI: 10.1038/ncomms15822 OPEN Bub1 positions Mad1 close to KNL1 MELT repeats to promote checkpoint signalling Gang Zhang1, Thomas Kruse1, Blanca Lo´pez-Me´ndez1, Kathrine Beck Sylvestersen1, Dimitriya H. Garvanska1, Simone Schopper1, Michael Lund Nielsen1 & Jakob Nilsson1 Proper segregation of chromosomes depends on a functional spindle assembly checkpoint (SAC) and requires kinetochore localization of the Bub1 and Mad1/Mad2 checkpoint proteins. Several aspects of Mad1/Mad2 kinetochore recruitment in human cells are unclear and in particular the underlying direct interactions. Here we show that conserved domain 1 (CD1) in human Bub1 binds directly to Mad1 and a phosphorylation site exists in CD1 that stimulates Mad1 binding and SAC signalling. Importantly, fusion of minimal kinetochore-targeting Bub1 fragments to Mad1 bypasses the need for CD1, revealing that the main function of Bub1 is to position Mad1 close to KNL1 MELTrepeats. Furthermore, we identify residues in Mad1 that are critical for Mad1 functionality, but not Bub1 binding, arguing for a direct role of Mad1 in the checkpoint. This work dissects functionally relevant molecular interactions required for spindle assembly checkpoint signalling at kinetochores in human cells. 1 The Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200 Copenhagen, Denmark. Correspondence and requests for materials should be addressed to G.Z. -
A 20S Complex Containing CDC27 and CDC16 Catalyzes the Mitosis-Specific Conjugation of Ubiquitin to Cyclin B
Cell, Vol. 81,279-288, April 21, 1995, Copyright© 1995 by Cell Press A 20S Complex Containing CDC27 and CDC16 Catalyzes the Mitosis-Specific Conjugation of Ubiquitin to Cyclin B Randall W. King,*t Jan-Michael Peters,*t cyclin degradation is required to exit mitosis (Surana et Stuart Tugendreich,$ Mark Rolfe,§ Philip Hieter,$ al., 1993; Holloway et al., 1993). Treatments that interfere and Marc W. Kirschnert with the proteolysis of endogenous cyclin B, however, ar- tDepartment of Cell Biology rest cell division earlier, at anaphase (Holloway et al., Harvard Medical School 1993). This discrepancy can be explained by hypothesiz- Boston, Massachusetts 02115 ing that chromosome segregation and cyclin proteolysis $Department of Molecular Biology and Genetics depend upon common components. Support for this idea Johns Hopkins School of Medicine has emerged recently from studies in budding yeast, in Baltimore, Maryland 21205 which CDC16 and CDC23, genes required for progression §Mitotix, Incorporated through anaphase, have been shown to be required for One Kendall Square the proteolysis of B-type cyclins (Irniger et al., 1995 [this Cambridge, Massachusetts 02139 issue of Cell]). The proteins encoded by these genes form a complex with the CDC27 protein (Lamb et al., 1994), a homolog of which is also required for anaphase progres- Summary sion in mammalian cells (Tugendreich et al., 1995 [this issue of Cell]). Cyclin B is degraded at the onset of anaphase by a Biochemical evidence suggests that cyclin proteolysis ubiquitin-dependent proteolytic system. We have frac- is mediated by the ubiquitin pathway: cyclin B-ubiquitin tionated mitotic Xenopus egg extracts to identify com- conjugates can be observed in mitotic, but not interphase, ponents required for this process. -
C/Ebpδ Targets Cyclin D1 for Proteasome-Mediated Degradation Via Induction of CDC27/APC3 Expression
C/EBPδ targets cyclin D1 for proteasome-mediated degradation via induction of CDC27/APC3 expression Snehalata A. Pawara,1,2, Tapasree Roy Sarkara,2, Kuppusamy Balamurugana, Shikha Sharana, Jun Wanga, Youhong Zhanga, Steven F. Dowdyb, A-Mei Huanga,3, and Esta Sternecka,4 aCenter for Cancer Research, National Cancer Institute, Frederick, MD 21702-1201; and bDepartment of Cellular and Molecular Medicine, Howard Hughes Medical Institute, University of California, San Diego School of Medicine, La Jolla, CA 92093-0686 Edited* by George F. Vande Woude, Van Andel Research Institute, Grand Rapids, MI, and approved April 15, 2010 (received for review December 3, 2009) The transcription factor CCAAT/enhancer binding protein δ (C/EBPδ, breast tumor cell lines including MCF-7 (16). Addressing the CEBPD, NFIL-6β) has tumor suppressor function; however, the molecu- possibility of a causal relationship, we found that exogenous lar mechanism(s) by which C/EBPδ exerts its effect are largely unknown. C/EBPδ alone down-regulated endogenous cyclin D1 but not Here, we report that C/EBPδ induces expression of the Cdc27 (APC3) cyclin E2 in MCF-7 cells (Fig. 1A). An inverse correlation of C/ subunit of the anaphase promoting complex/cyclosome (APC/C), which EBPδ and cyclin D1 protein expression was also observed in MEFs results in the polyubiquitination and degradation of the prooncogenic from wild-type and Cebpd null mice (Fig. S1A). Next, we tested the cell cycle regulator cyclin D1, and also down-regulates cyclin B1, Skp2, role of target gene regulation by introducing an R198A mutation andPlk-1.InC/EBPδ knockout mouse embryo fibroblasts (MEF) Cdc27 into the DNA binding domain (C/EBPδ-R198A), which does levels were reduced, whereas cyclin D1 levels were increased even in not affect nuclear localization (17) but prevents DNA binding of the presence of activated GSK-3β. -
Protein Engineering of a Ubiquitin-Variant Inhibitor of APC/C Identifies a Cryptic K48 Ubiquitin Chain Binding Site
Protein engineering of a ubiquitin-variant inhibitor of APC/C identifies a cryptic K48 ubiquitin chain binding site Edmond R. Watsona,b, Christy R. R. Gracea, Wei Zhangc,d,2, Darcie J. Millera, Iain F. Davidsone, J. Rajan Prabub, Shanshan Yua, Derek L. Bolhuisf, Elizaveta T. Kulkof, Ronnald Vollrathb, David Haselbache,g, Holger Starkg, Jan-Michael Peterse,h, Nicholas G. Browna,f, Sachdev S. Sidhuc,1, and Brenda A. Schulmana,b,1 aDepartment of Structural Biology, St. Jude Children’s Research Hospital, Memphis, TN 38105; bDepartment of Molecular Machines and Signaling, Max Planck Institute of Biochemistry, 82152 Martinsried, Germany; cDonnelly Centre for Cellular and Biomolecular Research, Banting and Best Department of Medical Research, University of Toronto, Toronto, ON, Canada M5S3E1; dDepartment of Molecular Genetics, University of Toronto, Toronto, ON, Canada M5S3E1; eResearch Institute of Molecular Pathology, Vienna BioCenter, 1030 Vienna, Austria; fDepartment of Pharmacology and Lineberger Comprehensive Cancer Center, University of North Carolina School of Medicine, Chapel Hill, NC 27599; gMax Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany; and hMedical University of Vienna, 1090 Vienna, Austria Contributed by Brenda A. Schulman, June 24, 2019 (sent for review February 19, 2019; reviewed by Kylie Walters and Hao Wu) Ubiquitin (Ub)-mediated proteolysis is a fundamental mechanism the type of catalytic domain. E3s harboring “HECT” and “RBR” used by eukaryotic cells to maintain homeostasis and protein catalytic domains promote ubiquitylation through 2-step reac- quality, and to control timing in biological processes. Two essential tions involving formation of a thioester-linked intermediate be- aspects of Ub regulation are conjugation through E1-E2-E3 enzy- tween the E3 and Ub’s C terminus: First, Ub is transferred from matic cascades and recognition by Ub-binding domains. -
Identification of Novel Genes in BRCA1-Regulated Pathways
Identification of Novel Genes in BRCA1-Regulated Pathways DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University By Shweta Kotian, M.S. Graduate Program in Molecular, Cellular and Developmental Biology The Ohio State University 2013 Dissertation Committee: Professor Jeffrey D. Parvin, Advisor Professor Joanna L. Groden Professor Denis C. Guttridge Professor Mark R. Parthun Copyright by Shweta Kotian 2013 Abstract BRCA1 is an important breast- and ovarian-specific tumor suppressor gene. It is important in various cellular functions in the body including transcriptional regulation, cell cycle checkpoint activation, DNA damage response, and maintenance of genomic stability. Approximately 40% of hereditary breast cancers have mutations in BRCA1 or BRCA2, and it is unclear how the remaining cases are caused, presumably by mutations or in the alteration of expression of unknown genes. We hypothesize that these unknown genes or ‘missing BRCAs’ can be identified by bio-informatics methods. Performing gene co-expression analysis, we have compared the expression profiles of hundreds of genes across publicly available breast cancer microarray datasets, with those of BRCA1 and BRCA2. We propose that the genes, whose expression is highly correlated with BRCA1 and BRCA2, might function together in the same pathways. They could also potentially interact with each other. The main aim of this study is to identify these genes, and then biologically validate them in functional BRCA1-regulated pathways including homologous recombination and centrosome duplication. We also hope to find any mechanistic ii associations between these genes and BRCA1. Eventually, we hope to evaluate if these genes contribute to the process of carcinogenesis. -
A Novel Function for HSF1-Induced Mitotic Exit Failure and Genomic Instability Through Direct Interaction Between HSF1 and Cdc20
Oncogene (2008) 27, 2999–3009 & 2008 Nature Publishing Group All rights reserved 0950-9232/08 $30.00 www.nature.com/onc ORIGINAL ARTICLE A novel function for HSF1-induced mitotic exit failure and genomic instability through direct interaction between HSF1 and Cdc20 YJ Lee1, HJ Lee1, JS Lee2, D Jeoung3, CM Kang1, S Bae1, SJ Lee2, SH Kwon4, D Kang4 and YS Lee1 1Division of Radiation Effect, Korea Institute of Radiological and Medical Sciences, Seoul, Republic of Korea; 2Division of Radiation Cancer Research, Korea Institute of Radiological and Medical Sciences, Seoul, Korea; 3College of Natural Sciences, Kangwon National University, Chunchon, Korea and 4Korea Basic Science Institute, Chunchon Center, Chunchon, Korea Although heat-shock factor (HSF) 1 is a known highly aneuploid, however, the molecular mechanisms transcriptional factor of heat-shock proteins, other path- underlying the development of aneuploidy have not wayslike production of aneuploidy and increasedprotein been fully defined, although mutations in mitotic stability of cyclin B1 have been proposed. In the present checkpoint genes have been identified in a subset of study, the regulatory domain of HSF1 (amino-acid human cancers and cell lines (Lengauer et al., 1997; sequence 212–380) was found to interact directly with Cahill et al., 1998). the amino-acid sequence 106–171 of Cdc20. The associa- Enhanced heat-shock protein (HSP) expression in tion between HSF1 and Cdc20 inhibited the interaction response to various stimuli is regulated by heat-shock between Cdc27 and Cdc20, the phosphorylation of Cdc27 factors (HSFs), the functional relevance of which is now and the ubiquitination activity of anaphase-promoting emerging.