Loss of Tid1/DNAJA3 Co-Chaperone Promotes Progression And
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Computational Genome-Wide Identification of Heat Shock Protein Genes in the Bovine Genome [Version 1; Peer Review: 2 Approved, 1 Approved with Reservations]
F1000Research 2018, 7:1504 Last updated: 08 AUG 2021 RESEARCH ARTICLE Computational genome-wide identification of heat shock protein genes in the bovine genome [version 1; peer review: 2 approved, 1 approved with reservations] Oyeyemi O. Ajayi1,2, Sunday O. Peters3, Marcos De Donato2,4, Sunday O. Sowande5, Fidalis D.N. Mujibi6, Olanrewaju B. Morenikeji2,7, Bolaji N. Thomas 8, Matthew A. Adeleke 9, Ikhide G. Imumorin2,10,11 1Department of Animal Breeding and Genetics, Federal University of Agriculture, Abeokuta, Nigeria 2International Programs, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, 14853, USA 3Department of Animal Science, Berry College, Mount Berry, GA, 30149, USA 4Departamento Regional de Bioingenierias, Tecnologico de Monterrey, Escuela de Ingenieria y Ciencias, Queretaro, Mexico 5Department of Animal Production and Health, Federal University of Agriculture, Abeokuta, Nigeria 6Usomi Limited, Nairobi, Kenya 7Department of Animal Production and Health, Federal University of Technology, Akure, Nigeria 8Department of Biomedical Sciences, Rochester Institute of Technology, Rochester, NY, 14623, USA 9School of Life Sciences, University of KwaZulu-Natal, Durban, 4000, South Africa 10School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, 30032, USA 11African Institute of Bioscience Research and Training, Ibadan, Nigeria v1 First published: 20 Sep 2018, 7:1504 Open Peer Review https://doi.org/10.12688/f1000research.16058.1 Latest published: 20 Sep 2018, 7:1504 https://doi.org/10.12688/f1000research.16058.1 Reviewer Status Invited Reviewers Abstract Background: Heat shock proteins (HSPs) are molecular chaperones 1 2 3 known to bind and sequester client proteins under stress. Methods: To identify and better understand some of these proteins, version 1 we carried out a computational genome-wide survey of the bovine 20 Sep 2018 report report report genome. -
Stress-Responsive Regulation of Mitochondria Through the ER
TEM-969; No. of Pages 10 Review Stress-responsive regulation of mitochondria through the ER unfolded protein response T. Kelly Rainbolt, Jaclyn M. Saunders, and R. Luke Wiseman Department of Molecular and Experimental Medicine, Department of Chemical Physiology, The Scripps Research Institute, La Jolla, CA 92037, USA The endoplasmic reticulum (ER) and mitochondria form function is sensitive to pathologic insults that induce ER physical interactions involved in the regulation of bio- stress (defined by the increased accumulation of misfolded logic functions including mitochondrial bioenergetics proteins within the ER lumen). ER stress can be transmit- and apoptotic signaling. To coordinate these functions ted to mitochondria by alterations in the transfer of me- 2+ during stress, cells must coregulate ER and mitochon- tabolites such as Ca or by stress-responsive signaling dria through stress-responsive signaling pathways such pathways, directly influencing mitochondrial functions. as the ER unfolded protein response (UPR). Although the Depending on the extent of cellular stress, the stress UPR is traditionally viewed as a signaling pathway re- signaling from the ER to mitochondria can result in pro- sponsible for regulating ER proteostasis, it is becoming survival or proapoptotic adaptations in mitochondrial increasingly clear that the protein kinase RNA (PKR)-like function. endoplasmic reticulum kinase (PERK) signaling pathway During the early adaptive phase of ER stress, ER– 2+ within the UPR can also regulate mitochondria proteos- mitochondrial contacts increase, promoting Ca transfer 2+ tasis and function in response to pathologic insults that between these organelles [4]. This increase in Ca flux into induce ER stress. Here, we discuss the contributions of mitochondria stimulates mitochondrial metabolism 2+ PERK in coordinating ER–mitochondrial activities and through the activity of Ca -regulated dehydrogenases describe the mechanisms by which PERK adapts mito- involved in the tricarboxylic acid (TCA) cycle. -
Evaluation of the Role of Human Dnajas in the Response to Cytotoxic Chemotherapeutic Agents in a Yeast Model System
Hindawi BioMed Research International Volume 2020, Article ID 9097638, 14 pages https://doi.org/10.1155/2020/9097638 Research Article Evaluation of the Role of Human DNAJAs in the Response to Cytotoxic Chemotherapeutic Agents in a Yeast Model System AurelliaWhitmore,DevonFreeny,SamanthaJ.Sojourner,JanaS.Miles,WillieM.Graham, and Hernan Flores-Rozas College of Pharmacy and Pharmaceutical Sciences, Florida A&M University, Tallahassee, FL, USA Correspondence should be addressed to Hernan Flores-Rozas; hernan.fl[email protected] Received 25 September 2019; Revised 3 January 2020; Accepted 9 January 2020; Published 14 February 2020 Guest Editor: Chengsheng Wu Copyright © 2020 Aurellia Whitmore et al. -is is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Heat-shock proteins (HSPs) play a crucial role in maintaining protein stability for cell survival during stress-induced insults. Overexpression of HSPs in cancer cells results in antiapoptotic activity contributing to cancer cell survival and restricting the efficacy of cytotoxic chemotherapy, which continues to play an important role in the treatment of many cancers, including triple- negative breast cancer (TNBC). First-line therapy for TNBC includes anthracycline antibiotics, which are associated with serious dose-dependent side effects and the development of resistance. We previously identified YDJ1, which encodes a heat-shock protein 40 (HSP40), as an important factor in the cellular response to anthracyclines in yeast, with mutants displaying over 100- fold increased sensitivity to doxorubicin. In humans, the DNAJA HSP40s are homologues of YDJ1. To determine the role of DNAJAs in the cellular response to cytotoxic drugs, we investigated their ability to rescue ydj1Δ mutants from exposure to chemotherapeutic agents. -
The HSP70 Chaperone Machinery: J Proteins As Drivers of Functional Specificity
REVIEWS The HSP70 chaperone machinery: J proteins as drivers of functional specificity Harm H. Kampinga* and Elizabeth A. Craig‡ Abstract | Heat shock 70 kDa proteins (HSP70s) are ubiquitous molecular chaperones that function in a myriad of biological processes, modulating polypeptide folding, degradation and translocation across membranes, and protein–protein interactions. This multitude of roles is not easily reconciled with the universality of the activity of HSP70s in ATP-dependent client protein-binding and release cycles. Much of the functional diversity of the HSP70s is driven by a diverse class of cofactors: J proteins. Often, multiple J proteins function with a single HSP70. Some target HSP70 activity to clients at precise locations in cells and others bind client proteins directly, thereby delivering specific clients to HSP70 and directly determining their fate. In their native cellular environment, polypeptides are participates in such diverse cellular functions. Their constantly at risk of attaining conformations that pre- functional diversity is remarkable considering that vent them from functioning properly and/or cause them within and across species, HSP70s have high sequence to aggregate into large, potentially cytotoxic complexes. identity. They share a single biochemical activity: an Molecular chaperones guide the conformation of proteins ATP-dependent client-binding and release cycle com- throughout their lifetime, preventing their aggregation bined with client protein recognition, which is typi- by protecting interactive surfaces against non-productive cally rather promiscuous. This apparent conundrum interactions. Through such inter actions, molecular chap- is resolved by the fact that HSP70s do not work alone, erones aid in the folding of nascent proteins as they are but rather as ‘HSP70 machines’, collaborating with synthesized by ribosomes, drive protein transport across and being regulated by several cofactors. -
Single Cell Derived Clonal Analysis of Human Glioblastoma Links
SUPPLEMENTARY INFORMATION: Single cell derived clonal analysis of human glioblastoma links functional and genomic heterogeneity ! Mona Meyer*, Jüri Reimand*, Xiaoyang Lan, Renee Head, Xueming Zhu, Michelle Kushida, Jane Bayani, Jessica C. Pressey, Anath Lionel, Ian D. Clarke, Michael Cusimano, Jeremy Squire, Stephen Scherer, Mark Bernstein, Melanie A. Woodin, Gary D. Bader**, and Peter B. Dirks**! ! * These authors contributed equally to this work.! ** Correspondence: [email protected] or [email protected]! ! Supplementary information - Meyer, Reimand et al. Supplementary methods" 4" Patient samples and fluorescence activated cell sorting (FACS)! 4! Differentiation! 4! Immunocytochemistry and EdU Imaging! 4! Proliferation! 5! Western blotting ! 5! Temozolomide treatment! 5! NCI drug library screen! 6! Orthotopic injections! 6! Immunohistochemistry on tumor sections! 6! Promoter methylation of MGMT! 6! Fluorescence in situ Hybridization (FISH)! 7! SNP6 microarray analysis and genome segmentation! 7! Calling copy number alterations! 8! Mapping altered genome segments to genes! 8! Recurrently altered genes with clonal variability! 9! Global analyses of copy number alterations! 9! Phylogenetic analysis of copy number alterations! 10! Microarray analysis! 10! Gene expression differences of TMZ resistant and sensitive clones of GBM-482! 10! Reverse transcription-PCR analyses! 11! Tumor subtype analysis of TMZ-sensitive and resistant clones! 11! Pathway analysis of gene expression in the TMZ-sensitive clone of GBM-482! 11! Supplementary figures and tables" 13" "2 Supplementary information - Meyer, Reimand et al. Table S1: Individual clones from all patient tumors are tumorigenic. ! 14! Fig. S1: clonal tumorigenicity.! 15! Fig. S2: clonal heterogeneity of EGFR and PTEN expression.! 20! Fig. S3: clonal heterogeneity of proliferation.! 21! Fig. -
Senescence Inhibits the Chaperone Response to Thermal Stress
SUPPLEMENTAL INFORMATION Senescence inhibits the chaperone response to thermal stress Jack Llewellyn1, 2, Venkatesh Mallikarjun1, 2, 3, Ellen Appleton1, 2, Maria Osipova1, 2, Hamish TJ Gilbert1, 2, Stephen M Richardson2, Simon J Hubbard4, 5 and Joe Swift1, 2, 5 (1) Wellcome Centre for Cell-Matrix Research, Oxford Road, Manchester, M13 9PT, UK. (2) Division of Cell Matrix Biology and Regenerative Medicine, School of Biological Sciences, Faculty of Biology, Medicine and Health, Manchester Academic Health Science Centre, University of Manchester, Manchester, M13 9PL, UK. (3) Current address: Department of Biomedical Engineering, University of Virginia, Box 800759, Health System, Charlottesville, VA, 22903, USA. (4) Division of Evolution and Genomic Sciences, School of Biological Sciences, Faculty of Biology, Medicine and Health, Manchester Academic Health Science Centre, University of Manchester, Manchester, M13 9PL, UK. (5) Correspondence to SJH ([email protected]) or JS ([email protected]). Page 1 of 11 Supplemental Information: Llewellyn et al. Chaperone stress response in senescence CONTENTS Supplemental figures S1 – S5 … … … … … … … … 3 Supplemental table S6 … … … … … … … … 10 Supplemental references … … … … … … … … 11 Page 2 of 11 Supplemental Information: Llewellyn et al. Chaperone stress response in senescence SUPPLEMENTAL FIGURES Figure S1. A EP (passage 3) LP (passage 16) 200 µm 200 µm 1.5 3 B Mass spectrometry proteomics (n = 4) C mRNA (n = 4) D 100k EP 1.0 2 p < 0.0001 p < 0.0001 LP p < 0.0001 p < 0.0001 ) 0.5 1 2 p < 0.0001 p < 0.0001 10k 0.0 0 -0.5 -1 Cell area (µm Cell area fold change vs. EP fold change vs. -
Roles of Heat Shock Proteins in Apoptosis, Oxidative Stress, Human Inflammatory Diseases, and Cancer
pharmaceuticals Review Roles of Heat Shock Proteins in Apoptosis, Oxidative Stress, Human Inflammatory Diseases, and Cancer Paul Chukwudi Ikwegbue 1, Priscilla Masamba 1, Babatunji Emmanuel Oyinloye 1,2 ID and Abidemi Paul Kappo 1,* ID 1 Biotechnology and Structural Biochemistry (BSB) Group, Department of Biochemistry and Microbiology, University of Zululand, KwaDlangezwa 3886, South Africa; [email protected] (P.C.I.); [email protected] (P.M.); [email protected] (B.E.O.) 2 Department of Biochemistry, Afe Babalola University, PMB 5454, Ado-Ekiti 360001, Nigeria * Correspondence: [email protected]; Tel.: +27-35-902-6780; Fax: +27-35-902-6567 Received: 23 October 2017; Accepted: 17 November 2017; Published: 23 December 2017 Abstract: Heat shock proteins (HSPs) play cytoprotective activities under pathological conditions through the initiation of protein folding, repair, refolding of misfolded peptides, and possible degradation of irreparable proteins. Excessive apoptosis, resulting from increased reactive oxygen species (ROS) cellular levels and subsequent amplified inflammatory reactions, is well known in the pathogenesis and progression of several human inflammatory diseases (HIDs) and cancer. Under normal physiological conditions, ROS levels and inflammatory reactions are kept in check for the cellular benefits of fighting off infectious agents through antioxidant mechanisms; however, this balance can be disrupted under pathological conditions, thus leading to oxidative stress and massive cellular destruction. Therefore, it becomes apparent that the interplay between oxidant-apoptosis-inflammation is critical in the dysfunction of the antioxidant system and, most importantly, in the progression of HIDs. Hence, there is a need to maintain careful balance between the oxidant-antioxidant inflammatory status in the human body. -
The Role of MDM2 and CDK4 in Well Differentiated Liposarcoma Dr
The role of MDM2 and CDK4 in well differentiated liposarcoma Dr Rachel Katherine Conyers Submitted in total fulfillment of the requirements of the degree of Doctor of Philosophy April 2015 Department of Pathology The University of Melbourne i Abstract Transformation of normal cells to cancer cells is tightly linked to fundamental changes in cell cycle regulation. In addition, oncogenes can aberrantly enhance cell proliferation. Two genes; Cyclin dependent kinase-4 (CDK4) and Murine double minute 2 (MDM2) are amplified and overexpressed in over 90% of well differentiated liposarcomas. Their role in cell cycle control, and regulation of tumour suppressor p53 respectively, strongly suggesting that deregulation of these genes confers some selective advantage to this tumour. To elucidate the role of these genes in the development and progression of liposarcoma I have used transgenic mouse models and in vitro assays. Given the recent development of novel CDK4 inhibitors, I have tested several CDK4 inhibitors (sc-203873, sc-203874, NPCD, PD 0332991) on liposarcoma cell lines (449B, T1000, 778, GOT3) to determine sensitivity to inhibition, cell cycle arrest and downstream effects of inhibition. PD033991 was found to be the most selective and sensitive CDK4 inhibitor and, as such, was used in a siRNA screen of the genome to identify co-modifiers of CDK4 inhibition. A total of 13 genes were identified that produced a resistance phenotype in the context of CDK4 inhibition. Two of these genes; Arrestin, beta 2 (ARRB2) and Dysferlin (DYSF) demonstrated a reproducible resistance phenotype in a series of functional validation studies. ii Declaration This is to certify that: i the thesis comprises only my original work towards the PhD except where indicated in the Preface, ii due acknowledgement has been made in the text to all other material used, iii the thesis is fewer than 100 000 words in length, exclusive of tables, maps, bibliographies and appendices. -
Prognostic and Functional Significant of Heat Shock Proteins (Hsps)
biology Article Prognostic and Functional Significant of Heat Shock Proteins (HSPs) in Breast Cancer Unveiled by Multi-Omics Approaches Miriam Buttacavoli 1,†, Gianluca Di Cara 1,†, Cesare D’Amico 1, Fabiana Geraci 1 , Ida Pucci-Minafra 2, Salvatore Feo 1 and Patrizia Cancemi 1,2,* 1 Department of Biological Chemical and Pharmaceutical Sciences and Technologies (STEBICEF), University of Palermo, 90128 Palermo, Italy; [email protected] (M.B.); [email protected] (G.D.C.); [email protected] (C.D.); [email protected] (F.G.); [email protected] (S.F.) 2 Experimental Center of Onco Biology (COBS), 90145 Palermo, Italy; [email protected] * Correspondence: [email protected]; Tel.: +39-091-2389-7330 † These authors contributed equally to this work. Simple Summary: In this study, we investigated the expression pattern and prognostic significance of the heat shock proteins (HSPs) family members in breast cancer (BC) by using several bioinfor- matics tools and proteomics investigations. Our results demonstrated that, collectively, HSPs were deregulated in BC, acting as both oncogene and onco-suppressor genes. In particular, two different HSP-clusters were significantly associated with a poor or good prognosis. Interestingly, the HSPs deregulation impacted gene expression and miRNAs regulation that, in turn, affected important bio- logical pathways involved in cell cycle, DNA replication, and receptors-mediated signaling. Finally, the proteomic identification of several HSPs members and isoforms revealed much more complexity Citation: Buttacavoli, M.; Di Cara, of HSPs roles in BC and showed that their expression is quite variable among patients. In conclusion, G.; D’Amico, C.; Geraci, F.; we elaborated two panels of HSPs that could be further explored as potential biomarkers for BC Pucci-Minafra, I.; Feo, S.; Cancemi, P. -
DMC1 Protein-Protein Interactions Are Directly Linked to Meiosis Homeostasis and Fertility
Open Access Austin Cell Biology Research Article DMC1 Protein-Protein Interactions are Directly Linked to Meiosis Homeostasis and Fertility Silva KSF* Biological Sciences Institute, Federal University of Goiás, Abstract Brazil Infertility is a disorder of the reproductive system. Couples are infertile *Corresponding author: Kleber Santiago Freitas e when they are unable to conceive children by a functional pregnancy after one Silva, Biological Sciences Institute, Federal University of year of regular and unprotected sexual intercourse. About 15% of couples in Goiás, Brazil the reproductive age around the world cannot conceive children and around 30% of all cases of infertility are idiopathic, with unknown underlying causes. Received: September 10, 2018; Accepted: October 23, Protein-protein interactions have not yet been extensively explored regarding 2018; Published: October 30, 2018 those underlying causes of infertility and one can assume that PPIs could be directly related to some of the idiopathic cases of infertility. Meiosis is a cell division process governed by a multitude of proteins and multiprotein complexes that regulate DNA double strand breaks, homologous recombination, synapsis [1], mismatch repair, chromosome maintenance and synaptonemal complex. PPI studies have been used in a variety of ways in other to shed some light on unknown molecular biologic processes that take place in the microenvironment of cells and may lead to diseases. PPI approaches have been used to identify the dynamic of biological systems and diseases onset, progression, diagnosis and treatment. Here, we present bioinformatics and in silico analysis of DMC1 and interacting protein partners that play important roles in meiosis homeostasis and consequently in human fertility. -
Heat Shock Proteins in Infection
Clinica Chimica Acta 498 (2019) 90–100 Contents lists available at ScienceDirect Clinica Chimica Acta journal homepage: www.elsevier.com/locate/cca Review Heat shock proteins in infection T ⁎ Azam Bolhassania, , Elnaz Agib a Department of Hepatitis and AIDS, Pasteur Institute of Iran, Tehran, Iran b Iranian Comprehensive Hemophilia Care Center, Tehran, Iran ARTICLE INFO ABSTRACT Keywords: Heat shock proteins (HSPs) are constitutively expressed under physiological conditions in most organisms but Heat shock protein their expression can significantly enhance in response to four types of stimuli including physical (e.g., radiation Infectious disease or heat shock), chemical and microbial (e.g., pathogenic bacteria, viruses, parasites and fungi) stimuli, and also Chaperone dietary. These proteins were identified for their role in protecting cells from high temperature and other forms of Immunity stress. HSPs control physiological activities or virulence through interaction with various regulators of cellular Apoptosis signaling pathways. Several roles were determined for HSPs in the immune system including intracellular roles (e.g., antigen presentation and expression of innate receptors) as well as extracellular roles (e.g., tumor im- munosurveillance and autoimmunity). It was observed that exogenously administered HSPs induced various immune responses in immunotherapy of cancer, infectious diseases, and autoimmunity. Moreover, virus inter- action with HSPs as molecular chaperones showed important roles in regulating viral infections including cell entry and nuclear import, viral replication and gene expression, folding/assembly of viral protein, apoptosis regulation, and host immunity. Viruses could regulate host HSPs at different levels such as transcription, translation, post-translational modification and cellular localization. In this review, we attempt to overview the roles of HSPs in a variety of infectious diseases. -
HSPB8 Supplemental Data
Cdk-independent role of cyclin D1 in radiation sensitivity Trent and Schmidt - Supplemental information page 1 HSPB8 Supplemental Data Supplemental Materials and Methods Coimmunoprecipitation experiments: Westerns for p53, actin and p14ARF were performed as described in methods. Antibodies used included anti-p53 (DO1; Santa Cruz, Santa Cruz, CA), anti-p14ARF (14P02; Abcam, Cambridge, MA), and the control actin antibody as described in methods. Purified positive control p14ARF protein was the generous gift of Dr. James Rocco (MGH Cancer Center; Boston, MA). For coimmunopreciptiations, cells transfected with the vector control, or the cyclin D1 or KE mutation expression plasmids were lysed in ELB lysis buffer, centrifuged and immounoprecipitated with 100 μg of anti-cyclin D1 preconjugated to protein A sepharose beads. The beads were washed five times and bound proteins were eluted by boiling in SDS-sample buffer and resolved by 12% SDS-PAGE. The immunoprecipitated proteins were then detected in a Western analysis using antibodies to CDK4 (rabbit polyclonal C-22 Santa Cruz, Santa Cruz, CA), p21 (Rabbit polyclonal C-19 Santa Cruz, Santa Cruz, CA) or cyclin D1 (Rabbit polyclonal M-20, Santa Cruz, Santa Cruz, CA). Review of array analyses: Pre-calculated meta-analyses evaluated linkage of HSPB8 to estrogen receptor positive tumors were identified using software available at www.Oncomine.org (1-12). The pre-calculated box plots describing the normalized expression units for HSPB8 were downloaded for display. RNA Expression Analysis The RNase protection assay was done using an RNase protection assay III kit (Ambion, Austin, TX) and labeled RNA probes generated with hAPO3d template sets (BD PharMingen, San Diego, CA) according to the manufacturer's instructions.