scholarly journals Heterochromatin formation via recruitment of DNA repair proteins

2015 ◽  
Vol 26 (7) ◽  
pp. 1395-1410 ◽  
Author(s):  
Jacob G. Kirkland ◽  
Misty R. Peterson ◽  
Christopher D. Still ◽  
Leo Brueggeman ◽  
Namrita Dhillon ◽  
...  

Heterochromatin formation and nuclear organization are important in gene regulation and genome fidelity. Proteins involved in gene silencing localize to sites of damage and some DNA repair proteins localize to heterochromatin, but the biological importance of these correlations remains unclear. In this study, we examined the role of double-strand-break repair proteins in gene silencing and nuclear organization. We find that the ATM kinase Tel1 and the proteins Mre11 and Esc2 can silence a reporter gene dependent on the Sir, as well as on other repair proteins. Furthermore, these proteins aid in the localization of silenced domains to specific compartments in the nucleus. We identify two distinct mechanisms for repair protein–mediated silencing—via direct and indirect interactions with Sir proteins, as well as by tethering loci to the nuclear periphery. This study reveals previously unknown interactions between repair proteins and silencing proteins and suggests insights into the mechanism underlying genome integrity.

2016 ◽  
Vol 94 (5) ◽  
pp. 433-440 ◽  
Author(s):  
Hicham Saad ◽  
Jennifer A. Cobb

The nucleus is a hub for gene expression and is a highly organized entity. The nucleoplasm is heterogeneous, owing to the preferential localization of specific metabolic factors, which lead to the definition of nuclear compartments or bodies. The genome is organized into chromosome territories, as well as heterochromatin and euchromatin domains. Recent observations have indicated that nuclear organization is important for maintaining genomic stability. For example, nuclear organization has been implicated in stabilizing damaged DNA, repair-pathway choice, and in preventing chromosomal rearrangements. Over the past decade, several studies have revealed that dynamic changes in the nuclear architecture are important during double-strand break repair. Stemming from work in yeast, relocation of a damaged site prior to repair appears to be at least partially conserved in multicellular eukaryotes. In this review, we will discuss genome and nucleoplasm architecture, particularly the importance of the nuclear periphery in genome stability. We will also discuss how the site of relocation regulates repair-pathway choice.


2020 ◽  
Author(s):  
Vishruth Nagam

Abstract While in space, astronauts have been known to face exposure to stressors that may increase susceptibility to DNA damage. If DNA repair proteins are defective or nonexistent, DNA mutations may accumulate, causing increasingly abnormal function as one ages [1]. The DNA single-strand break repair protein XRCC1 is important for cerebellar neurogenesis and interneuron development [2]. According to previous studies, a deficiency of XRCC1 can lead to an increase in DNA damage, in mature neurons, and ataxia (a progressive loss of motor coordination) [2]. I propose to address how XRCC1’s efficiency can change in microgravity conditions. This experiment’s relevance is underscored by the importance of motor coordination and physical fitness for astronauts; determining the potential effects of microgravity on XRCC1 is crucial for future space exploration.


Blood ◽  
2011 ◽  
Vol 118 (21) ◽  
pp. SCI-7-SCI-7
Author(s):  
Richard A. Gatti

Abstract Abstract SCI-7 Ataxia-telangiectasia (A-T) is the prototype for an expanded group of inherited radiation sensitive disorders that together define the XCIND syndrome: x-ray hypersensitivity, cancer, immunodeficiency, neurological dysfunction, and DNA repair deficiency. Although the clinical radiosensitivity of these disorders can be tested in the clinical laboratory, diagnostic methods remain limited and in need of further validation. Without exception, to date, sensitivity to ionizing radiation appears to be integrally associated with double strand break (DSB) repair defects and lymphoid cancer susceptibility, setting these disorders apart from single strand break repair disorders such as xeroderma pigmentosum. Responding within seconds to DSB damage are ATM kinase, the protein lacking in A-T, and the NMR complex (nibrin, Mre11, and Rad50). The latter three proteins are associated with three additional XCIND disorders (nibrin deficiency [aka nijmegen breakage syndrome], Mre11 deficiency [ATLD], and Rad50 deficiency). ATM kinase activates a myriad of other proteins that 1) halt DNA synthesis, replication, and the progression of the cell cycle; 2) form a complex protein “mesh” to physically stabilize the broken DNA strands; and 3) restore the integrity of the breaks before they unravel to create even larger chromosomal lesions and resulting malignancies. Another ATM-dependent cancer link involves the downregulation of ATM by microRNA-421. MicroRNA-421 is upregulated by the transcription factor N-myc. Despite this, neuroblastomas are not commonly observed in A-T or XCIND patients. Another subset of XCIND-associated disorders lacks proteins the drive the nonhomologous end joining pathway of DNA repair. Several of these diseases present in infancy as B−/T− severe combined immunodeficiency, or SCID, and are frequent candidates for stem cell transplantation. Attempts to ablate existing bone marrow prior to transplantation may further compromise such patients if they are inherently radiosensitive. Thus, attempts to preselect such patients and reduce radiation dosages may improve general post-transplantation survival. While most protein deficiencies can be diagnosed by immunoblots of appropriate cellular fractions, nonfunctional proteins are not detected by this platform. Colony survival assays (CSA) measure the ability of replicating cells (e.g., lymphoblasts or fibroblasts) to survive after exposure to radiation. Although causal proof that CSA can predict clinical radiosensitivity is lacking, the reduced percent survival fraction (i.e., radiosensitivity) of A-T, N-Bromosuccinimide, or Fanconi cell lines can be abrogated by introducing the mutated cognate gene. Other surrogate assays for radiosensitivity include kinetic studies, pre-irradiation and post-irradiation of γ-H2AX or SMC1 phosphorylation. Ultimately, DNA sequencing of a candidate gene can pinpoint the underlying pathogenesis of radiosensitivity in an XCIND disorder. Disclosures: No relevant conflicts of interest to declare.


2013 ◽  
Vol 113 (suppl_1) ◽  
Author(s):  
Bo Ye ◽  
Ning Hou ◽  
Lu Xiao ◽  
Haodong Xu ◽  
Faqian Li

Backgrounds: DNA damage occurs in cardiomyocytes during normal cellular metabolism and is significantly increased under cardiac stresses. How cardiomyocytes repair their DNA damage, especially DNA double strand breaks (DSBs), remains undetermined. We assessed DSBs caused by oxidative stress. More importantly, we investigated the spatiotemporal dynamics of DNA repair protein assembly/disassembly in DNA damage sites. Methods: Cultured neonatal rat cardiomyocytes were treated with different doses of hydrogen peroxide (H2O2) for 30 minutes to assess DNA damage response (DDR). To investigate the dynamics of DDR, cells were treated with 200 uM H2O2 and followed up to 72 hours. DSBs were evaluated by counting DNA damage foci after staining with antibody against histone H2AX phosphorylation at serine 139 (g-H2AX). The dynamics and posttranslational modification of DNA repair proteins were determined by Western blotting, immunolabeling, and confocal microscopy. Result: g-H2AX was proportionally increased to H2O2 dosage. Discrete nuclear g-H2AX foci were seen 30 minutes after hydrogen peroxide treatment with 50 uM, but became pannuclear when H2O2 was above 400 uM. At 200 uM of hydrogen peroxide, g-H2AX started to increase at 15 minutes and reached to highest levels at 60 minutes with up to 70 nuclear foci, started to decline at 2 hours, and returned to basal levels at 24 hours. DDR transducer kinase, ataxia telangiectasia mutated (ATM) was activated at 5 minutes with increased phosphorylation at serine 1981 (pATM) which started to decrease at 24 hours, but remained elevated up to 48 hours. Another DDR transducer kinase, ATM and Rad3-related (ATR) showed a biphasic activation at 30 minutes and 8 hours. ATM and ATR colocalized with g-H2AX. DNA damage mediator proteins such as MRN complex and p53BP1 were also recruited to sites of DNA damage at g-H2AX foci. Conclusions: DSBs and their repair have emerged as a new frontier of stress responses. Newly developed methods for studying g-H2AX and DNA repair protein dynamics can be explored to investigate DDR to oxidative stress in cardiomyocytes.


2018 ◽  
Author(s):  
Steven T. Bruckbauer ◽  
Joseph D. Trimarco ◽  
Elizabeth A. Wood ◽  
John R. Battista ◽  
Michael M. Cox

AbstractWe have previously generated four replicate populations of ionizing radiation (IR)- resistantEscherichia colithough directed evolution. Sequencing of isolates from these populations revealed that mutations affecting DNA repair (through DNA double-strand break repair and replication restart), ROS amelioration, and cell wall metabolism were prominent. Three mutations involved in DNA repair explained the IR resistance phenotype in one population, and similar DNA repair mutations were prominent in two others. The remaining population, IR-3-20, had no mutations in the key DNA repair proteins, suggesting that it had taken a different evolutionary path to IR resistance. Here, we present evidence that a variant of the anaerobic metabolism transcription factor FNR isolated from population IR-3-20 can play a role in IR resistance. An FNR variant is unique to IR-3-20 and suggests a role for altered global metabolism through the FNR regulon as a means for experimentally-evolved IR resistance.


2019 ◽  
Author(s):  
Roxanne Oshidari ◽  
Richard Huang ◽  
Maryam Medghalchi ◽  
Elizabeth Y.W. Tse ◽  
Nasser Ashgriz ◽  
...  

Cellular processes are influenced by liquid phase separation, but its role in DNA repair is unclear. Here, we show that in Saccharomyces cerevisiae, Rad52 DNA repair proteins at different DNA damage sites assemble liquid droplets that fuse into a repair centre droplet. This larger droplet concentrates tubulin and projects short aster-like microtubule filaments, which tether the droplet to longer microtubule filaments mediating the mobilization of damaged DNA to the nuclear periphery for repair.


2021 ◽  
pp. jcs.247809
Author(s):  
Annika Pfeiffer ◽  
Laura K. Herzog ◽  
Martijn S. Luijsterburg ◽  
Rashmi G. Shah ◽  
Magdalena B. Rother ◽  
...  

DNA damage-induced SUMOylation serves as a signal for two antagonizing proteins that both stimulate repair of DNA double strand breaks (DSBs). Here, we demonstrate that the SUMO-dependent recruitment of the deubiquitylating enzyme ataxin-3 to DSBs, unlike recruitment of the ubiquitin ligase RNF4, additionally depends on PARP1-mediated poly(ADP-ribosyl)ation (PARylation). The co-dependence of ataxin-3 recruitment on PARylation and SUMOylation temporally confines its presence at DSBs to a short time window directly following detection of the DNA damage. We propose that this mechanism ensures that ataxin-3 prevents the premature removal of DNA repair proteins only during the early phase of the DSB response and does not interfere with the subsequent timely displacement of DNA repair proteins by RNF4. Thus, our data show that PARylation differentially regulates SUMO-dependent recruitment of ataxin-3 and RNF4 to DSBs, explaining how both proteins can play a stimulatory role at DSBs despite their opposing activities.


2008 ◽  
Vol 86 (5) ◽  
pp. 448-458 ◽  
Author(s):  
Swathi Kota ◽  
Hari S. Misra

An efficient DNA strand break repair contributes to the radioresistance of Deinococcus radiodurans , which harbors the DNA repair pathways nearly identical to Escherichia coli . The molecular mechanisms of these proteins functioning in 2 diverse classes of bacteria seem to be different. The macromolecular interactions and formation of multiprotein complexes in vivo have gained significant importance in explaining the mechanism of the complex cellular processes. Here, we report the identification of a novel DNA metabolic protein complex from D. radiodurans. A similar complex has, however, not been found in E. coli. Mass spectrometric analysis showed the presence of a few known DNA repair proteins, molecular chaperones, and a large number of uncharacterized proteins from D. radiodurans R1. Biochemical and immunoblotting results indicated the presence of the protein promoting DNA repair A, DNA polymerase, Mg2+, and (or) Mn2+-dependent 5′→3′ exonuclease activity along with protein kinase activity and phosphoproteins. DNA ligase activity was completely dependent upon the ATP requirement, as no ligase activity was seen in the presence of NAD as a cofactor. These results suggest the molecular interactions of the known DNA repair proteins with uncharacterized proteins in the macromolecular complex and the regulation of DNA degradation with the involvement of ATP and protein kinase functions.


2021 ◽  
Vol 22 (6) ◽  
pp. 2976
Author(s):  
Amira Fitieh ◽  
Andrew J. Locke ◽  
Mobina Motamedi ◽  
Ismail Hassan Ismail

The polycomb group (PcG) proteins are a class of transcriptional repressors that mediate gene silencing through histone post-translational modifications. They are involved in the maintenance of stem cell self-renewal and proliferation, processes that are often dysregulated in cancer. Apart from their canonical functions in epigenetic gene silencing, several studies have uncovered a function for PcG proteins in DNA damage signaling and repair. In particular, members of the poly-comb group complexes (PRC) 1 and 2 have been shown to recruit to sites of DNA damage and mediate DNA double-strand break repair. Here, we review current understanding of the PRCs and their roles in cancer development. We then focus on the PRC1 member BMI1, discussing the current state of knowledge of its role in DNA repair and genome integrity, and outline how it can be targeted pharmacologically.


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