DNA-PKcs通过SCF泛素连接酶调控EXO1蛋白稳定性及其DNA同源重组修复中的末端剪切功能机制研究

项目来源

国家自然科学基金(NSFC)

项目主持人

周平坤

项目受资助机构

中国人民解放军军事科学院军事医学研究院

立项年度

2018

立项时间

未公开

项目编号

31870847

研究期限

未知 / 未知

项目级别

国家级

受资助金额

59.00万元

学科

生命科学-生物物理与生物化学-细胞感应与环境生物物理

学科代码

C-C05-C0503

基金类别

面上项目

关键词

电离辐射损伤 ; 损伤修复 ; 信号转导 ; 信号分子 ; 电离辐射修复

参与者

谢达菲;杨陟华;王豫;高山山;郭宗培;李雪萍;刘政;王铎

参与机构

未公开

项目标书摘要:DNA双链断裂(DSB)是放射诱发的严重损伤,真核生物有同源重组(HR)和非同源末端连接(NHEJ)两条主要修复通路。DSB经末端剪切形成一段单链DNA,是启动HR修复的关键,也是修复通路选择的调控点。前期发现,DNA-PKcs失活将导致执行DSB末端剪切的核酸酶EXO1的表达和稳定性显著改变。本课题将深入开展DNA-PKcs调控EXO1泛素化降解的上游信号通路和下游修复功能的研究:明确DNA-PKcs对放射损伤及细胞周期(G1 vs G2)EXO1表达和修饰(泛素化、磷酸化等)的影响规律;探讨SCF E3泛素连接酶对EXO1泛素化的调控机制,重点是DNA-PKcs直接或通过与RBX1的相互作用,对SCF催化核心Cullin-1蛋白的类泛素化修饰及作用于EXO1的活性调控机制;通过观测DSB末端剪切,明确DNA-PKcs通过上述作用对EXO1功能的调控机制,加深对放射生物学机制理论认识。

Application Abstract: DNA double-strand break(DSB)is a severe damage induced by ionizing radiation.There are two major pathways of DSB repairing in eukaryotic cells:homologous recombination(HR)and non-homologous end joining(NHEJ).The yield 3’ssDNA of DSB through the end resection is a key reaction for initiating HR pathway,also a key regulation point for the DSB repair pathway choice.In our previous study,we found the inaction of DNA-PKcs led to a significant decrease of expression and protein stability of the exonuclease EXO1,the critical molecule of executing DSB end resection of HR pathway.Here,this project will further study the upstream signaling pathway and downstream repair function of EXO1 ubiquitination regulated by DNA-PKcs,including:The effects of DNA-PKcs on the alterations of EXO1 ubiquitination and phosphorylation,and the stability after irradiation and in different cell cycle phases;the regulation mechanism of EXO1 ubiquitination by SCF E3 ubiquitin ligase,especially focus on by the direct action and through interaction with RBX1,DNA-PKcs regulates the neddylation of Cullin-1,a component of SCF E3 ubiquitination ligase catalytic core,and its ubiquitin ligase activity on EXO1.Through the observation of DSB end resection reaction,to further elucidate the regulation mechanism of DNA-PKcs on EXO1 repair function.This project will provide further mechanism theory to advance our knowledge on radiation biology.

项目受资助省

北京市

项目结题报告(全文)

DNA双链断裂(DSB)是电离辐射(IR)诱导的最为严重的DNA损伤形式之一,深入研究其精确修复机制,对发展新型放射损伤防护药物、维持基因组的稳定性具有重要意义。DSB的修复通路,主要包括同源重组(HR)修复和非同源末端链接(NHEJ)修复,其中HR修复通路需要同源DNA作为修复模板,仅发生在S/G2期,而G1期细胞只能选择NHEJ修复通路,因此,两者在不同细胞周期的选择和转换对DSB精确修复非常重要。在G1期细胞中,由于缺乏基因组范围内同源DNA(姐妹染色单体DNA尚未合成),因此无法试行和完成HR修复,G1期细胞是如何限制HR修复,确保G1期NHEJ修复顺利进行的机制尚不完全清楚。在DNA双链断裂(DSBs)同源重组修复通路起始阶段,需要进行DSB末端单链切割形成HR修复所必须的末端单链DNA(ssDNA),本研究围绕此过程的关键执行者EXO1的功能调节,以及DNA-PKcs在其中的调控作用展开研究,取得了具有重要理论意义和实践价值的科学发现,主要包括:(1)发现EXO1蛋白在G1期细胞中发生泛素化修饰,由此介导其降解,而在G2期细胞中EXO1蛋白表达较高,以便其执行功能;(2)揭示了RBX1蛋白促进SCF E3泛素连接酶关键组分Cullin 1的类泛素化修饰,促使其介导EXO1蛋白降解;(3)揭示RBX1蛋白促进G1期细胞EXO1泛素化降解对电离辐射损伤具有保护作用;(4)揭示DNA-PKcs激酶在G1细胞的自磷酸化和激酶活性显著高于G2期细胞,由此导致G1期细胞RBX1的高表达。上述科学发现,阐述了一种促进细胞DNA双链断裂修复通路的精确选择的新机制——DNA-PKcs在G1细胞中上调RBX1表达、介导EXO1蛋白泛素化降解,从而限制G1期细胞对DSBs的末端DNA单链切割,避免选择无法完成的HR修复通路,以便于执行非同源末端连接修复通路。本研究的科学发现为深入阐述放射致DNA双链断裂的修复机制提供了科学证据,为发展更有效的放射损伤防护技术奠定理论和实验基础。

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  • 2. Atomtronics:Ultracold-atom analogs of electronic devices,Phys.Rev.A 75,023615(2007)

  • 3.DNA damage repair: historical perspectives, mechanistic pathways and clinical translation for targeted cancer therapy

    • 关键词:
    • DOUBLE-STRAND BREAK; NUCLEOTIDE EXCISION-REPAIR; CELL LUNG-CANCER;HISTONE DEACETYLASE INHIBITOR; METASTATIC COLORECTAL-CANCER;ELECTRON-TRANSFER MECHANISMS; BASIC BIOLOGICAL PHENOMENON; WIDE-RANGINGIMPLICATIONS; ADVANCED SOLID TUMORS; PHASE-II TRIAL

    Genomic instability is the hallmark of various cancers with the increasing accumulation of DNA damage. The application of radiotherapy and chemotherapy in cancer treatment is typically based on this property of cancers. However, the adverse effects including normal tissues injury are also accompanied by the radiotherapy and chemotherapy. Targeted cancer therapy has the potential to suppress cancer cells' DNA damage response through tailoring therapy to cancer patients lacking specific DNA damage response functions. Obviously, understanding the broader role of DNA damage repair in cancers has became a basic and attractive strategy for targeted cancer therapy, in particular, raising novel hypothesis or theory in this field on the basis of previous scientists' findings would be important for future promising druggable emerging targets. In this review, we first illustrate the timeline steps for the understanding the roles of DNA damage repair in the promotion of cancer and cancer therapy developed, then we summarize the mechanisms regarding DNA damage repair associated with targeted cancer therapy, highlighting the specific proteins behind targeting DNA damage repair that initiate functioning abnormally duo to extrinsic harm by environmental DNA damage factors, also, the DNA damage baseline drift leads to the harmful intrinsic targeted cancer therapy. In addition, clinical therapeutic drugs for DNA damage and repair including therapeutic effects, as well as the strategy and scheme of relative clinical trials were intensive discussed. Based on this background, we suggest two hypotheses, namely "environmental gear selection" to describe DNA damage repair pathway evolution, and "DNA damage baseline drift", which may play a magnified role in mediating repair during cancer treatment. This two new hypothesis would shed new light on targeted cancer therapy, provide a much better or more comprehensive holistic view and also promote the development of new research direction and new overcoming strategies for patients.

    ...
  • 4.DNA damage response signaling pathways and targets for radiotherapy sensitization in cancer

    • 关键词:
    • STRAND BREAK REPAIR; DEPENDENT PROTEIN-KINASE; CELL-CYCLE PROGRESSION;KAPPA-B ACTIVATION; S-PHASE CHECKPOINT; ATAXIA-TELANGIECTASIA;IONIZING-RADIATION; HOMOLOGOUS RECOMBINATION; LUNG-CANCER; GAMMA-H2AXFOCI

    Radiotherapy is one of the most common countermeasures for treating a wide range of tumors. However, the radioresistance of cancer cells is still a major limitation for radiotherapy applications. Efforts are continuously ongoing to explore sensitizing targets and develop radiosensitizers for improving the outcomes of radiotherapy. DNA double-strand breaks are the most lethal lesions induced by ionizing radiation and can trigger a series of cellular DNA damage responses (DDRs), including those helping cells recover from radiation injuries, such as the activation of DNA damage sensing and early transduction pathways, cell cycle arrest, and DNA repair. Obviously, these protective DDRs confer tumor radioresistance. Targeting DDR signaling pathways has become an attractive strategy for overcoming tumor radioresistance, and some important advances and breakthroughs have already been achieved in recent years. On the basis of comprehensively reviewing the DDR signal pathways, we provide an update on the novel and promising druggable targets emerging from DDR pathways that can be exploited for radiosensitization. We further discuss recent advances identified from preclinical studies, current clinical trials, and clinical application of chemical inhibitors targeting key DDR proteins, including DNA-PKcs (DNA-dependent protein kinase, catalytic subunit), ATM/ATR (ataxia-telangiectasia mutated and Rad3-related), the MRN (MRE11-RAD50-NBS1) complex, the PARP (poly[ADP-ribose] polymerase) family, MDC1, Wee1, LIG4 (ligase IV), CDK1, BRCA1 (BRCA1 C terminal), CHK1, and HIF-1 (hypoxia-inducible factor-1). Challenges for ionizing radiation-induced signal transduction and targeted therapy are also discussed based on recent achievements in the biological field of radiotherapy.

    ...
  • 5.DNA-PKcs: A Multi-Faceted Player in DNA Damage Response

    • 关键词:
    • DNA-PKcs; DNA damage response; DNA repair; genomic instability;radiosensitization;DEPENDENT PROTEIN-KINASE; STRAND BREAK REPAIR; CRYO-EM STRUCTURE;CATALYTIC SUBUNIT; REPLICATION STRESS; 3-DIMENSIONAL STRUCTURE; DISTINCTROLES; PATHWAY CHOICE; CELL-DEATH; IN-VIVO

    DNA-dependent protein kinase catalytic subunit (DNA-PKcs) is a member of the phosphatidylinositol 3-kinase related kinase family, which can phosphorylate more than 700 substrates. As the core enzyme, DNA-PKcs forms the active DNA-PK holoenzyme with the Ku80/Ku70 heterodimer to play crucial roles in cellular DNA damage response (DDR). Once DNA double strand breaks (DSBs) occur in the cells, DNA-PKcs is promptly recruited into damage sites and activated. DNA-PKcs is auto-phosphorylated and phosphorylated by Ataxia-Telangiectasia Mutated at multiple sites, and phosphorylates other targets, participating in a series of DDR and repair processes, which determine the cells' fates: DSBs NHEJ repair and pathway choice, replication stress response, cell cycle checkpoints, telomeres length maintenance, senescence, autophagy, etc. Due to the special and multi-faceted roles of DNA-PKcs in the cellular responses to DNA damage, it is important to precisely regulate the formation and dynamic of its functional complex and activities for guarding genomic stability. On the other hand, targeting DNA-PKcs has been considered as a promising strategy of exploring novel radiosensitizers and killing agents of cancer cells. Combining DNA-PKcs inhibitors with radiotherapy can effectively enhance the efficacy of radiotherapy, offering more possibilities for cancer therapy.

    ...
  • 6.DNA damage response signaling pathways and targets for radiotherapy sensitization in cancer

    • 关键词:
    • STRAND BREAK REPAIR; DEPENDENT PROTEIN-KINASE; CELL-CYCLE PROGRESSION;KAPPA-B ACTIVATION; S-PHASE CHECKPOINT; ATAXIA-TELANGIECTASIA;IONIZING-RADIATION; HOMOLOGOUS RECOMBINATION; LUNG-CANCER; GAMMA-H2AXFOCI

    Radiotherapy is one of the most common countermeasures for treating a wide range of tumors. However, the radioresistance of cancer cells is still a major limitation for radiotherapy applications. Efforts are continuously ongoing to explore sensitizing targets and develop radiosensitizers for improving the outcomes of radiotherapy. DNA double-strand breaks are the most lethal lesions induced by ionizing radiation and can trigger a series of cellular DNA damage responses (DDRs), including those helping cells recover from radiation injuries, such as the activation of DNA damage sensing and early transduction pathways, cell cycle arrest, and DNA repair. Obviously, these protective DDRs confer tumor radioresistance. Targeting DDR signaling pathways has become an attractive strategy for overcoming tumor radioresistance, and some important advances and breakthroughs have already been achieved in recent years. On the basis of comprehensively reviewing the DDR signal pathways, we provide an update on the novel and promising druggable targets emerging from DDR pathways that can be exploited for radiosensitization. We further discuss recent advances identified from preclinical studies, current clinical trials, and clinical application of chemical inhibitors targeting key DDR proteins, including DNA-PKcs (DNA-dependent protein kinase, catalytic subunit), ATM/ATR (ataxia-telangiectasia mutated and Rad3-related), the MRN (MRE11-RAD50-NBS1) complex, the PARP (poly[ADP-ribose] polymerase) family, MDC1, Wee1, LIG4 (ligase IV), CDK1, BRCA1 (BRCA1 C terminal), CHK1, and HIF-1 (hypoxia-inducible factor-1). Challenges for ionizing radiation-induced signal transduction and targeted therapy are also discussed based on recent achievements in the biological field of radiotherapy.

    ...
  • 7.Analysis of mRNA Expression Patterns in Peripheral Blood Cells of 3 Patients With Cancer After the First Fraction of 2 Gy Irradiation: An Integrated Case Report and Systematic Review

    • 关键词:
    • radiation therapy; radiological toxicity; microarray analysis; mRNAexpression;ACUTE-RADIATION-SYNDROME; DEFINITIVE CHEMORADIOTHERAPY; HEMATOLOGICALTOXICITY; FETAL-HEMOGLOBIN; EARLY PREDICTION; RADIOTHERAPY; CARCINOMA;SIGNATURE; IGSF9

    Background: Radiation therapy induces acute and chronic radiological toxicity, in particular hematological toxicity (HT). This study aimed to explore the mechanistic clue and potential predictors at the messenger RNA (mRNA) level. Materials and Methods: Peripheral blood was collected from 3 patients with cervical cancer (CC), nasopharynx cancer (NC), and tongue cancer (TC) after the first 2 Gy fraction of radiotherapy (RT). High-throughput sequencing was used to assess mRNA profiles. Results: Eleven genes, such as ALAS2(5-aminolevulinate synthase), SLC4A1(solute carrier family 4 member 1), HBG2(hemoglobin subunit gamma 2), TNFAIP3 (TNF alpha-induced protein 3), PER1 (period circadian clock 1), CCDC136 (coiled-coil domain containing 136), C9orf84 (chromosome 9 open reading frame 84), IL1B (interleukin 1 beta), FOSB (FosB protooncogene), NR4A2 (nuclear receptor subfamily 4), PARP15 (polymerase family member 15), had overlapping expression changes in all 3 cancers of which 3 (ALAS2, FOSB, and HBG2) are suggested as potential predictors for the early diagnosis of HT after RT. Conclusions: ALAS2, FOSB, and HBG2 may be useful predictors of HT in patients after RT. Eleven overlapping expression mRNAs among 3 cancers might be potential predictors for early diagnosis of radiation toxicity in patients.

    ...
  • 8.Analysis of mRNA Expression Patterns in Peripheral Blood Cells of 3 Patients With Cancer After the First Fraction of 2 Gy Irradiation: An Integrated Case Report and Systematic Review

    • 关键词:
    • radiation therapy; radiological toxicity; microarray analysis; mRNAexpression;ACUTE-RADIATION-SYNDROME; DEFINITIVE CHEMORADIOTHERAPY; HEMATOLOGICALTOXICITY; FETAL-HEMOGLOBIN; EARLY PREDICTION; RADIOTHERAPY; CARCINOMA;SIGNATURE; IGSF9

    Background: Radiation therapy induces acute and chronic radiological toxicity, in particular hematological toxicity (HT). This study aimed to explore the mechanistic clue and potential predictors at the messenger RNA (mRNA) level. Materials and Methods: Peripheral blood was collected from 3 patients with cervical cancer (CC), nasopharynx cancer (NC), and tongue cancer (TC) after the first 2 Gy fraction of radiotherapy (RT). High-throughput sequencing was used to assess mRNA profiles. Results: Eleven genes, such as ALAS2(5-aminolevulinate synthase), SLC4A1(solute carrier family 4 member 1), HBG2(hemoglobin subunit gamma 2), TNFAIP3 (TNF alpha-induced protein 3), PER1 (period circadian clock 1), CCDC136 (coiled-coil domain containing 136), C9orf84 (chromosome 9 open reading frame 84), IL1B (interleukin 1 beta), FOSB (FosB protooncogene), NR4A2 (nuclear receptor subfamily 4), PARP15 (polymerase family member 15), had overlapping expression changes in all 3 cancers of which 3 (ALAS2, FOSB, and HBG2) are suggested as potential predictors for the early diagnosis of HT after RT. Conclusions: ALAS2, FOSB, and HBG2 may be useful predictors of HT in patients after RT. Eleven overlapping expression mRNAs among 3 cancers might be potential predictors for early diagnosis of radiation toxicity in patients.

    ...
  • 9.Double-edged effects of noncoding RNAs in responses to environmental genotoxic insults: Perspectives with regards to molecule-ecology network

    • 关键词:
    • Genotoxicants; Genotoxic effect; ncRNA; MEN; Epigenetics;CANCER CELLS; EXPRESSION; STRESS; PROLIFERATION; APOPTOSIS; REVEALS;REPAIR; DEATH

    Numerous recent studies have underlined the crucial players of noncoding RNAs (ncRNAs), i.e., microRNAs(miRNAs), long noncoding RNAs(lncRNAs) and circle RNAs(circRNAs) participating in genotoxic responses induced by a wide variety of environmental genotoxicants consistently. Genotoxic-derived ncRNAs provide us a new epigenetic molecular-ecological network (MEN) insights into the underlying mechanisms regarding genotoxicant exposure and genotoxic effects, which can modify ncRNAs to render them "genotoxic" and inheritable, thus potentially leading to disease risk via epigenetic changes. In fact, the spatial structures of ncRNAs, particularly of secondary and three-dimensional structures, diverse environmental genotoxicants as well as RNA splicing and editing forma dynamic pool of ncRNAs, which constructs a MEN in cells together with their enormous targets and interactions, making biological functions more complicated. We nonetheless suggest that ncRNAs have both beneficial(positive) and harmful(negative) effects, i.e., are "double-edged" in regulating genotoxicant toxic responses. Understanding the "double-edged" effects of ncRNAs is of crucial importance for our further comprehension of the pathogenesis of human diseases induced by environmental toxicants and for the construction of novel prevention and therapy targets. Furthermore, the MEN formed by ncRNAs and their interactions each other as well as downstream targets in the cells is important for considering the active relationships between external agents (environmental toxicants) and inherent genomic ncRNAs, in terms of suppression or promotion (down- or upregulation), and engineered ncRNA therapies can suppress or promote the expression of inherent genomic ncRNAs that are targets of environmental toxicants. Moreover, the MEN would be expected to be would be applied to the mechanistic explanation and risk assessment at whole scene level in environmental genotoxicant exposure. As molecular biology evolves rapidly, the proposed MEN perspective will provide a clearer or more comprehensive holistic view. (C) 2019 Elsevier Ltd. All rights reserved.

    ...
  • 10.Double-edged effects of noncoding RNAs in responses to environmental genotoxic insults: Perspectives with regards to molecule-ecology network

    • 关键词:
    • Genotoxicants; Genotoxic effect; ncRNA; MEN; Epigenetics;CANCER CELLS; EXPRESSION; STRESS; PROLIFERATION; APOPTOSIS; REVEALS;REPAIR; DEATH

    Numerous recent studies have underlined the crucial players of noncoding RNAs (ncRNAs), i.e., microRNAs(miRNAs), long noncoding RNAs(lncRNAs) and circle RNAs(circRNAs) participating in genotoxic responses induced by a wide variety of environmental genotoxicants consistently. Genotoxic-derived ncRNAs provide us a new epigenetic molecular-ecological network (MEN) insights into the underlying mechanisms regarding genotoxicant exposure and genotoxic effects, which can modify ncRNAs to render them "genotoxic" and inheritable, thus potentially leading to disease risk via epigenetic changes. In fact, the spatial structures of ncRNAs, particularly of secondary and three-dimensional structures, diverse environmental genotoxicants as well as RNA splicing and editing forma dynamic pool of ncRNAs, which constructs a MEN in cells together with their enormous targets and interactions, making biological functions more complicated. We nonetheless suggest that ncRNAs have both beneficial(positive) and harmful(negative) effects, i.e., are "double-edged" in regulating genotoxicant toxic responses. Understanding the "double-edged" effects of ncRNAs is of crucial importance for our further comprehension of the pathogenesis of human diseases induced by environmental toxicants and for the construction of novel prevention and therapy targets. Furthermore, the MEN formed by ncRNAs and their interactions each other as well as downstream targets in the cells is important for considering the active relationships between external agents (environmental toxicants) and inherent genomic ncRNAs, in terms of suppression or promotion (down- or upregulation), and engineered ncRNA therapies can suppress or promote the expression of inherent genomic ncRNAs that are targets of environmental toxicants. Moreover, the MEN would be expected to be would be applied to the mechanistic explanation and risk assessment at whole scene level in environmental genotoxicant exposure. As molecular biology evolves rapidly, the proposed MEN perspective will provide a clearer or more comprehensive holistic view. (C) 2019 Elsevier Ltd. All rights reserved.

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