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Control of Genome Stability by Replicative DNA Polymerases

通过复制 DNA 聚合酶控制基因组稳定性

基本信息

批准号：
8261870
负责人：
YOURI I PAVLOV
金额：
$ 23.67万
依托单位：
UNIVERSITY OF NEBRASKA MEDICAL CENTER
依托单位国家：
美国
项目类别：
财政年份：
2008
资助国家：
美国
起止时间：
2008-07-01 至 2014-05-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/8261870
关键词：
6-N-hydroxylaminopurine deoxynucleoside triphosphate Address Affect Alleles Biochemical Biological Biological Models Biology Bypass Cancer Etiology Cells Chromosomes Complex DNA DNA Damage DNA Sequence DNA biosynthesis DNA-Directed DNA Polymerase Data Databases Defect Detection Diploid Cells Diploidy Disabled Persons Disease Enzymes Eukaryota Event Exonuclease Funding Generations Genes Genetic Genetic Materials Genome Genome Stability Genomic Instability Goals Haploidy Health Human In Vitro Individual Induced Mutation Laboratories LacZ Genes Lead Maintenance Malignant Neoplasms Methods Mismatch Repair Monitor Mutagenesis Mutation Mutation Spectra Noise Okazaki fragments Polymerase Positioning Attribute Predisposition Prevention Process Proteins Reagent Relative (related person)Replication Initiation Replication Origin Reporter Reporter Genes Research Role Signal Transduction Site Source Specificity Spectrum Analysis Statistical Methods System Testing Thinking Time Uncertainty Variant Work Yeasts analog base cancer risk comparative design human disease in vivo innovation mutant novel prevent protein function recombinational repair repaired replicase research study stem tripolyphosphate

项目摘要

DESCRIPTION (provided by applicant): This proposal addresses a long-standing problem in biology - the relative contribution of replicative DNA polymerases (Pol) in eukaryotes in guarding genome stability and protecting from diseases stemming from faults in replication. Remarkable progress in the field in recent years has led to the understanding that multiple DNA polymerases are required for accurate replication, recombination and repair of the eukaryotic genome. However, the roles of individual polymerases are far from being understood. We designed an integral approach to study roles of Pols. We will combine in vitro biochemical and in vivo genetic methods. The advantage over the existing methods is the use of the supermutagenic base analog, hydroxylaminopurine (HAP) and strategic DNA polymerase mutants. HAP makes the detection of DNA strand-specific errors possible and is based on years of Dr. Pavlov's research. Mutator strains possessing Pols with reduced base selectivity and disabled proofreading exonuclease will allow us to track individual Pols in vivo. The goal of the study will be pursued in the three specific aims. First is the genetic study of DNA Pol interplay by double mutant analysis. Using mutants with inaccurate Pol a as a reference, we expect to define the order of DNA Pols transactions on the lagging and leading DNA strands. Specific Aim 2 is the determination of error signatures of Pols and their inaccurate variants in vitro in the URA3 gene. Specific Aim 3 is the determination of the relative roles of DNA polymerases in genome stability. In one approach we will study the distribution of mutation hotspots in the reporter placed near the replication origin in strains with inaccurate Pol a. The involvement of inaccurate Pol a in the initiation of replication in vivo will result in a unique periodic distribution of mutations coinciding with the boundaries of Okazaki fragments. For the first time, this will provide an estimate of the size of Okazaki fragments in vivo. In second approach, the mutation spectra produced by Pols in vitro and generated in vivo in the same reporter gene will be compared by powerful statistical approaches. The mutation signatures of the DNA polymerases found in each of the in vivo spectra will reveal the extent of their participation in the replication of the leading and lagging strands. We expect that Aims 1-3 will lead to a better understanding of the Pol arrangement at the replication fork. The research aims the fundamental human health-oriented biological problem of the roles of different DNA polymerases in the replication fork in eukaryotes. The mutations generated by errors of the DNA polymerases are among the primary causes of cancer. The work will result in a database of mutations generated by inaccurate DNA polymerases, which could be used to find the same mutation signature in human cancers. We will also find a combination of polymerase alleles that synergistically destabilize the genome and create a predisposition to cancer and other diseases. PUBLIC HEALTH RELEVANCE: The project seeks to estimate the relative roles of replicative DNA polymerases at replication fork in eukaryotes and the genetic consequences and impact on human health of mutations in DNA polymerases compromising their fidelity.

描述（由申请人提供）：该提案解决了生物学中的一个长期存在的问题-真核生物中复制型DNA聚合酶（Pol）在保护基因组稳定性和防止复制故障引起的疾病方面的相对贡献。近年来，该领域的显著进展使人们认识到，真核基因组的精确复制、重组和修复需要多种DNA聚合酶。然而，单个聚合酶的作用远未被理解。我们设计了一个整体的方法来研究Pos的作用。我们将联合收割机结合体外生化和体内遗传学方法。与现有方法相比，其优点是使用了超诱变碱基类似物、羟氨基嘌呤（HAP）和战略DNA聚合酶突变体。HAP使DNA链特异性错误的检测成为可能，并基于巴甫洛夫博士多年的研究。具有降低的碱基选择性和失能的校对核酸外切酶的Pos的突变株将允许我们在体内追踪单个Pos。研究的目标将在三个具体目标中实现。首先是通过双突变体分析对DNA Pol相互作用的遗传学研究。使用具有不准确Pol a的突变体作为参考，我们期望定义滞后DNA链和前导DNA链上的DNA Pol事务的顺序。具体目标2是在体外确定URA 3基因中Pol及其不准确变体的错误特征。具体目标3是确定DNA聚合酶在基因组稳定性中的相对作用。在一种方法中，我们将研究突变热点在具有不准确Pol a的菌株中位于复制起点附近的报告子中的分布。不准确的Pol a参与体内复制的起始将导致与冈崎片段的边界一致的突变的独特周期性分布。这将首次提供冈崎碎片在体内大小的估计。在第二种方法中，将通过强大的统计方法比较由Pos在体外产生的突变谱和在体内在相同报告基因中产生的突变谱。在每个体内光谱中发现的DNA聚合酶的突变特征将揭示它们参与前导链和滞后链复制的程度。我们期望目标1-3将导致更好地理解复制叉处的Pol排列。本研究的目的是人类健康为导向的基本生物学问题的不同的DNA聚合酶在真核生物的复制叉的作用。由DNA聚合酶的错误产生的突变是癌症的主要原因之一。这项工作将产生一个由不准确的DNA聚合酶产生的突变数据库，该数据库可用于在人类癌症中找到相同的突变特征。我们还将发现聚合酶等位基因的组合，它们协同地破坏基因组的稳定性，并产生癌症和其他疾病的易感性。公共卫生关系：该项目旨在估计真核生物复制叉中复制性DNA聚合酶的相对作用，以及DNA聚合酶突变对其保真度的遗传后果和对人类健康的影响。

项目成果

期刊论文数量（10）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

A highly conserved family of inactivated archaeal B family DNA polymerases.

DOI：
10.1186/1745-6150-3-32
发表时间：
2008-08-06
期刊：
Biology direct
影响因子：
5.5
作者：
Rogozin IB;Makarova KS;Pavlov YI;Koonin EV
通讯作者：
Koonin EV

Inaccurate DNA synthesis in cell extracts of yeast producing active human DNA polymerase iota.

产生活性人类 DNA 聚合酶 iota 的酵母细胞提取物中 DNA 合成不准确。

DOI：
10.1371/journal.pone.0016612
发表时间：
2011
期刊：
PloS one
影响因子：
3.7
作者：
Makarova,AlenaV;Grabow,Corinn;Gening,LeonidV;Tarantul,VyacheslavZ;Tahirov,TahirH;Bessho,Tadayoshi;Pavlov,YouriI
通讯作者：
Pavlov,YouriI

The role of DNA polymerase alpha in the control of mutagenesis in Saccharomyces cerevisiae cells starved for nutrients.

DNA 聚合酶 α 在控制饥饿营养的酿酒酵母细胞诱变中的作用。

DOI：
10.17816/ecogen9153-61
发表时间：
2011
期刊：
Ekologicheskaia genetika
影响因子：
0
作者：
Babudri,Nora;Achilli,Alessandro;Martinelli,Chiara;Moore,Elizabeth;Lancioni,Hovirag;Pavlov,YouriI
通讯作者：
Pavlov,YouriI

Evolution of DNA polymerases: an inactivated polymerase-exonuclease module in Pol epsilon and a chimeric origin of eukaryotic polymerases from two classes of archaeal ancestors.