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1.
J Photochem Photobiol B ; 245: 112733, 2023 Aug.
Article in English | MEDLINE | ID: mdl-37311303

ABSTRACT

In cells that are exposed to terrestrial sunlight, the indole moiety in the side chain of tryptophan (Trp) can suffer photo/oxidative damage (POD) by reactive oxygen species (ROS) and/or ultraviolet light (UV-B). Trp is oxidized to produce N-formylkynurenine (NFK), a UV-A-responsive photosensitizer that further degenerates into photosensitizers capable of generating ROS through exposure to visible light. Thus, Trp-containing proteins function as both victims, and perpetrators, of POD if they are not rapidly replaced through protein turnover. The literature indicates that protein turnover and DNA repair occur poorly in chromosomal interiors. We contend, therefore, that basic chromosomal proteins (BCPs) that are enveloped by DNA should have evolved to lack Trp residues in their amino acid sequences, since these could otherwise function as 'Trojan horse-type' DNA-damaging agents. Our global analyses of protein sequences demonstrates that BCPs consistently lack Trp residues, although DNA-binding proteins in general do not display such a lack. We employ HU-B (a wild-type, Trp-lacking bacterial BCP) and HU-B F47W (a mutant, Trp-containing form of the same bacterial BCP) to demonstrate that the possession of Trp is deleterious to BCPs and associated chromosomal DNA. Basically, we show that UV-B and UV-A (a) cause no POD in HU-B, but cause extensive POD in HU-B F47W (in vitro), as well as (b) only nominal DNA damage in bacteria expressing HU-B, but extensive DNA damage in bacteria expressing F47W HU-B (in vivo). Our results suggest that Trp-lacking BCPs could have evolved to reduce scope for protein-facilitated, sunlight-mediated damage of DNA by UV-A and visible light, within chromosomal interiors that are poorly serviced by protein turnover and DNA repair machinery.


Subject(s)
Bacterial Proteins , Chromosomes , DNA Damage , Genome , Histones , Oxidative Stress , Sunlight , Tryptophan , Humans , Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Bacterial Proteins/radiation effects , Chromosomes/chemistry , Chromosomes/metabolism , Chromosomes/radiation effects , Chromosomes, Bacterial/chemistry , Chromosomes, Bacterial/metabolism , Chromosomes, Bacterial/radiation effects , Escherichia coli/genetics , Escherichia coli/radiation effects , Genome/genetics , Genome/radiation effects , Histones/chemistry , Histones/metabolism , Histones/radiation effects , Hydrogen-Ion Concentration , In Situ Nick-End Labeling , Integration Host Factors/chemistry , Oxidation-Reduction/radiation effects , Phenylalanine/genetics , Photosensitizing Agents/metabolism , Reactive Oxygen Species/metabolism , Transcription Factors/chemistry , Tryptophan/deficiency , Tryptophan/genetics , Tryptophan/metabolism , Ultraviolet Rays
2.
J Genet Genomics ; 48(4): 333-340, 2021 04 20.
Article in English | MEDLINE | ID: mdl-34039517

ABSTRACT

Repair of DNA double-strand break (DSB) is critical for the maintenance of genome integrity. A class of DSB-induced small RNAs (diRNAs) has been shown to play an important role in DSB repair. In humans, diRNAs are associated with Ago2 and guide the recruitment of Rad51 to DSB sites to facilitate repair by homologous recombination (HR). Ago2 activity has been reported to be regulated by phosphorylation under normal and hypoxic conditions. However, the role of Ago2 phosphorylation in DNA damage repair is unexplored. Here, we show that S672, S828, T830, and S831 of human Ago2 are phosphorylated in response to ionizing radiation (IR). S672A mutation of Ago2 leads to significant reduction in Rad51 foci formation and HR efficiency. We further show that defective association of Ago2 S672A variant with DSB sites, instead of defects in diRNA and Rad51 binding, may account for decreased Rad51 foci formation and HR efficiency. Our study reveals a novel regulatory mechanism for the function of Ago2 in DNA repair.


Subject(s)
Argonaute Proteins/genetics , DNA Breaks, Double-Stranded/radiation effects , DNA Repair/radiation effects , Rad51 Recombinase/genetics , Amino Acids/genetics , Amino Acids/radiation effects , DNA/genetics , DNA/radiation effects , DNA Damage/genetics , DNA Damage/radiation effects , DNA Repair/genetics , Genome/genetics , Genome/radiation effects , Homologous Recombination/radiation effects , Humans , Phosphorylation/radiation effects , Protein Binding/genetics , RNA/genetics , RNA/radiation effects , Radiation, Ionizing
3.
Biochim Biophys Acta Gen Subj ; 1865(5): 129857, 2021 05.
Article in English | MEDLINE | ID: mdl-33508382

ABSTRACT

BACKGROUND: DNA, the genetic material of most of the organisms, is the crucial element of life. Integrity of DNA needs to be maintained for transmission of genetic material from one generation to another. All organisms are constantly challenged by the environmental conditions which can lead to the induction of DNA damage. Ionizing radiation (IR) has been known to induce DNA damage and IR sensitivity varies among different organisms. The causes for differential radiosensitivity among various organisms have not been studied in great detail. SCOPE OF REVIEW: We discuss DNA secondary structure formation, GC content of the genome, role of G-quadruplex formation, and its relationship with radiosensitivity of the genome. MAJOR CONCLUSION: In Deinococcus radiodurans, the bacterium that exhibits maximum radio resistance, multiple G-quadruplex forming motifs are reported. In human cells, G-quadruplex formation led to differential radiosensitivity. In this article, we have discussed, the role of secondary DNA structure formation like G-quadruplex in shielding the genome from radiation and its implications in understanding evolution of radio protective effect of an organism. We also discuss role of GC content and its correlation with radio resistance. GENERAL SIGNIFICANCE: This review provides an insight into the role of G-quadruplexes in providing differential radiosensitivity at different site of the genome and in different organisms. It further discusses the possibility of higher GC content contributing towards reduced radiosensitivity in different organisms, evolution of radiosensitivity, and regulation of multiple cellular processes.


Subject(s)
DNA Damage/radiation effects , DNA/chemistry , G-Quadruplexes/radiation effects , Animals , Base Composition/radiation effects , DNA/genetics , Deinococcus/genetics , Deinococcus/radiation effects , Genome/radiation effects , Humans , Infrared Rays/adverse effects , Radiation Tolerance , Radiation, Ionizing
4.
Int J Mol Sci ; 21(11)2020 Jun 01.
Article in English | MEDLINE | ID: mdl-32492918

ABSTRACT

Early embryonic cells are sensitive to genotoxic stressors such as ionizing radiation. However, sensitivity to these stressors varies depending on the embryonic stage. Recently, the sensitivity and response to ionizing radiation were found to differ during the preimplantation period. The cellular and molecular mechanisms underlying the change during this period are beginning to be elucidated. In this review, we focus on the changes in radio-sensitivity and responses to ionizing radiation during the early developmental stages of the preimplantation (before gastrulation) period in mammals, Xenopus, and fish. Furthermore, we discuss the underlying cellular and molecular mechanisms and the similarities and differences between species.


Subject(s)
Blastocyst/radiation effects , Mutagens , Radiation, Ionizing , Animals , Apoptosis/radiation effects , Cell Cycle/radiation effects , DNA Damage , DNA Repair , Gastrulation/radiation effects , Genome/radiation effects , Humans , Mice , Radiation Tolerance , Xenopus laevis
5.
Cell Signal ; 62: 109340, 2019 10.
Article in English | MEDLINE | ID: mdl-31176019

ABSTRACT

Protein kinase C (PKC)-interacting cousin of thioredoxin (PICOT; also termed glutaredoxin 3 (Glrx3)) is a ubiquitously expressed protein that possesses an N-terminal monothiol thioredoxin (Trx) domain and two C-terminal tandem copies of a monothiol Glrx domain. It has an overall highly conserved amino acid sequence and is encoded by a unique gene, both in humans and mice, without having other functional gene homologs in the entire genome. Despite being discovered almost two decades ago, the biological function of PICOT remains largely ill-defined and its ramifications are underestimated considering the fact that PICOT-deficiency in mice results in embryonic lethality. Since classical Glrxs are important regulators of the cellular redox homeostasis, we tested whether PICOT participate in the stress-induced DNA-damage response, focusing on nuclear proteins that function as integral components of the DNA repair machinery. Using wild type versus PICOT-deficient (PICOT-KD) Jurkat T cells we found that the anti-oxidant mechanism in PICOT-deficient cells is impaired, and that these cells respond to genotoxic drugs, such as etoposide and camptothecin, by increased caspase-3 activity, a reduced survival and a slower and diminished phosphorylation of the histone protein, H2AX. Nevertheless, the effect of PICOT on the drug-induced phosphorylation of H2AX was independent of the cellular levels of reactive oxygen species. PICOT-deficient cells also demonstrated reduced and slower γH2AX foci formation in response to radiation. Furthermore, immunofluorescence staining using PICOT- and γH2AX-specific Abs followed by confocal microscopy demonstrated partial localization of PICOT at the γH2AX-containing foci at the site of the DNA double strand breaks. In addition, PICOT knockdown resulted in inhibition of phosphorylation of ATR, Chk1 and Chk2 kinases, which play an essential role in the DNA-damage response and serve as upstream regulators of γH2AX. The present data suggest that PICOT protects cells from DNA damage-inducing agents by operating as an upstream positive regulator of ATR-dependent signaling pathways. By promoting the activity of ATR, PICOT indirectly regulates the phosphorylation and activation of Chk1, Chk2, and γH2AX, which are critical components of the DNA damage repair mechanism and thereby attenuate the stress- and replication-induced genome instability.


Subject(s)
Carrier Proteins/genetics , DNA Damage/drug effects , DNA Replication/radiation effects , Histones/genetics , Animals , Camptothecin/pharmacology , Caspase 3/genetics , Cell Line, Tumor , DNA Breaks, Double-Stranded/radiation effects , DNA Damage/genetics , DNA Replication/genetics , Genome/radiation effects , Humans , Jurkat Cells , Mice , Phosphorylation/radiation effects , Signal Transduction/radiation effects , Thioredoxins/genetics
6.
PLoS One ; 14(2): e0207503, 2019.
Article in English | MEDLINE | ID: mdl-30742630

ABSTRACT

The cardiovascular biology of proton radiotherapy is not well understood. We aimed to compare the genomic dose-response to proton and gamma radiation of the mouse aorta to assess whether their vascular effects may diverge. We performed comparative RNA sequencing of the aorta following (4 hrs) total-body proton and gamma irradiation (0.5-200 cGy whole body dose, 10 dose levels) of conscious mice. A trend analysis identified genes that showed a dose response. While fewer genes were dose-responsive to proton than gamma radiation (29 vs. 194 genes; q-value ≤ 0.1), the magnitude of the effect was greater. Highly responsive genes were enriched for radiation response pathways (DNA damage, apoptosis, cellular stress and inflammation; p-value ≤ 0.01). Gamma, but not proton radiation induced additionally genes in vasculature specific pathways. Genes responsive to both radiation types showed almost perfectly superimposable dose-response relationships. Despite the activation of canonical radiation response pathways by both radiation types, we detected marked differences in the genomic response of the murine aorta. Models of cardiovascular risk based on photon radiation may not accurately predict the risk associated with proton radiation.


Subject(s)
Aorta/radiation effects , Genome/genetics , Genome/radiation effects , Animals , Apoptosis/genetics , Apoptosis/radiation effects , DNA Damage/genetics , DNA Damage/radiation effects , Dose-Response Relationship, Radiation , Gamma Rays , Genomics/methods , Inflammation/genetics , Male , Mice , Mice, Inbred C57BL , Pilot Projects , Protons , Radiation, Ionizing
7.
Genetika ; 52(1): 24-36, 2016 Jan.
Article in Russian | MEDLINE | ID: mdl-27183790

ABSTRACT

The review describes the effects of exposure to mutagens on mutation induction in human and mouse germlines. The results of studies that evaluated inductions of mutations in human families subjected to irradiation are presented and discussed. The effects of exposure to mutagens on mutation induction in the mouse germline are also considered. We analyze and discuss the recent data on the genome-wide effects of irradiation on mutation induction in the mouse germline obtained by next-generation sequencing and comparative genome hybridization.


Subject(s)
Germ Cells/growth & development , Mutagens/toxicity , Mutation/genetics , Animals , Comparative Genomic Hybridization , Genome/drug effects , Genome/radiation effects , Germ Cells/drug effects , Germ Cells/radiation effects , High-Throughput Nucleotide Sequencing , Humans , Mice , Mutation/drug effects , Mutation/radiation effects , Radiation
8.
PLoS Genet ; 11(10): e1005636, 2015 Oct.
Article in English | MEDLINE | ID: mdl-26517555

ABSTRACT

The bacterium Deinococcus radiodurans is one of the most radioresistant organisms known. It is able to reconstruct a functional genome from hundreds of radiation-induced chromosomal fragments. Our work aims to highlight the genes involved in recombination between 438 bp direct repeats separated by intervening sequences of various lengths ranging from 1,479 bp to 10,500 bp to restore a functional tetA gene in the presence or absence of radiation-induced DNA double strand breaks. The frequency of spontaneous deletion events between the chromosomal direct repeats were the same in recA+ and in ΔrecA, ΔrecF, and ΔrecO bacteria, whereas recombination between chromosomal and plasmid DNA was shown to be strictly dependent on the RecA and RecF proteins. The presence of mutations in one of the repeated sequence reduced, in a MutS-dependent manner, the frequency of the deletion events. The distance between the repeats did not influence the frequencies of deletion events in recA+ as well in ΔrecA bacteria. The absence of the UvrD protein stimulated the recombination between the direct repeats whereas the absence of the DdrB protein, previously shown to be involved in DNA double strand break repair through a single strand annealing (SSA) pathway, strongly reduces the frequency of RecA- (and RecO-) independent deletions events. The absence of the DdrB protein also increased the lethal sectoring of cells devoid of RecA or RecO protein. γ-irradiation of recA+ cells increased about 10-fold the frequencies of the deletion events, but at a lesser extend in cells devoid of the DdrB protein. Altogether, our results suggest a major role of single strand annealing in DNA repeat deletion events in bacteria devoid of the RecA protein, and also in recA+ bacteria exposed to ionizing radiation.


Subject(s)
Genome/genetics , Radiation Tolerance/genetics , Rec A Recombinases/genetics , Recombination, Genetic/radiation effects , DNA Breaks, Double-Stranded , DNA Damage , DNA Repair/genetics , Deinococcus/genetics , Deinococcus/radiation effects , Gamma Rays , Genome/radiation effects , Mutation
9.
Mol Cell ; 58(2): 284-96, 2015 Apr 16.
Article in English | MEDLINE | ID: mdl-25866249

ABSTRACT

Apoptosis is typically considered an anti-oncogenic process since caspase activation can promote the elimination of genetically unstable or damaged cells. We report that a central effector of apoptosis, caspase-3, facilitates rather than suppresses chemical- and radiation-induced genetic instability and carcinogenesis. We found that a significant fraction of mammalian cells treated with ionizing radiation can survive despite caspase-3 activation. Moreover, this sublethal activation of caspase-3 promoted persistent DNA damage and oncogenic transformation. In addition, chemically induced skin carcinogenesis was significantly reduced in mice genetically deficient in caspase-3. Furthermore, attenuation of EndoG activity significantly reduced radiation-induced DNA damage and oncogenic transformation, identifying EndoG as a downstream effector of caspase-3 in this pathway. Our findings suggest that rather than acting as a broad inhibitor of carcinogenesis, caspase-3 activation may contribute to genome instability and play a pivotal role in tumor formation following damage.


Subject(s)
Caspase 3/metabolism , Genome/radiation effects , Genomic Instability , Skin Neoplasms/genetics , Skin Neoplasms/metabolism , 9,10-Dimethyl-1,2-benzanthracene , Animals , Bone Marrow Cells/metabolism , Bone Marrow Cells/radiation effects , Breast/cytology , Breast/radiation effects , Cells, Cultured , Endodeoxyribonucleases/metabolism , Epithelial Cells/metabolism , Epithelial Cells/radiation effects , Female , Humans , Mice , Neoplasms, Experimental , Skin Neoplasms/chemically induced , Skin Neoplasms/pathology , Tetradecanoylphorbol Acetate
10.
Nat Commun ; 6: 6684, 2015 Mar 26.
Article in English | MEDLINE | ID: mdl-25809527

ABSTRACT

The ability to predict the genetic consequences of human exposure to ionizing radiation has been a long-standing goal of human genetics in the past 50 years. Here we present the results of an unbiased, comprehensive genome-wide survey of the range of germline mutations induced in laboratory mice after parental exposure to ionizing radiation and show irradiation markedly alters the frequency and spectrum of de novo mutations. Here we show that the frequency of de novo copy number variants (CNVs) and insertion/deletion events (indels) is significantly elevated in offspring of exposed fathers. We also show that the spectrum of induced de novo single-nucleotide variants (SNVs) is strikingly different; with clustered mutations being significantly over-represented in the offspring of irradiated males. Our study highlights the specific classes of radiation-induced DNA lesions that evade repair and result in germline mutation and paves the way for similarly comprehensive characterizations of other germline mutagens.


Subject(s)
DNA Copy Number Variations/radiation effects , DNA/radiation effects , Genome/radiation effects , Germ Cells/radiation effects , Germ-Line Mutation/radiation effects , Radiation, Ionizing , Animals , Female , Genome/genetics , Germ-Line Mutation/genetics , Male , Mice , Oligonucleotide Array Sequence Analysis , Sequence Analysis, DNA , Spermatogenesis
11.
Crit Rev Eukaryot Gene Expr ; 24(3): 205-23, 2014.
Article in English | MEDLINE | ID: mdl-25072147

ABSTRACT

Recent ground-breaking developments in Omics have generated new hope for overcoming the complexity and variability of biological systems while simultaneously shedding more light on fundamental radiobiological questions that have remained unanswered for decades. In the era of Omics, our knowledge of how genes and proteins interact in the frame of complex networks to preserve genome integrity has been rapidly expanding. Nevertheless, these functional networks must be observed with strong correspondence to the cell nucleus, which is the main target of ionizing radiation. Nuclear architecture and nuclear processes, including DNA damage responses, are precisely organized in space and time. Information regarding these intricate processes cannot be achieved using high-throughput Omics approaches alone, but requires sophisticated structural probing and imaging. Based on the results obtained from studying the relationship between higher-order chromatin structure, DNA double-strand break induction and repair, and the formation of chromosomal translocations, we show the development of Omics solutions especially for radiation research (radiomics) (discussed in this article) and how confocal microscopy as well as novel approaches of molecular localization nanoscopy fill the gaps to successfully place the Omics data in the context of space and time (discussed in our other article in this issue, "Determining Omics Spatiotemporal Dimensions Using Exciting New Nanoscopy Techniques to Assess Complex Cell Responses to DNA Damage: Part B--Structuromics"). Finally, we introduce a novel method of specific chromatin nanotargeting and speculate future perspectives, which may combine nanoprobing and structural nanoscopy to observe structure-function correlations in living cells in real time. Thus, the Omics networks obtained from function analyses may be enriched by real-time visualization of Structuromics.


Subject(s)
DNA Damage/radiation effects , DNA Repair , DNA/radiation effects , Genomic Instability/radiation effects , Radiobiology , Cell Line, Tumor , Cell Nucleus/genetics , Chromatin/radiation effects , DNA Damage/genetics , Genome/genetics , Genome/radiation effects , Humans , Radiation, Ionizing
12.
Methods ; 68(3): 397-402, 2014 Aug 01.
Article in English | MEDLINE | ID: mdl-24613935

ABSTRACT

Single/low-copy transgene integration is essential for avoiding overexpression, ectopic expression and gene silencing in the germline. Here, we present an overview of a method that uses ultraviolet and trimethylpsoralen (UV/TMP) to generate single/low-copy gene integrations in Caenorhabditis elegans. Single/low-copy transgenes from extrachromosomal arrays are integrated into the genome using positive selection based on temperature sensitivity with a vps-45 rescue fragment and negative selection based on benzimidazole sensitivity with a ben-1 rescue fragment. The copy number of the integrated transgenes is determined using quantitative PCR. Our UV/TMP integration method, which is based on familiar extrachromosomal transgenics, provides a simple approach for generating single/low-copy gene integrations.


Subject(s)
Animals, Genetically Modified/genetics , Caenorhabditis elegans/genetics , Transgenes , Animals , Genome/drug effects , Genome/radiation effects , Transgenes/drug effects , Transgenes/radiation effects , Trioxsalen/pharmacology , Ultraviolet Rays
13.
Mutat Res ; 749(1-2): 28-38, 2013 Sep.
Article in English | MEDLINE | ID: mdl-23891603

ABSTRACT

The search for non-toxic radio-protective drugs has yielded many potential agents but most of these compounds have certain amount of toxicity. The objective of the present study was to investigate dietary nicotinamide enrichment dependent adaptive response to potential cytotoxic effect of (60)Co γ-radiation. To elucidate the possible underlying mechanism(s), male Swiss mice were maintained on control diet (CD) and nicotinamide supplemented diet (NSD). After 6 weeks of CD and NSD dietary regimen, we exposed the animals to γ-radiation (2, 4 and 6Gy) and investigated the profile of downstream metabolites and activities of enzymes involved in NAD(+) biosynthesis. Increased activities of nicotinamide phosphoribosyltransferase (NAMPT) and nicotinamide mononucleotide adenylyltransferase (NMNAT) were observed up to 48h post-irradiation in NSD fed irradiated mice. Concomitant with increase in liver NAMPT and NMNAT activities, NAD(+) levels were replenished in NSD fed and irradiated animals. However, NAMPT and NMNAT-mediated NAD(+) biosynthesis and ATP levels were severely compromised in liver of CD fed irradiated mice. Another major finding of these studies revealed that under γ-radiation stress, dietary nicotinamide supplementation might induce higher and long-lasting poly(ADP)-ribose polymerase 1 (PARP1) and poly(ADP-ribose) glycohydrolase (PARG) activities in NSD fed animals compared to CD fed animals. To investigate liver DNA damage, number of apurinic/apyrimidinic sites (AP sites) and level of 8-hydroxy-2'-deoxyguanosine (8-oxo-dG) residues were quantified. A significant increase in liver DNA AP sites and 8-oxo-dG levels with concomitant increase in caspase-3 was observed in CD fed and irradiated animals compared to NSD fed and irradiated mice. In conclusion present studies show that under γ-radiation stress conditions, dietary nicotinamide supplementation restores DNA excision repair activity via prolonged activation of PARP1 and PARG activities. Present results clearly indicated that hepatic NAD(+) replenishment might be a novel and potent approach to reduce radiation injury.


Subject(s)
Dietary Supplements , Mutagenesis/drug effects , NAD/biosynthesis , Niacinamide/administration & dosage , Animals , Base Sequence , Cell Transformation, Neoplastic/drug effects , Cell Transformation, Neoplastic/genetics , Gamma Rays , Genome/drug effects , Genome/radiation effects , Male , Mice , Radiation Dosage , Sequence Deletion , Up-Regulation/drug effects
14.
Radiother Oncol ; 105(3): 350-7, 2012 Dec.
Article in English | MEDLINE | ID: mdl-22954495

ABSTRACT

BACKGROUND AND PURPOSE: To identify genes which influence the fibrotic response to thoracic cavity radiotherapy, we combined a genome wide single nucleotide polymorphism (SNP) association evaluation of inbred strain response with prior linkage and gene expression data. MATERIAL AND METHODS: Mice were exposed to 18Gy whole thorax irradiation and survival, bronchoalveolar cell differential, and histological alveolitis and fibrosis phenotypes were determined. Association analyses were completed with 1.8 million SNPs in single markers and haplotypes. RESULTS: Nine strains developed significant fibrosis and 11 strains succumbed to alveolitis only or alveolitis with minimal fibrosis. Post irradiation survival time (p<0.001) and bronchoalveolar lavage neutrophil percent (p=0.055) were correlated with extent of alveolitis and were not significantly correlated with fibrosis. Genome wide SNP analysis identified 10 loci as significantly associated with radiation-induced fibrotic lung disease (p<8.41×10(-6); by permutation test), with the most significant SNP within a conserved non-coding region downstream of cell adhesion molecule 1 (Cadm1). Haplotype and SNP analyses performed within previously-identified loci revealed additional genes containing SNPs associated with fibrosis including Slamf6 and Cdkn1a. CONCLUSION: Combining genomic approaches identified variation within specific genes which function in the tissue response to injury as associated with fibrosis following thoracic irradiation in mice.


Subject(s)
Genome/radiation effects , Genomics , Polymorphism, Single Nucleotide , Radiation Injuries, Experimental/genetics , Radiation Pneumonitis/genetics , Thorax/radiation effects , Algorithms , Animals , Gene Expression/radiation effects , Genetic Loci/radiation effects , Genetic Predisposition to Disease , Genome-Wide Association Study , Genotype , Haplotypes , Mice , Mice, Inbred Strains , Polymorphism, Single Nucleotide/genetics , Radiation Injuries, Experimental/metabolism , Radiation Injuries, Experimental/pathology , Radiation Pneumonitis/etiology , Radiation Pneumonitis/metabolism , Radiation Pneumonitis/pathology
15.
DNA Repair (Amst) ; 11(6): 550-8, 2012 Jun 01.
Article in English | MEDLINE | ID: mdl-22521143

ABSTRACT

Replicative polymerases (Pols) arrest at damaged DNA nucleotides, which induces ubiquitination of the DNA sliding clamp PCNA (PCNA-Ub) and DNA damage signaling. PCNA-Ub is associated with the recruitment or activation of translesion synthesis (TLS) DNA polymerases of the Y family that can bypass the lesions, thereby rescuing replication and preventing replication fork collapse and consequent formation of double-strand DNA breaks. Here, we have used gene-targeted mouse embryonic fibroblasts to perform a comprehensive study of the in vivo roles of PCNA-Ub and of the Y family TLS Pols η, ι, κ, Rev1 and the B family TLS Polζ in TLS and in the suppression of DNA damage signaling and genome instability after exposure to UV light. Our data indicate that TLS Pols ι and κ and the N-terminal BRCT domain of Rev1, that previously was implicated in the regulation of TLS, play minor roles in TLS of DNA photoproducts. PCNA-Ub is critical for an early TLS pathway that replicates both strongly helix-distorting (6-4) pyrimidine-pyrimidone ((6-4)PP) and mildly distorting cyclobutane pyrimidine dimer (CPD) photoproducts. The role of Polη is mainly restricted to early TLS of CPD photoproducts, whereas Rev1 and, in particular, Polζ are essential for the bypass of (6-4)PP photoproducts, both early and late after exposure. Thus, structurally distinct photoproducts at the mammalian genome are bypassed by different TLS Pols in temporally different, PCNA-Ub-dependent and independent fashions.


Subject(s)
DNA Breaks, Double-Stranded/radiation effects , DNA Repair , Genome/radiation effects , Signal Transduction/genetics , Ultraviolet Rays , Animals , Cell Cycle/genetics , Cell Cycle/radiation effects , Cell Line , Cell Proliferation/radiation effects , DNA Replication/genetics , DNA Replication/radiation effects , DNA-Directed DNA Polymerase/genetics , DNA-Directed DNA Polymerase/metabolism , Fibroblasts/cytology , Fibroblasts/metabolism , Fibroblasts/radiation effects , Genome/genetics , Histones/metabolism , Immunoblotting , Mammals/genetics , Mice , Mutation , Phosphorylation , Proliferating Cell Nuclear Antigen/genetics , Proliferating Cell Nuclear Antigen/metabolism , Ubiquitin/genetics , Ubiquitin/metabolism
16.
PLoS One ; 6(8): e22228, 2011.
Article in English | MEDLINE | ID: mdl-21857915

ABSTRACT

Under acute perturbations from outer environment, a normal cell can trigger cellular self-defense mechanism in response to genome stress. To investigate the kinetics of cellular self-repair process at single cell level further, a model of DNA damage generating and repair is proposed under acute Ion Radiation (IR) by using mathematical framework of kinetic theory of active particles (KTAP). Firstly, we focus on illustrating the profile of Cellular Repair System (CRS) instituted by two sub-populations, each of which is made up of the active particles with different discrete states. Then, we implement the mathematical framework of cellular self-repair mechanism, and illustrate the dynamic processes of Double Strand Breaks (DSBs) and Repair Protein (RP) generating, DSB-protein complexes (DSBCs) synthesizing, and toxins accumulating. Finally, we roughly analyze the capability of cellular self-repair mechanism, cellular activity of transferring DNA damage, and genome stability, especially the different fates of a certain cell before and after the time thresholds of IR perturbations that a cell can tolerate maximally under different IR perturbation circumstances.


Subject(s)
Algorithms , DNA Damage , DNA Repair/genetics , Models, Genetic , DNA Breaks, Double-Stranded/radiation effects , Dose-Response Relationship, Radiation , Genome/radiation effects , Kinetics , Single-Cell Analysis/methods
17.
FASEB J ; 25(9): 3079-91, 2011 Sep.
Article in English | MEDLINE | ID: mdl-21613571

ABSTRACT

To elucidate the involvement of specific ultraviolet (UV) wavelengths in solar mutagenesis, we used a laser system to investigate the induction of DNA damage, both in the overall genome and at the nucleotide resolution level, in the genomic DNA of transgenic Big Blue mouse fibroblasts irradiated with a series of UV wavelengths, inclusive of UVC (λ<280 nm), UVB (λ=280-320 nm), and UVA (λ>320 nm). Subsequently, we sought correlation between the locations of UV-induced DNA lesions in the cII transgene of irradiated DNA samples and the frequency distribution and codon position of the induced cII mutations in counterpart mouse cells irradiated with simulated sunlight. Using a combination of enzymatic digestion assays coupled with gel electrophoresis, immunodot blot assays, and DNA footprinting assays, we demonstrated a unique wavelength-dependent formation of photodimeric lesions, i.e., cyclobutane pyrimidine dimers (CPDs) and (6-4) photoproducts [(6-4)PPs], based on direct UV absorption of DNA, in irradiated mouse genomic DNA, which could partially explain the induction of mutations in mouse cells irradiated with simulated sunlight. Most notably, there was a divergence of CPD and (6-4)PP formation at an irradiation wavelength of 296 nm in mouse genomic DNA. Whereas substantial formation of (6-4)PPs was detectable in samples irradiated at this wavelength, which intensified as the irradiation wavelength decreased, only small quantities of these lesions were found in samples irradiated at wavelengths of 300-305 nm, with no detectable level of (6-4)PPs in samples irradiated with longer wavelengths. Although CPD formation followed the same pattern of increase with decreasing wavelengths of irradiation, there were substantial levels of CPDs in samples irradiated with UVB wavelengths borderlined with UVA, and small but detectable levels of these lesions in samples irradiated with longer wavelengths. Because the terrestrial sunlight spectrum rolls off sharply at wavelengths ~300 nm, our findings suggest that CPDs are the principal lesion responsible for most DNA damage-dependent biological effects of sunlight.


Subject(s)
DNA Damage/radiation effects , DNA/genetics , Pyrimidine Dimers/chemistry , Animals , Fibroblasts/cytology , Fibroblasts/radiation effects , Gene Expression Regulation , Genome/radiation effects , Lasers , Mice , Mice, Transgenic , Molecular Structure , Mutation , Photoelectron Spectroscopy , Pyrimidine Dimers/radiation effects , Sunlight , Ultraviolet Rays
18.
Biogerontology ; 12(2): 93-107, 2011 Apr.
Article in English | MEDLINE | ID: mdl-20617381

ABSTRACT

Ionizing radiation generates oxidative stress, which is thought to be a major cause of aging. Although living organisms are constantly exposed to low levels of radiation, most studies examining the effect of radiation have focused on accelerated aging and diminished life span that result from high-dose radiation. On the other hand, several studies have suggested that low-dose radiation enhances the longevity of Drosophila melanogaster. Therefore, investigation of the biological effects of low-dose radiation could contribute to a more comprehensive understanding of the aging process. In this study, microarray and quantitative real time-PCR were used to measure genome-wide changes in transcript levels in low-dose irradiated fruit flies that showed enhanced longevity. In response to radiation, approximately 13% of the genome exhibited changes in gene expression, and a number of aging-related genes were significantly regulated. These data were compared with quantitative trait loci affecting life-span to identify candidate genes involved in enhanced longevity induced by low-dose radiation. This genome-wide survey revealed novel information about changes in transcript levels in low-dose irradiated flies and identified 39 new candidate genes for molecular markers of extended longevity induced by ionizing radiation. In addition, this study also suggests a mechanism by which low-dose radiation extends longevity.


Subject(s)
Drosophila melanogaster/genetics , Drosophila melanogaster/physiology , Drosophila melanogaster/radiation effects , Gene Expression/radiation effects , Genome/radiation effects , Longevity/genetics , Animals , Gene Expression Profiling , Longevity/radiation effects , Male , Microarray Analysis , Oxidative Stress/genetics , Oxidative Stress/radiation effects , Polymerase Chain Reaction/methods , Quantitative Trait Loci , Radiation, Ionizing
19.
Chemistry ; 16(39): 11890-6, 2010 Oct 18.
Article in English | MEDLINE | ID: mdl-20827710

ABSTRACT

We report the synthesis and characterisation of photosensitive cationic surfactants with various hydrophobic tail lengths. These molecules, called AzoCx, are used as photosensitive nucleic acid binders (pNABs) and are applied to the photocontrol of DNA conformation. All these molecules induce DNA compaction in a photodependent way, originating in the photodependent polarity of their hydrophobic tails. We show that increasing hydrophobicity strongly enhances the compaction efficiencies of these molecules, but reduces the possibility of reversible photocontrol of a DNA conformation. Optimal performance was achieved with AzoC5, which allowed reversible control of DNA conformation with light at a concentration seven times smaller than previously reported.


Subject(s)
Azo Compounds/chemical synthesis , DNA/chemistry , Hydrophobic and Hydrophilic Interactions , Surface-Active Agents/chemical synthesis , Azo Compounds/chemistry , DNA/analysis , DNA/radiation effects , Genome/radiation effects , Molecular Structure , Nucleic Acid Conformation , Photochemical Processes , Spectrophotometry, Ultraviolet , Surface-Active Agents/chemistry
20.
Br J Radiol ; 83(992): 635-7, 2010 Aug.
Article in English | MEDLINE | ID: mdl-20647508

ABSTRACT

On 1 December 2009, the Radiation and Cancer Biology Committee of the British Institute of Radiology (BIR) held a one-day conference on the theme of radiation and the genome. Talks covered genomic instability (its importance for radiation-induced carcinogenesis and potential for exploitation in the development of novel chemoradiotherapy combinations) and the prospects of exploiting knowledge of the genome to understand how individual genetic variation can impact on a patient's likelihood of developing toxicity following radiotherapy. The meeting also provided an overview of stem cell biology and its relevance for radiotherapy in terms of both tumour (somatic) and normal tissue (germline) sensitivity to radiation. Moreover, the possibility of manipulating stem cells to reduce radiation-induced normal tissue damage was considered.


Subject(s)
DNA Damage , Genome/radiation effects , Genomic Instability , Animals , DNA Repair/radiation effects , Genome, Human/radiation effects , Humans , Neoplasms, Radiation-Induced/etiology , Neoplasms, Radiation-Induced/prevention & control , Neoplastic Stem Cells/physiology , Risk Factors
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