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    DNA Repair 3 (2004) 11031108

    Review

    PARP-1, PARP-2 and ATM in the DNA damage response:functional synergy in mouse development

    Aline Huber, Peter Bai, Josiane Mnissier de Murcia, Gilbert de Murcia

    Unit 9003 du CNRS, Ecole Suprieure de Biotechnologie de Strasbourg, Boulevard Sbastien Brant, BP 10413, 67412 Illkirch Cedex, France

    Available online 23 June 2004

    Abstract

    Poly(ADP-ribosyl)ation is an immediate DNA damage-dependent posttranslational modification of histones and nuclear proteins thatcontributes to the survival of injured proliferating cells. Poly(ADP-ribose) polymerases (PARPs) now constitute a superfamily of 18 proteins,

    encoded by different genes and displaying a common conserved catalytic domain. PARP-1 (113 kDa), the founding member, and PARP-2

    (62kDa)are both involved in DNA-break sensing andsignaling when singlestrand break repair(SSBR)or base excisionrepair (BER) pathways

    are engaged. The generation by homologous recombination of deficient mouse models have confirmed the caretaker function of PARP-1 and

    PARP-2 in mammalian cells under genotoxic stress. This review summarizes our present knowledge on their physiological role in the cellular

    response to DNA damageand on thegenetic interactionsbetween PARP-1, PARP-2,Atm that play an essentialrole during early embryogenesis.

    2004 Elsevier B.V. All rights reserved.

    Keywords: PARP-1; PARP-2; ATM

    1. PARP-1 and PARP-2, two DNA damage-dependent

    enzymes of a large superfamily

    The presence of DNA strand breaks in the cells of

    higher eukaryotes activate signal transduction pathways

    that trigger cell cycle arrest and repair mechanisms lead-

    ing ultimately to cell survival or programmed cell death.

    Central to pathways that maintain genomic integrity is the

    immediate modification of histones and nuclear proteins by

    ADP-ribose polymers catalyzed by poly(ADP-ribose) poly-

    merases (PARPs) [1]. A large repertoire of 18 sequences

    encoding novel PARPs now extend considerably the field

    of poly(ADP-ribosyl)ation reactions to various aspects of

    the cell biology including cell proliferation, cell death and

    energy metabolism. The members of the PARP superfamilyare characterized by a conserved core responsible for the

    catalytic activity to which a number of specific targeting

    and regulatory modules have been added. This modular ar-

    chitecture of PARPs lead to a plethora of possible functions,

    perhaps broader than genome surveillance [2].

    PARP-1 and PARP-2, are so far the sole members whose

    catalytic activity stimulated in vitro and in vivo by DNA

    Corresponding author. Tel.: +33 388 90 24 47 07;

    fax: +33 388 90 24 46 86.

    E-mail address: [email protected] (G.de Murcia).

    strand-breaks [3,4] catalyze the transfer of the ADP-ribose

    moiety from the respiratory co-enzyme NAD+

    to a limitednumber of acceptor proteins involved in chromatin architec-

    ture and in DNA metabolism (Fig. 1A).

    PARP-1 (113 kDa) is a multifunctional enzyme, highly

    conserved from human to A. thaliana, but absent in yeast.

    Its domain structure comprises (i) a N-terminal DNA break

    recognition module containing a duplicated zinc finger, ho-

    mologous to that of DNA ligase III (ii) a central BRCT motif,

    present in a large number of proteins involved in the mainte-

    nance of genomic integrity and cell cycle checkpoints, acting

    as the major proteinprotein interacting interface and (iii)

    a carboxy-terminal region bearing all the different catalytic

    activities associated with the full-length enzyme: NAD+ hy-

    drolysis and initiation, elongation, branching and termina-tion of ADP-ribose polymers (Fig. 1B). The basal activity of

    PARP-1 is stimulated 500 times by the presence of breaks in

    the DNA. The catalytic domain is by far the most evolution-

    arily conserved region. It contains a block of 50 amino acids

    (aa 859908), the PARP signature, virtually unchanged

    from human to plants [1]. It is conserved to various degree

    among the 18 human PARP orthologs [2].

    PARP-2 (62 kDa) was discovered as a result of the pres-

    ence of residual DNA-dependent PARP activity in embry-

    onic fibroblasts derived from PARP-1-deficient mice [3].

    PARP-2 is responsible for only 1015% of the total PARP

    1568-7864/$ see front matter 2004 Elsevier B.V. All rights reserved.

    doi:10.1016/j.dnarep.2004.06.002

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    1104 A. Huber et al./ DNA Repair 3 (2004) 11031108

    Fig. 1. (A) Metabolism of poly(ADP-ribose) during DNA damage and repair induced by various genotoxins. (B) The domain structure of the two DNA

    damage-dependent human poly(ADP-ribose) polymerases-1 and -2 (PARP-1, PARP-2). PARG, poly(ADP-ribose) glycohydrolase; NLS, nuclear localizationsignal. BRCT; BRCA1 C-terminus motif. Nam; nicotinamide.

    activity fully stimulated by DNA strand-breaks in a cellular

    extract. Its catalytic domain has the strongest resemblance

    among all the other family members to that of PARP-1 with

    69% similarity. Structural studies of the murine PARP-2

    demonstrated that its catalytic domain is very similar to that

    of PARP-1 except in the vicinity of the acceptor site that is

    most probably specific for protein substrates [5]. PARP-2 is

    a nuclear protein that binds to and is activated in vitro by

    DNase-I treated DNA. However, its DNA binding domain

    differs from that of PARP-1 and targets DNA gaps but not

    nicks (Am et al., in preparation). The N-terminal domain

    of PARP-2, 75 aa in size, is responsible both for the local-

    ization of PARP-2 to the nucleus (Fig. 1B) and the recog-

    nition of DNA interruptions. It displays homology with the

    SAP domain found in various nuclear proteins like APE-1

    and Ku70, involved in chromosomal organization and in

    DNA repair. Interestingly, this domain is also found in plant

    PARP-2, whose transcription is dramatically upregulated in

    response to a sublethal dose of ionizing radiation (IR) [6].

    PARP-2 acts as a chromatin modifier too but poly(ADP-

    ribosyl)ates histone H2B while PARP-1 targets histone

    H1. PARP-2 interacts with PARP-1, they share common

    partners involved in the single strand break repair (SSBR)

    and base excision repair (BER) pathways: XRCC1, DNA

    polymerase-, and DNA ligase III [4] suggesting that they

    are both engaged in the same DNA repair complex. PARP-1

    and PARP-2 interact also with proteins involved in the

    kinetochore structure and in the mitotic spindle checkpoint.

    However, specific partners of PARP-2 are begining to be

    discovered such as the telomeric protein TRF2 suggesting

    a link with the control of telomere integrity [7].

    2. Poly(ADP-ribosyl)ation, the first line of defense in

    response to DNA breaks: for better or for worse

    Several characteristics of PARP-1 behavior upon DNA

    damage classify this fascinating enzyme as a component of

    the early response to DNA strand breaks. Recent studies

    from Okano et al. [8] and El-Khamisy et al. [9] as well as

    work from our laboratory [10] reveals that the immediate

    synthesis of PAR at a DNA strand break constitutes an initi-

    ating event in a damaged cell. This, triggers the subsequent

    co-ordination of DNA strand-breaks detection by PARP-1

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    A. Huber et al. / DNA Repair 3 (2004) 11031108 1105

    Fig. 2. Scheme depicting the involvment of PARPs in the repair of

    single strand breaks process. (i) Following SSB dection by PARP-1,

    poly(ADP-ribose) synthesis at the DNA damage site triggers the immediate

    recruitment of XRCC1 and the assembly of the SSBR repair complex

    [37]. (ii) Polynucleotide kinase (PNK), stimulated by XRCC1, converts

    the DNA ends to 5-phosphate and 3-hydroxyl moieties that (iii) enables

    DNA Pol , stimulated by PARP-1, to fill the gap. The size of the repair

    patch is controlled by the nuclease FEN1 and PARP-2. (iv) The ligationstep is finally catalyzed by DNA Lig III whose stability is controlled by

    XRCC1. Closing of the break then abrogates PARPs activities.

    and signaling to the SSBR pathway, the whole process being

    performed in less than 15 s.

    PARP-1 is particularly well suited to fulfill several key

    functions following the occurrence of an interruption of

    the sugar phosphate backbone: (i) efficient sensing of the

    DNA break [11,12]; (ii) translation and amplification of

    the damage signal in a posttranslational modification of

    PARP-1 itself (automodification) and of histones H1 and

    H2B (heteromodification) that triggers chromatin structure

    relaxation [13] and increases the access to the break; (iii)

    PAR-dependent recruitment of XRCC1 to the damaged site

    [8] mediated by its BRCT1 motif that displays high affinity

    to PAR and PARP-1 [14,15]. Although not essential in vitro,

    XRCC1 as a scaffold protein with no known enzymatic func-

    tion plays a critical role in the co-ordinated handling of the

    damaged DNA, from one repair enzyme to the next, in the

    BER pathway [16] (see Fig. 2). It is nevertheless essential

    during mouse development [17]. The absence of PARP-1 or

    the inhibition of its enzymatic activity totally prevents the

    dynamic recruitment of XRCC1 to the break, thus explain-

    ing the important delay in strand-break rejoining that causes

    a severe DNA repair defect in PARP-1/ damaged cells

    or in damaged cells treated with 3-AB. However, the repair

    defect observed in PARP-2/ damaged cells [4] cannot be

    attributed to a lack of XRCC1 recruitment, since this step

    still occurred following DNA breakage [10]. Rather, PARP-2

    activity seems to be associated to a subsequent step in the

    SSBR pathway (Fig. 2).PARP-1 activity induced by high levels of DNA breaks

    renders PARP-1 a risky cellular factor when the genome is

    being degradated during cell death. Therefore, to limit futile

    DNA repair during apoptosis and to preserve the NAD+ and

    ATP pools, PARP-1 is inactivated by a caspase-dependent

    cleavage [18]. A quite different scenario takes place in

    acute pathophysiological conditions such as necrosis or

    caspase-independent cell death (chromatinolysis) where

    PARP-1 is instrumentalized by the Apoptosis-Inducing fac-

    tor (AIF) a flavoprotein normally confined to the mitochon-

    drial intermembrane space. In response to DNA injury, AIF

    in concert with the EndoG nuclease translocates rapidly to

    the nucleus and degradates the chromatin into 50 kb frag-

    ments [19]. This large scale DNA fragmentation overacti-

    vates PARP-1 and kills the cells in a caspase-independent

    manner, thus leading to inflammatory injury in the corre-

    sponding tissue [20,21]. Dawson and colleagues provided

    evidence that PARP-1 initiates a nuclear signal that propa-

    gates to mitochondria and triggers the release of AIF that

    leads to cell death. Accordingly, PARP-1-deficient cells

    or pharmacologically inhibited wild-type cells are fully

    protected against excessive damage.

    Clearly, the activation of PARP-1 has two opposed mean-

    ings depending upon the cell type and the extend of the DNA

    damage: (i) Survival: in replicating cells, limited damage toDNA induces PARP activity and stimulates the activation of

    DNA repair pathways through the recruitment of DNA repair

    factors (i.e. XRCC1). The decision for the cell to engage the

    apoptotic pathway after genotoxic stress takes place down-

    stream of p53 activation, but the molecular determinants that

    switch between DNA repair and cell-cycle arrest or apopto-

    sis are not yet fully understood. When apoptosis is induced,

    PARP-1 and -2 as survival factors are cleaved by caspases

    and are thus inactivated. (ii) Cell death: In post-mitotic cells,

    reactive oxygen species (ROS) damage DNA activate PARP

    and trigger AIF translocation to the nucleus. The resulting

    DNA fragmentation overactivates PARP and leads to nu-clear condensation. Understanding the switch between these

    two facets of PARP biology might ultimately improve phar-

    macological strategies to enhance both antitumor efficacy

    as well as the treatment of a number of inflammatory and

    neurodegenerative disorders.

    3. PARP-1- and PARP-2-deficient mice are highly

    sensitive to DNA damage

    To gain further insight into the functional importance of

    DNA-dependent poly(ADP-ribosyl)ation reactions at the

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    1106 A. Huber et al./ DNA Repair 3 (2004) 11031108

    animal level, we and others have generated PARP-1/

    [2224] and PARP-2/ deficient mice [25]. Both mu-

    tant mice are similarly radiosensitive and display severe

    genomic instability after -irradiation. Mouse embryonic

    fibroblasts (MEFs) lacking either PARP-1 [24,2628] or

    PARP-2 [4] display a similar severe defect in alkylation in-

    duced DNA strand-break resealing confirming that PARP-1and PARP-2 are involved in the maintenance of genomic in-

    tegrity. Interestingly, the sensitization of PARP-2/ MEFs

    is accompanied by a G2/M accumulation, the acquisition of

    8N DNA content, the presence of anaphase bridges, and the

    occurrence of preferential breaks in centromeric and sub-

    centromeric regions reflecting kinetochore defects. Thus,

    although PARP-2-specific activity is reduced compared

    to that of PARP-1, the phenotype of the PARP-2/ and

    PARP-1/ mice are equally severe, because they both par-

    ticipate not in the catalytic steps of the process, but instead

    they dramatically affect the efficiency and/or the accuracy

    of the repair.

    The double null mutant PARP-1/; PARP-2/ embryos

    are not viable and die around E7.5 at the onset of gastrula-

    tion, demonstrating that the expression of both PARP-1 and

    PARP-2 and/or DNA-dependent poly(ADP-ribosyl)ation

    is essential during early embryogenesis. Interestingly,

    a specific female embryonic lethality is observed in

    PARP-1+/PARP-2/ mutant at mid-gestation (E9.5).

    Metaphase analyses of E8.5 embryonic fibroblasts highlight

    a specific instability of the X-chromosome in those females

    but not in males. [25]. These results support the notion

    that, even if a critical level of the DNA repair capacity is

    reached in PARP-1+/ PARP-2/ mutant, avoiding an

    early lethality, the poor DNA repair efficiency may lead to asevere genomic instability, detrimental first to the females.

    4. PARP-1, -2, Atm: genetic interactions in mouse

    development

    The multifunctional protein kinase Atm is an orchestrat-

    ing factor in the cascade of events leading to activation of

    the cellular response to DNA double strand breaks, which

    includes repair and cell-cycle checkpoint pathways [29] (see

    also Kurz and lees-Miller, in press). ATM is missing or in-

    activated in patients with the genomic instability syndroma

    ataxia-telangiectasia (A-T) (Chun and Gatti, in press). Cell

    lines established from Atm-deficient mice, like those from

    A-T patients exhibit genomic instability and defective re-

    sponse to double strand breaks (DSBs), e.g., defective acti-

    vation of the cell cycle checkpoints after ionizing radiation

    [30] likely attributed to the defect in sensing, repairing and

    signaling DSBs. Beside a clear defect in DSB response, A-T

    cells may chronically suffer from increased oxidative stress

    [31].

    The relationship between ATM and PARP-1 on one hand

    and ATM and PARP-2 on the other hand were so far unex-

    plored in the mice. Two mouse models deficient for ATM

    Fig. 3. External views and histological sections of E8.0 normal (a, c)

    (N, normal and PARP-1/; Atm+/), (b, d) (PARP-1; Atm) double null

    concepti (/; /), (e, f) (PARP-2; Atm) double null concepti (/;

    /). Abbreviations: A, amnion; AL, allantois; EC, ectoplacental cavity;

    EX, extraembryonic material; EM, embryo; F, foregut pocket; H, head

    folds; P, placenta; S, somites; YC, yolk sac cavity. (Taken from ref. [38]

    with permission.)

    and PARP-1 (Atm/; PARP-1/) or PARP-2 (Atm/;

    PARP-2/) were generated to investigate the impact of

    these putative interactions on genomic stability and em-

    bryonic development. No homozygous PARP-1, Atm and

    PARP-2, Atm-disrupted pups were observed (Fig. 3 and

    Table 1) implying that a potent synergistic interaction exists

    between Atm and PARP-1 as well as Atm and PARP-2 that

    impacts on the embryonic development. The double-null

    mutants embryos die early in development, subsequent to

    the gastrulation stage. During this restrictive developmental

    window, undifferentiated stem cells that form the epiblast

    sustain high cell division rate.

    In proliferative state, intense metabolism during em-

    bryonic growth is accompanied by an oxidative burst that

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    A. Huber et al. / DNA Repair 3 (2004) 11031108 1107

    Table 1

    Genotype analysis of (PARP; Atm) embryos from heterozygous matings

    Intercross Age of progeny n No. of embryo (% of total) with Atm genotype

    +/+ +/ /

    PARP-1/; Atm+/ Newborn 123 30 (24) 93 (76) 0

    E8.0E11.5 60 14 (24) 29 (48) 17 (28)a

    PARP-2/; Atm+/ Newborn 163 59 (36) 104 (64) 0E8.5 38 10 (26) 19 (50) 9 (24)a

    a Growth retarded embryos.

    may cause oxidative damage to genomic DNA. This fea-

    ture would be exacerbated in the double mutant embryos

    by the perturbation of the cellular balance of reactive

    oxygen species which leads to constant oxidative stress

    in Atm-deficient cells [31]. Alternatively, the lower rate

    of repair that we and others have previously shown in

    PARP-1/ [26,27] and in PARP-2/ [4] cells combined

    to Atm deficiency may have seriously weakened the cells

    defense against endogenous DNA damage, increasing thelikelihood of lethal chromosomal breaks and replication

    failure at a stage of development accompanied by rapid cell

    division.

    5. Concluding remarks

    The phenotype displayed by each combinations of double

    mutants are more severe than either of the single knockout

    (Fig. 4) suggesting that Atm, PARP-1 and PARP-2 partici-

    pate in overlapping DNA damage signaling pathways or reg-

    ulate distinct forms of DNA repair that partially compensatefor each other. Interestingly, breeding experiments aimed at

    generating deficient mice in both Ku80 and PARP-1 [32] and

    Ku80 and Atm [33] also lead to early embryonic lethality at

    the gastrulation stage. Thus, the loss of certain components

    of the SSBR/BER and DSB repair pathways lead to massive

    apoptosis of the embryo at the onset of gastrulation perhaps

    as a result of unrepaired DNA damage or due to a defect in

    DNA-damage signaling.

    Interestingly, both PARPs, Atm and DNA PKcs are DNA

    damage-dependent chromatin modifiers. In response to

    DNA breaks, PARP-1 and PARP-2 poly(ADP-ribosyl)ate

    histone H1 and H2B, causing the immediate relaxation

    of the 30nm chromatin fiber, a necessary step to in-crease the access to the break [13,34]. Upon -irradiation,

    the activation of the Atm kinase by autophosphorylation

    Fig. 4. Early embryonic lethality and genetic interactions between PARP-1,

    PARP-2, Atm and Ku80 (see text for references).

    induced-monomerization has been shown recently to be

    sensitive to conformational changes of chromatin [35] lead-

    ing to histone H2AX phosphorylation of its C-terminal

    tail on Ser-139. H2AX phosphorylation is now believed to

    participate in chromatin reconfiguration and foci formation

    that serve to increase the local concentration of DSB repair

    factors and/or limit the diffusion of the broken DNA ends

    until the break is repaired [36] (Fig. 5). Given that changes

    in chromatin structure emanating from DNA breaks areprobably the most initiating events in the cellular response

    to DNA damage, it is tempting to speculate that histone

    modifications play an essential role, not only in DNA pack-

    aging, but also monitoring the integrity of the mammalian

    genome. The disruption of both PARPs and Atm routes

    to chromatin may also explain the impossibility for the

    resulting embryo to develope normally.

    Fig. 5. Schematic representation of the DNA strand-breaks signaling

    and processing pathway. The pathway is triggered by IR resulting in

    single- and double-strand breaks that immediately initiate two posttrans-

    lational modifications of histones and nuclear proteins catalyzed by DNA

    damage-dependent PARPs and Atm. Poly(ADP-ribosyl)ation of histones

    H1 and H2B increase chromatin accessibility at the actual site of DNA

    damage thus promoting DNA repair. Phosphorylation of histone H2AX

    by Atm occurs at or near the double-strand break and is required for the

    phosphorylation of 53BP1 that participates to nuclear foci organization

    and the subsequent recruitment of several Atm downstream targets.

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    1108 A. Huber et al./ DNA Repair 3 (2004) 11031108

    Acknowledgements

    We thank A. Wynshaw-Boris for the Atm-deficient mice.

    P.B. was supported by a FEBS long-term fellowship. This

    work was supported by funds from Centre National de la

    Recherche Scientifique, Association pour la Recherche Con-

    tre le Cancer, Electricit de France, Ligue Nationale Contrele Cancer and Commissariat lEnergie Atomique.

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