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The 'ORC Cycle': a Novel Pathway for Regulating Eukaryotic DNA Replication

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The 'ORC Cycle': a Novel Pathway for Regulating Eukaryotic DNA Replication Gene 310 (2003) 1–15 www.elsevier.com/locate/gene Review The ‘ORC cycle’: a novel pathway for regulating eukaryotic DNA replication Melvin L. DePamphilis* National Institute of Child Health and Human Development, Building 6/416, 9000 Rockville Pike, National Institutes of Health, Bethesda, MD 20892-2753, USA Received 20 December 2002; received in revised form 26 February 2003; accepted 12 March 2003 Received by A.J. van Wijnen Abstract The function of the ‘origin recognition complex’ (ORC) in eukaryotic cells is to select genomic sites where pre-replication complexes (pre-RCs) can be assembled. Subsequent activation of these pre-RCs results in bi-directional DNA replication that originates at or close to the ORC DNA binding sites. Recent results have revealed that one or more of the six ORC subunits is modified during the G1 to S-phase transition in such a way that ORC activity is inhibited until mitosis is complete and a nuclear membrane is assembled. In yeast, Cdk1/Clb phosphorylates ORC. In frog eggs, pre-RC assembly destabilizes ORC/chromatin sites, and ORC is eventually hyperphosphorylated and released. In mammals, the affinity of Orc1 for chromatin is selectively reduced during S-phase and restored during early G1-phase. Unbound Orc1 is ubiquitinated during S-phase and in some cases degraded. Thus, most, perhaps all, eukaryotes exhibit some manifestation of an ‘ORC cycle’ that restricts the ability of ORC to initiate pre-RC assembly to the early G1-phase of the cell cycle, making the ‘ORC cycle’ the premier step in determining when replication begins. q 2003 Published by Elsevier Science B.V. Keywords: Origin recognition complexes; Replication origins; Orc1; Cell division cycle; Ubiquitination; Nuclear structure 1. DNA replication and the cell division cycle commitment to DNA replication is the primary point at which cells regulate their division cycle. In contrast, cells in In normal cells, the cell division cycle is highly regulated G0-phase remain capable of proliferating for long periods of and consists of four easily recognized phases: G1-phase time (e.g. hepatocytes, lymphocytes). Alternatively, cells (preparation for DNA replication), S-phase (DNA replica- can undergo terminal differentiation (e.g. neurons, germ tion), G2 phase (preparation for mitosis) and M-phase cells), a state from which they do not reenter the cell (mitosis). Following mitosis, each cell must decide whether division cycle. Unregulated cell proliferation is the primary to enter G1-phase, which is a commitment to cell division, characteristic of the pathological state known as cancer. or to enter a quiescent state (G0-phase). Once cells are One critical feature of all eukaryotic cell cycles, committed to undergoing DNA replication, they must regardless of species or developmental stage, is that complete the process of cell division or die. Thus, initiation of DNA replication is limited to once per replication origin per cell division cycle. Not all origins Abbreviations: ORC, origin recognition complex; Orc1–Orc6, ORC are used during every cell cycle, but if they are, they cannot subunits; Mcm, 2–10, minichromosome maintenance proteins; Mcm(2–7), be used a second time until after cell division has occurred. heterohexameric complex of Mcm proteins 2–7; Cdc, cell division cycle protein; Cdt1, protein encoded by Cdc10 dependent transcript 1 in Presumably, this mechanism evolved to avoid the genomic Schizosaccharomyces pombe; RLF-B, Cdt1 and replication licensing instability that would invariably result if some sequences factor B are the same protein; Cdk, cyclin dependent protein kinase; Pre- were duplicated more than others and replication forks RCs, pre-replication complexes consisting of ORC, Cdc6, Cdt1 and remained during mitosis. Therefore, it is not surprising that Mcm(2–7); Sc, Saccharomyces cerevisiae;Sp,Schizosaccharomyces the proteins and sequence of events that comprise pombe; Xl, Xenopus laevis; Dm, Drosophila melanogaster. * Fax: þ1-301-480-9354. eukaryotic DNA replication are highly conserved (Bogan E-mail address: [email protected] (M.L. DePamphilis). et al., 2000; Bell and Dutta, 2002). 0378-1119/03/$ - see front matter q 2003 Published by Elsevier Science B.V. doi:10.1016/S0378-1119(03)00546-8 2 M.L. DePamphilis / Gene 310 (2003) 1–15 Eukaryotic DNA replication begins with the binding of a 2002). Pre-RCs are activated upon binding of Mcm10 six subunit ‘origin recognition complex’ (ORC) to DNA protein (Wohlschlegel et al., 2002). Cdc6 is then released by (reviewed in Bell and Dutta, 2002; outlined in Fig. 1). the cyclin dependent protein kinase, Cdk2/Cyclin A, and Proteins Cdc6 and Cdt1(RLF-B) are then required to load replaced by Cdc45 with the help of the protein kinases Mcm proteins 2–7 onto the ORC/chromatin site to form a Cdc7/Dbf4 and Cdk2/cyclin E. Cdc45 associates with DNA pre-replication complex (pre-RC). Mcm2–Mcm7 exist as a polymerase-a: DNA primase and guides it to the complex to hexameric complex [Mcm(2–7)] that appears to be the initiate RNA-primed DNA synthesis. helicase responsible for unwinding parental DNA strands. Several mechanisms have been identified that limit Presumably, there is at least one Mcm(2–7) complex per initiation of eukaryotic DNA replication to once-per-origin- replication fork, although more are possible (Edwards et al., per-cell division. In yeast, Cdc6 is phosphorylated when Fig. 1. Sequence of events during the initiation of DNA replication in mammalian chromatin. Upper panel: Metaphase chromatin from cultured, somatic mammalian cells incubated in a Xenopus egg extract. Bottom panel: DNA replication in cultured, somatic mammalian cells. In general, ORC binds to the DNA component of chromatin, but XlORC exists as a stable complex in egg extracts, whereas HsORC exists as a stable complex of Orc(2–5) to which human Orc1 and Orc6 bind only weakly. Thus, in Xenopus egg extract, the entire XlORC binds to chromatin, but in mammalian cells only the Orc1 subunit is selectively bound during the M to G1 transition (concurrent with cyclin B degradation); the remaining ORC subunits remain stably bound to chromatin throughout the cell cycle. Furthermore, in Xenopus, Cdc6 facilitates binding of ORC to hamster chromatin, but not to Xenopus sperm chromatin. In mammals, Cdc6 associates with Orc1, and both Orc1 and Cdc6 are present in mitotic cells, suggesting that an Orc1/Cdc6 complex binds either to Orc(2–5) or to Orc(2–6) complexes that are bound to chromatin. Cdt1 then brings in at least one Mcm(2–7) hexamer per replication fork. In Xenopus, ORC is released from somatic cell chromatin following stable binding of Mcm proteins. In mammals, only Orc1 is released concurrent with DNA replication. In mammals, Orc1 is also associated with some component of nuclear structure during G1-phase. Following pre-replication complex (pre-RC) assembly, DNA replication is initiated by the action of Mcm10. This allows Cdk2/cyclin A to phosphorylate and release Cdc6 and for Cdc7/Dbf4 and Cdk2/cyclin E to modify one or more proteins and allow Cdc45 to bring to the replication origin DNA polymerase-a: DNA primase, the enzyme that initiates synthesis of the first RNA-primed nascent DNA strands. This event marks the beginning of S-phase. Concomitant with DNA synthesis is the inactivation of Cdt1 by geminin, and the phosphorylation of Mcm proteins. Cdc6 and Cdt1 are released from chromatin and eventually degraded. Mcm proteins remain in the nucleus where they are weakly associated with chromatin. M.L. DePamphilis / Gene 310 (2003) 1–15 3 cells enter S-phase, released from pre-RCs, ubiquitinated budding yeast (S. cerevisiae), fission yeast (S. pombe), flies and degraded [(Drury et al., 1997; Weinreich et al., 2001) (Drosophila melanogaster, Sciara coprophila) and mam- and references therein]. When yeast enter M-phase, the mals [(Abdurashidova et al., 2003; Bell, 2002; Keller et al., Cdk1/cyclin B phosphorylates any newly synthesized Cdc6, 2002b; Kong and DePamphilis, 2002; Ladenburger et al., thereby preventing it from binding to ORC until mitosis is 2002) and references therein]. The budding yeast S. completed. The same mechanism exists in frogs and cerevisiae contains about two ORCs per replication origin mammals, except that in human cells phosphorylated [600 ORC/cell (Rowley et al., 1995); 332 origins/cell Cdc6 is transported out of the nucleus during S-phase and (Raghuraman et al., 2001)]. Since both ORC and Mcm remains in the cytoplasm during G2 and M-phases [(Jiang proteins are bound to 429 sites in the S. cerevisiae genome et al., 1999; Petersen et al., 1999; Coverley et al., 2000; (Wyrick et al., 2001), about 25% of these ORC/chromatin Mendez and Stillman, 2000; Petersen et al., 2000; sites do not initiate DNA replication. These pre-RCs are Delmolino and Dutta, 2001) and references therein]. During silenced when DNA replication forks from neighboring, the M to G1-transition, HsCdc6 is degraded and then earlier firing origins, pass through them (Santocanale et al., resynthesized later during G1-phase (Mendez and Stillman, 1999). Mammalian cells contain 104–105 molecules of 2000; Petersen et al., 2000). However, the amount of ORC per cell (Natale et al., 2000; Kreitz et al., 2001; Okuno chromatin bound Cdc6 in hamster cells appears to remain et al., 2001; Ohta et al., 2003), suggesting that they initiate constant throughout the cell cycle, with no indication of any replication, on average, once every 60–600 kb (Natale et al., degradation during G1 (Okuno et al., 2001). This difference 2000), consistent with the average size of replicons in may reflect a larger pool of Cdc6 in human cells than mammalian cells [200–300 kb; (Ockey and Saffhill, 1976; hamster cells. Nevertheless, under conditions where Cdc6 Yurov and Liapunova, 1977)]. These data suggest that most, cannot be phosphorylated and remains in the nucleus during if not all, ORCs are bound to replication origins.
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