"The octet": Eight protein kinases that control mammalian DNA replication

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Abstract

Development of a fertilized human egg into an average sized adult requires about 29 trillion cell divisions, thereby producing enough DNA to stretch to the Sun and back 200 times (DePamphilis and Bell, 2011)! Even more amazing is the fact that throughout these mitotic cell cycles, the human genome is duplicated once and only once each time a cell divides. If a cell accidentally begins to re-replicate its nuclear DNA prior to cell division, checkpoint pathways trigger apoptosis. And yet, some cells are developmentally programmed to respond to environmental cues by switching from mitotic cell cycles to endocycles, a process in which multiple S phases occur in the absence of either mitosis or cytokinesis. Endocycles allow production of viable, differentiated, polyploid cells that no longer proliferate. What is surprising is that among the 516 (Manning et al., 2002) to 557 (BioMart web site) protein kinases encoded by the human genome, only eight regulate nuclear DNA replication directly. These are Cdk1, Cdk2, Cdk4, Cdk6, Cdk7, Cdc7, Checkpoint kinase-1 (Chk1), and Checkpoint kinase-2. Even more remarkable is the fact that only four of these enzymes (Cdk1, Cdk7, Cdc7, and Chk1) are essential for mammalian development. Here we describe how these protein kinases determine when DNA replication occurs during mitotic cell cycles, how mammalian cells switch from mitotic cell cycles to endocycles, and how cancer cells can be selectively targeted for destruction by inducing them to begin a second S phase before mitosis is complete. © 2012 de Pamphilis, de Renty, Ullah and Lee.

Figures

  • FIGURE 1 | Eight protein kinases regulate DNA replication in mammalian cells. (A) Mitotic cell cycles produce one and only one copy of the nuclear genome per cell division. Cdk7•CcnH activates Cdk1, Cdk2, Cdk4, and Cdk6. Cdk4•CcnD and Cdk6•CcnD drives cells from a quiescent state (G0) into a proliferative state. Cdk1•CcnB1 triggers mitosis. Cdc7•Dbf4 and Cdk2•CcnE initiate DNA replication. Cdk2•CcnA2 prevents DNA re-replication. Cdk1•CcnA2 prevents premature initiation during G2 phase. Chk1 inhibits Cdk1 and Cdk2 in response to either stalled replication forks or DNA damage. Chk2 inhibits Cdc7 and Cdk2 in response to double strand DNA breaks. (B) If proliferating cells attempt to re-replicate their nuclear DNA before exiting the mitotic cell cycle, the result is a random accumulation of partially re-replicated chromosomes that generates cells with >4C but <8C DNA content that undergo apoptosis. (C) Endocycles produce multiple copies of the nuclear genome in the absence of cell division. In trophoblast giant cells, Cdk2 is essential for DNA replication in the absence of Cdk1 activity, which is inhibited by p57, and Chk1 is selectively suppressed. Cdc7 and Cdk7 are essential for initiation of preIC assembly. Cdk4 and Cdk6 are assumed to be irrelevant.
  • FIGURE 2 |The activities of DDK, CDKs, and APC, and the level of the CDK-specific inhibitor p27 oscillate during continuous proliferation of human cells in culture. (A) Top panel relates changes in the activities of the anaphase-promoting complex (APC, blue line), DDK (Dbf4-dependent Cdc7 kinase, green line), and total CDKs (red line) as a function of the phase of the mitotic cell cycle. The cellular level of the CDK-specific inhibitor p27 (blue line) parallels changes in APC activity. (B) Bottom panel relates the relative changes that occur in the activities of Cdk1•CcnB (black), Cdk2•CcnE (red), and Cdk2•CcnA (blue) as a function of the phase of the mitotic cell cycle. These changes result from changes in the levels of the indicated cyclin protein, not the CDK catalytic subunit. Cyclin expression is regulated through cyclin stability rather than through transcription or translation (Morgan, 2007).
  • FIGURE 3 | Four CDK•cyclin activities regulate progress through successive phases of the mitotic cell cycle (adapted from Gerard and Goldbeter, 2009). Growth factors activate the synthesis of the transcription factor Ap1, which promotes synthesis of CcnD, which forms a reversible complex with Cdk4 and Cdk6 (Cdk4,6). The activity of Cdk4,6•CcnD, like that of Cdk1 and Cdk2, is regulated by phosphorylation. Cdk4,6•CcnD phosphorylates and thereby inactivates the retinoblastoma tumor suppressor (Rb1). This phosphorylation allows activation of the transcription factor E2f. The non-phosphorylated and monophosphorylated forms of Rb1 can form a complex with E2f, thereby inhibiting its transcriptional activity. A second phosphorylation of Rb1 by Cdk2•CcnE completely inhibits Rb1, thereby fully activating E2f. E2f up-regulates the synthesis of CcnD, CcnE, and CcnA. CcnE synthesis is induced by E2f and inhibited by Rb1-p and Rb1-pp. CcnE reversibly forms a complex with Cdk2, the activity of which is regulated by phosphorylation and dephosphorylation (Figure 3) and through association with the CDK-specific inhibitors p21 and p27 (Figure 2A). As Cdk2•CcnE accumulates, it phosphorylates p21 and p27, making them targets for ubiquitination by CRL1•Skp2. Therefore, this phosphorylation event results in ubiquitin-dependent degradation of p21 and p27 by the 26S proteasome. Similarly, phosphorylation of CcnE by Cdk2•CcnA results in ubiquitin-dependent degradation of CcnE by the 26S proteasome, thereby
  • FIGURE 4 | Site specific phosphorylation and dephosphorylation events regulate CDK•cyclin activity (reviewed in Domingo-Sananes et al., 2011). Human CDK•cyclin complexes are maintained in an inactive state through Wee1 phosphorylation of Tyr-15, and Myt1 phosphorylation of both Tyr-15 and Thr-14 adjacent to the CDK catalytic site. For example, prophase begins when the stockpile of Thr-14 and Tyr-15 phosphorylated Cdk1•CcnB is abruptly activated by Cdc25-mediated dephosphorylation of Cdk1. As Cdk1•CcnB activity appears, it catalyzes its own activation by two feedback loops. Wee1
  • Table 1 | Proteins required for replisome assembly in eukaryotes.
  • FIGURE 5 | Converting a preRC into two replisomes. In S. cerevisiae (Heller et al., 2011), MCM/Mcm2-7 helicase is loaded onto origin DNA in an inactive form during the anaphase to G1 phase transition of the mitotic cell cycle to produce a prereplication complex. DDK (Cdc7•Dbf4 kinase) phosphorylates the MCM helicase during the G1 to S phase transition, thereby allowing recruitment of Sld3 and Cdc45 proteins. The S phase CDK (Cdk1•Clb5 or Cdk1•Clb6) phosphorylates Sld2 and Sld3, thereby triggering recruitment of Sld2, Dpb11, GINS, and Pol-ε. This event activates
  • FIGURE 6 | Multiple concerted pathways prevent DNA re-replication in mammals. Once mammalian cells have entered S phase, re-replication of DNA that has already been replicated is prevented by inactivation of Orc1, Cdc6, and Cdt1 by direct Cdk2•CcnA dependent phosphorylation. In addition, Cdc6-P is localized to the cytoplasm, and both Orc1-P and Cdt1-P are substrates for the ubiquitin ligase CRL1•Skp2. Cdt1 that is not
  • Table 2 | Effect of CDK deletions on mouse development.

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de Pamphilis, M. L., de Renty, C. M., Ullah, Z., & Lee, C. Y. (2012). “The octet”: Eight protein kinases that control mammalian DNA replication. Frontiers in Physiology. https://doi.org/10.3389/fphys.2012.00368

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