The Cell Cycle and Checkpoint controls

: Toward understanding of genome maintenance mechanisms

Eishi Noguchi

Department of Biochemistry and Molecular Biology

Drexel University College of Medicine

What is the Cell Cycle?

The cell cycle is required for cell growth and cell division into two daughter cells. A eukaryotic cell cannot divide unless it replicates its genome (DNA) and then separates the duplicated genome. To achieve these tasks cells must perform DNA synthesis and mitosis. The cell cycle is an ordered set of events. The G1 phase stands for “GAP-1” and is required for cell growth and preparation of DNA synthesis. The S-phase stands for “Synthesis” and replicates the genome. The G2 phase is “GAP-2” and needed for cell growth and preparation for mitosis. The last phase is M and it stands for “Mitosis” in which cells segregate duplicated chromosomes.


What is the Checkpoint?

The cell cycle proceeds by a defined sequence of events where late events depend upon completion of early events 1. The aim of the dependency of events is to distribute complete and accurate replicas of the genome to daughter cells 2. To monitor this dependency, cells are equipped with the checkpoints that are set at various stages of the cell cycle. When cells have DNA damages that have to be repaired, cells activate DNA damage checkpoint that arrests cell cycle. According to the cell cycle stages, DNA damage checkpoints are classified into at least 3 checkpoints: G1/S (G1) checkpoint, intra-S phase checkpoint, and G2/M checkpoint. Upon perturbation of DNA replication by drugs that interfere with DNA synthesis, DNA lesions, or obstacles on DNA, cells activate DNA replication checkpoint that arrests cell cycle at G2/M transition until DNA replication is complete. There are more checkpoints such as Spindle checkpoint and Morphogenesis checkpoint. The spindle checkpoint arrests cell cycle at M phase until all chromosomes are aligned on spindle. This checkpoint is very important for equal distribution of chromosomes. Morphogenesis checkpoint detects abnormality in cytoskeleton and arrests cell cycle at G2/M transition.


What happens if you lose one of checkpoints?

DNA replication and chromosome distribution are indispensable events in the cell cycle control. Cells must accurately copy their chromosomes, and through the process of mitosis, segregate them to daughter cells. The checkpoints are surveillance mechanism and quality control of the genome to maintain genomic integrity. Checkpoint failure often causes mutations and genomic arrangements resulting in genetic instability. Genetic instability is a major factor of birth defects and in the development of many diseases, most notably cancer. Therefore, checkpoint studies are very important for understanding mechanisms of genome maintenance as they have direct impact on the ontogeny of birth defects and the cancer biology.


DNA maintenance checkpoint

Accurate duplication of eukaryotic genome is a challenging task, given that environment of cell growth and division is rarely ideal. Cells are constantly under the stress of intrinsic and extrinsic agents that cause DNA damage or interference with DNA replication. To cope with these assaults, cells are equipped with DNA maintenance checkpoints 3 to arrest cell cycle and facilitate DNA repair pathways. DNA maintenance checkpoints include (a) the DNA damage checkpoints that recognize and respond to DNA damage, and (b) the DNA replication checkpoint that monitors the fidelity of copying DNA 3.

(a)  DNA damage checkpoint

DNA damage checkpoints ensure the fidelity of genetic information both by arresting cell cycle progression and facilitating DNA repair pathways. Studies on many different species have uncovered a network of proteins that form the DNA damage checkpoints. Central to this network are protein kinases of ATM/ATR family known as Tel1/Mec1 in budding yeast and Tel1/Rad3 in fission yeast 4. These kinases sense DNA damages and phosphorylate number of proteins that regulate cell cycle progression and DNA repair pathways 3.


(b)  DNA replication checkpoint

Accurate replication of the millions or billions of DNA base pairs in a eukaryotic genome is a remarkable achievement. This accomplishment is even more astonishing when one considers for DNA synthesis are rarely ideal. Damaged template, protein complexes bound to DNA, and poor supply of dNTPs are among the many obstacles that must be overcome to replicate genome. All of these situations can stall replication forks. Stalled forks pose grave threats to genome integrity because they can rearrange, break, or collapse through disassembly of the replication complex 5. The pathways that respond to replication stress are signal transduction pathways that are conserved across evolution 6 7. Atop the pathways are also ATM/ATR family kinases. These kinases together with a trimeric checkpoint clamp (termed 9-1-1 complex) and five-subunit checkpoint clamp loader (Rad17-RFC2-RFC3-RFC4-RFC5) senses stalled replication forks and transmit a checkpoint signal 3. One of major functions of replication checkpoint is to prevent the onset of mitosis by regulating mitotic control proteins such as Cdc25. But perhaps the most important activity of replication checkpoint is to stabilize and protect replication forks 8. The protein kinase Cds1 (human Chk2 homolog; in human, Chk1 is a functional Cds1 homolog) is a critical effector of the replication checkpoint in the fission yeast Schizosaccharomyces pombe 9, 10. Cds1 is required to prevent stabilization of replication fork in cells treated with hydroxyurea (HU), a ribonucleotide reductase inhibitor that stalls replication by depleting dNTPs 11. In the budding yeast Saccharomyces cerevisiae, a failure to activate Rad53 (Chk2 homolog) is associated with collapse and regression of replication forks and gross chromosomal rearrangements in cells treated with HU 12-15.


Replication fork protection complex (FPC)

The DNA replication checkpoint stabilizes replication forks that have stalled at DNA adducts and other lesions that block DNA polymerases. In the absence of DNA replication checkpoint, stalled forks are thought to collapse, creating strand break that threatens genome stability and cell viability 5. Therefore, discovering how cells cope with aberrant replication forks is essential for understanding mechanisms of genome maintenance. The Chk1 and Chk2/Cds1 checkpoint kinases, which are key mediators of DNA damage and DNA replication checkpoints, are thought to be involved in cancer development 16. We found the Swi1 protein is required for survival of replication fork arrest and effective activation of Chk2 kinase in fission yeast. Swi1 forms tight complex with Swi3 protein and moves with replication forks. Swi1-Swi3 complex is also important for proficient DNA replication even in the absence of agents that cause genotoxic stress, creating single-strand DNA gaps at replication forks 11, 17. These results led us to propose Swi1-Swi3 define a replication fork protection complex (FPC) that stabilizes replication forks in a configuration that is recognized by replication checkpoint sensors11, 17. Interestingly, Tof1 protein (Budding yeast Swi1 homolog) has been reported to have similar functions. Tof1 is also involved in Rad53 (Chk2 homolog) activation and travels with replication fork 18, 19. Tof1 is needed to restrain fork progression when DNA synthesis is inhibited by HU indicating that Tof1 is required for coordination of DNA synthesis and replisome (replication machinery) movement 19.


FPC may be conserved across evolution

Swi1 and Tof1 belong to a large protein family that was first defined by metazoan Tim1 (Timeless) 11, 17, 20, 21. Drosophila melanogaster and mammalian Tim1s are implicated in circadian rhythmic oscillation 22, whereas the Caenorhabditis elegans Tim1 is required for proper chromosome cohesion and segregation. All species listed above have Swi3 homolgs in their genomes 20 suggesting that Swi1-Swi3 complex may be conserved amongst eukaryotes 17. It will be interesting to determine whether these conserved complexes are involved in DNA replication and maintenance of genome integrity.

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