In response to a moderate dose of radiation, asynchronous mammalian cell populations rapidly and transiently down-regulate the rate of DNA synthesis to Ϸ50% of preirradiation values. We show here that only half of the reduction in overall replication rate can be accounted for by direct inhibition of initiation at origins in S-phase cells. The other half results from the operation of a newly defined cell cycle checkpoint that functions at the G 1 ͞S transition. This checkpoint senses damage incurred at any time during the last 2 hr of G 1 and effectively prevents entry into the S period. The G 1 ͞S and S-phase checkpoints are both p53-independent and, unlike the p53-mediated G 1 checkpoint, respond rapidly to radiation, suggesting that they may represent major damagesensing mechanisms connecting the replication machinery with DNA repair pathways.Mammalian cells operate several different mechanisms for coping with DNA damage. One of these is a p53-mediated checkpoint that functions at or near the restriction point in mid-G 1 (1-6). This control either stalls cells in the G 0 ͞G 1 compartment for an extended time interval to allow for repair (7) and͞or shunts them toward an apoptotic death (8-10). A second checkpoint functions in G 2 to prevent the fragmentation of incomplete or damaged templates by the shear forces of mitosis.Neither of these pathways could protect cells that are either beyond the restriction point in G 1 or in the S phase itself at the time of radiation from replicating through single-strand breaks. However, in response to a moderate dose of ionizing radiation, the overall rate of [ 3 H]thymidine incorporation in an asynchronously growing mammalian cell culture is reduced to Ϸ50% of pre-irradiation values within 1.5-2 hr (11-15). It has been suggested that this rapid response functions by inhibiting subsequent initiation at origins of replication, while allowing forks already in progress to continue (12). Recently, this was shown directly by demonstrating the loss of replication bubbles from the amplified dihydrofolate reductase (DHFR) locus in the methotrexate-resistant Chinese hamster ovary (CHO) cell line, CHOC 400, using a two-dimensional (2D) gel replicon mapping technique (13). Since CHOC 400 cells have a mutated p53 gene (16) and lack the radiation-sensitive G 1 checkpoint (13, 16), we have proposed the existence of a p53-independent S-phase damage-sensing pathway (13).Interestingly, however, when CHOC 400 cells are collected at the beginning of the S period with either of the replication inhibitors, mimosine or aphidicolin, they are quite insensitive to a radiation challenge: the overall rate of [ 3 H]thymidine incorporation is inhibited only slightly after drug removal, and 2D gel analysis shows that the majority of DHFR origins subsequently fires normally (ref. 13; unpublished observations). Thus, it is possible that mimosine-or aphidicolinblocked cells have passed an important cell cycle checkpoint after which they are relatively refractile to DNA damage for some time period.In...