WIL2-NS and TK6 are two distinct human lymphoblast cell lines derived from a single male donor. WIL2-NS cells are significantly more resistant to the cytotoxic effects of X-irradiation but considerably more sensitive to induced mutation. In an effort to determine the mechanistic basis for these differences, we analyzed the physical structures of thymidine kinase (tk)-deficient mutants isolated after X-ray treatment of tk heterozygotes derived from TK6 and the more mutable WIL2-NS. Southern analysis showed that while 84% of TK6-derived mutants had arisen by loss of heterozygosity (LOH), all 106 mutants from WIL2-NS derivatives arose with LOH at tk and all but one showed LOH at other linked loci on chromosome 17. We adapted a fluorescence in situ hybridization technique to distinguish between LOH due to deletion, which results in retention of only one tk allele, and LOH due to a mechanism involving the homologous chromosome (e.g., recombination), which results in the retention of two alleles. Among the LOH mutants derived that were analyzed in this way, 9 of 26 from WIL2-NS and 11 of 17 from TK6 cell lines arose by deletion. The remaining mutants retained two copies of the tk gene and thus arose by a mechanism involving the homologous allele. Since many of these mutants arising by a homologous mechanism retained partial heterozygosity of chromosome 17, they must have arisen by recombination or gene conversion, and not chromosome loss and reduplication. Finally, the recombinational capacities of WIL2-NS and TK6 were compared in transfection assays with plasmid recombination substrates. Intermolecular recombination frequencies were greater in WIL2-NS than in TK6. These data are consistent with a model suggesting that a recombinational repair system is functioning at a higher level in WIL2-NS than in TK6; the greater mutability of the tk locus in WIL2-NS results from more frequent inter-and intramolecular recombination events.Mutations that activate oncogenes or inactivate tumor suppressors are intimately involved in carcinogenic pathways. Therefore, it is important to study factors that affect mutation rates in human cells, because this will improve our understanding of cancer risk from environmental exposures and spontaneous processes. A number of studies suggest that the frequencies at which mutations are observed at various gene targets vary tremendously, depending on their location in the genome (reviewed in reference 56). Single gene mutations that inactivate a genetic locus are theoretically equally likely to occur at hemizygous loci (+/0: one active allele, no homologous allele) or heterozygous loci (+/-: one active and one inactive allele). Very large deletions may have a higher probability of being lethal if they span hemizygous regions of the genome and include an essential locus, while loss of one copy of such loci from chromosomal regions that exist in duplicate may not be lethal. Homologous recombination or gene conversion, processes that can convert a heterozygous locus to a homozygous state (-/-, with...