Matute et al. (Reports, 17 September 2010, p. 1518 tested the theory that the number of genes involved in hybrid incompatibility increases faster than linearly. However, the method they used is inappropriate because it detects genes that are haploinsufficient in a hybrid background but that would not contribute to lethality in wild-type hybrids, thus overestimating the frequency of hybrid inviability.M atute et al.(1) tested the prediction that the number of genes involved in hybrid incompatibility increases faster than linearly with the divergence time between species. They used Drosophila melanogaster strains heterozygous for multigene deletions to screen for chromosomal regions that reduce viability in female F1 hybrids. They found many more regions that reduce viability in D. santomea hybrids (71) compared with D. simulans hybrids (10) and concluded that their data support the theory that Dobzhansky-Muller (DM) hybrid incompatibility (HI) genes accumulate exponentially (or snowball) with respect to the time of divergence. However, one confounding factor in their study is that the sample sizes were much larger in crosses with D. santomea compared with D. simulans [from table S1 in (1): n = 453 crosses with D. santomea, mean number of balancer females = 87.4, SD = 70.6; from table S2 in (1): n = 226 crosses with D. simulans, mean number of balancer females = 53.5, SD = 51.8; P = 4.04 × 10 −12 by 2-tailed t test]. There was thus substantially more power to detect deviations from a 1:1 ratio of progeny with D. santomea than with D. simulans.More fundamentally, Matute et al.'s method of screening will potentially detect regions that reduce hybrid viability due to haploinsufficiency rather than because they contain DM HI genes. The authors searched for regions that, when hemizygous for either D. simulans or D. santomea genes, reduce viability of F1 female hybrids compared with normal (fully diploid) hybrid females. Because wild-type female hybrids are never hemizygous for chromosomal regions, it is essential to consider how the putative DM HI regions identified in their screen would function in normal hybrids. If the reported viability effects only occur in hemizygous deletion hybrids, then they would never contribute to incompatibility in normal hybrids and thus do not contain DM HI genes. Matute et al. described their screen as having "uncovered" or "exposed" recessive hybrid lethality genes from either D. simulans or D. santomea. If so, then these putative recessive HI genes must also cause HI when homozygous in normal hybrids but not when heterozygous in hybrids (since F1 female hybrids would then be lethal). For a gene to cause HI when both homozygous and hemizygous, but not when heterozygous, strongly implies that the HI gene is behaving like a loss-of-function mutation in a hybrid background. It is clear, however, that many HI genes do not behave as loss-of-function mutations, because it is not how four of the best-characterized Drosophila HI loci function. These loci have the opposite property whereby the ...