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Data and R Script from: The ancestor of sharks and rays laid eggs, but ancestral state reconstructions need empirically supported traits and transparent reporting

Data files

Feb 24, 2025 version files 283.55 KB

Abstract

We recently published a study in Biological Reviews that examined the evolution of reproductive modes in chondrichthyan fishes using ancestral state reconstruction (Blackburn and Hughes 2024). While our paper was in the review process, the study by Katona et al. (2023) appeared in the Journal of Evolutionary Biology with comparable goals and methods as our own. Although these two published analyses agreed that the common ancestor of sharks and rays was oviparous, they reached dramatically different conclusions about the evolution of reproductive patterns. For example, although our study found that transformations from oviparity to viviparity were unidirectional, Katona et al. (2023) claimed multiple reversals from viviparity back to oviparity. Likewise, while our analysis concluded that lecithotrophic (“yolk-only”) viviparity probably evolved irreversibly into matrotrophy (maternal provision of nutrients), their study inferred multiple reversions from matrotrophy back to the ancestral mode. Further, we concluded that placentotrophy originated in a basal viviparous carcharhiniform shark, but their analysis supported numerous independent origins and losses of placentotrophy in the group. Overall, our analysis concluded that reproductive evolution in chondrichthyan fish involved as few as 19 reproductive mode transformations, while theirs supported ~57 such transformations.

Because our two studies drew upon similar phylogenetic sources to reconstruct traits in the same taxonomic group, such major discrepancies between our results could lead readers to infer that little that is definitive can be concluded about chondrichthyan reproductive evolution. We believe that such an inference would be unjustified. Given long-standing (e.g., Compagno 1990; Musick and Ellis 2005) and recent (Marion et al. 2024; Mull et al. 2024) interest in this topic, we undertook a detailed comparison between the two studies to bring clarity to reproductive mode evolution in sharks and rays. We have identified two factors that cast doubt on the findings of Katona et al. (2023): 1) problematic assignments of reproductive patterns to species in their analysis; and 2) ambiguous methodological procedures. We find that these aspects explain discrepancies between our analyses and that their resolution yields an evolutionary reconstruction that is more empirically justified and methodologically sound.