Medina, F. | Search bioRxiv

bioRxiv2025

Evolutionary dynamics of the tgr gene family in Dictyostelium allows escape from Crozier's Paradox

Croziers Paradox states that genetic kin recognition will select for its own demise, and theoretical analyses over the past decades have supported this conclusion. Here we examine the molecular evolution of two kin recognition genes in the social amoeba Dictyostelium discoideum, tgrB1 and tgrC1, which enable cells to recognize and reject unrelated cells during cooperative multicellular development. Our results reveal extraordinary polymorphism in these genes, placing them amongst the most rapidly evolving genes in the genome. Co-occurring amoebae, isolated from just a few grams of soil, show highly diverged recognition alleles, indicating plentiful sequence variation that can impact social decision-making on a micro-scale. Analyses of closely related gene duplicates show dynamic evolution of the gene family as a whole, suggesting a mechanism for replenishing genetic variation lost through Croziers Paradox. Our results provide evidence that kin recognition loci can retain sufficient genetic variation in real-world settings and suggest that large gene families may be crucial to retaining genetic variation necessary to evade Croziers paradox.

evolutionary biology↗

bioRxiv2020

Poly(ADP-ribose)-binding and macroH2A mediate recruitment and functions of KDM5A at DNA lesions

The histone demethylase KDM5A removes histone H3 lysine 4 methylation, which is involved in transcription and DNA damage responses (DDR). While DDR functions of KDM5A have been identified, how KDM5A recognizes DNA lesion sites within chromatin is unknown. Here, we identify two factors that act upstream of KDM5A to promote its association with DNA damage sites. We have identified a non-canonical poly(ADP-ribose), (PAR), binding region unique to KDM5A. Loss of the PAR-binding region or treatment with PAR polymerase (PARP) inhibitors (PARPi) blocks KDM5A-PAR interactions and DNA repair functions of KDM5A. The histone variant macroH2A1.2 is also specifically required for KDM5A recruitment and functions at DNA damage sites, including homology-directed repair of DNA double-strand breaks and repression of transcription at DNA breaks. Overall, this work reveals the importance of PAR-binding and macroH2A1.2 in KDM5A recognition of damage sites that drive transcriptional and repair activities at DNA breaks within chromatin that are essential for maintaining genome integrity. SummaryThe histone demethylase KDM5A demethylates H3K4 to promote repair and transcriptional responses at DNA breaks. We identified poly(ADP-ribose)-binding and macroH2A1.2 as modulators of KDM5A association with DNA damage sites, revealing how KDM5A engages DNA breaks within chromatin.

cell biology↗