Functional genomic tools for emerging model species

Erik Gudmunds (1) , Christopher W Wheat (2) , Abderrahman Khila (3, 1) , Arild Husby (1)

1 Uppsala University
2 Stockholm University
3 IGFL - Institut de Génomique Fonctionnelle de Lyon

Most studies in the field of ecology and evolution aiming to connect genotype to phenotype rarely validate identified loci using functional tools. Recent developments in RNA interference (RNAi) and clustered regularly interspaced palindromic repeats (CRISPR)-Cas genome editing have dramatically increased the feasibility of functional validation. However, these methods come with specific challenges when applied to emerging model organisms, including limited spatial control of gene silencing, low knock-in efficiencies, and low throughput of functional validation. Moreover, many functional studies to date do not recapitulate ecologically relevant variation, and this limits their scope for deeper insights into evolutionary processes. We therefore argue that increased use of gene editing by allelic replacement through homology-directed repair (HDR) would greatly benefit the field of ecology and evolution.

Domaines: Génomique, Transcriptomique et Protéomique [q-bio.GN]; Evolution [q-bio.PE]

Erik Gudmunds, Christopher W Wheat, Abderrahman Khila, Arild Husby. Functional genomic tools for emerging model species. Trends in Ecology & Evolution, 2022, 37 (12), pp.1104 - 1115. ⟨10.1016/j.tree.2022.07.004⟩. ⟨hal-03849857⟩