Dynamic co-evolution of transposable elements and the piRNA pathway in African cichlid fishes.

Autor:	Almeida MV; Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge, CB2 1GA, UK.; Wellcome/CRUK Gurdon Institute, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QN, UK., Blumer M; Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH, UK.; These authors contributed equally., Yuan CU; Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge, CB2 1GA, UK.; Wellcome/CRUK Gurdon Institute, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QN, UK.; Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH, UK.; These authors contributed equally., Sierra P; Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH, UK., Price JL; Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge, CB2 1GA, UK.; Wellcome/CRUK Gurdon Institute, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QN, UK., Quah FX; Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge, CB2 1GA, UK.; Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH, UK., Friman A; National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA.; Biophysics Graduate Program, Institute for Physical Science and Technology, University of Maryland, College Park, Maryland 20742, USA., Dallaire A; Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge, CB2 1GA, UK.; Wellcome/CRUK Gurdon Institute, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QN, UK.; Comparative Fungal Biology, Royal Botanic Gardens Kew, Jodrell Laboratory, Richmond TW9 3DS, UK., Vernaz G; Wellcome/CRUK Gurdon Institute, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QN, UK.; Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH, UK.; Present address: Zoological Institute, Department of Environmental Sciences, University of Basel, Vesalgasse 1, Basel, 4051, Switzerland., Putman ALK; Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge, CB2 1GA, UK.; Wellcome/CRUK Gurdon Institute, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QN, UK.; Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH, UK., Smith AM; School of Natural Sciences, University of Hull, Hull, HU6 7RX, UK., Joyce DA; School of Natural Sciences, University of Hull, Hull, HU6 7RX, UK., Butter F; Institute of Molecular Biology (IMB), Quantitative Proteomics, Ackermannweg 4, Mainz, 55128, Germany.; Institute of Molecular Virology and Cell Biology, Friedrich-Loeffler-Institute, Südufer, Greifswald, 17493, Germany., Haase AD; National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA., Durbin R; Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH, UK.; Wellcome Sanger Institute, Tree of Life, Wellcome Genome Campus, Hinxton, CB10 1SA, UK., Santos ME; Department of Zoology, University of Cambridge, Downing Street, Cambridge, CB2 3EJ, UK., Miska EA; Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge, CB2 1GA, UK.; Wellcome/CRUK Gurdon Institute, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QN, UK.; Wellcome Sanger Institute, Tree of Life, Wellcome Genome Campus, Hinxton, CB10 1SA, UK.
Jazyk:	angličtina
Zdroj:	BioRxiv : the preprint server for biology [bioRxiv] 2024 Apr 01. Date of Electronic Publication: 2024 Apr 01.
DOI:	10.1101/2024.04.01.587621
Abstrakt:	East African cichlid fishes have diversified in an explosive fashion, but the (epi)genetic basis of the phenotypic diversity of these fishes remains largely unknown. Although transposable elements (TEs) have been associated with phenotypic variation in cichlids, little is known about their transcriptional activity and epigenetic silencing. Here, we describe dynamic patterns of TE expression in African cichlid gonads and during early development. Orthology inference revealed an expansion of piwil1 genes in Lake Malawi cichlids, likely driven by PiggyBac TEs. The expanded piwil1 copies have signatures of positive selection and retain amino acid residues essential for catalytic activity. Furthermore, the gonads of African cichlids express a Piwi-interacting RNA (piRNA) pathway that target TEs. We define the genomic sites of piRNA production in African cichlids and find divergence in closely related species, in line with fast evolution of piRNA-producing loci. Our findings suggest dynamic co-evolution of TEs and host silencing pathways in the African cichlid radiations. We propose that this co-evolution has contributed to cichlid genomic diversity. Competing Interests: Competing interests The authors declare no competing interests.
Databáze:	MEDLINE
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