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Pangenomics provides insights into the role of synanthropy in barn swallow evolution

Authors :
Simona Secomandi
Guido Roberto Gallo
Marcella Sozzoni
Alessio Iannucci
Elena Galati
Linelle Abueg
Jennifer Balacco
Manuela Caprioli
William Chow
Claudio Ciofi
Joanna Collins
Olivier Fedrigo
Luca Ferretti
Arkarachai Fungtammasan
Bettina Haase
Kerstin Howe
Woori Kwak
Gianluca Lombardo
Patrick Masterson
Graziella Messina
Anders Pape Møller
Jacquelyn Mountcastle
Timothy A. Mousseau
Joan Ferrer-Obiol
Anna Olivieri
Arang Rhie
Diego Rubolini
Marielle Saclier
Roscoe Stanyon
David Stucki
Françoise Thibaud-Nissen
James Torrance
Antonio Torroni
Kristina Weber
Roberto Ambrosini
Andrea Bonisoli-Alquati
Erich D. Jarvis
Luca Gianfranceschi
Giulio Formenti
Publication Year :
2022
Publisher :
Cold Spring Harbor Laboratory, 2022.

Abstract

Insights into the evolution of non-model organisms are often limited by the lack of reference genomes. As part of the Vertebrate Genomes Project, we present a new reference genome and a pangenome produced with High-Fidelity long reads for the barn swallow Hirundo rustica. We then generated a reference-free multialignment with other bird genomes to identify genes under selection. Conservation analyses pointed at genes enriched for transcriptional regulation and neurodevelopment. The most conserved gene is CAMK2N2, with a potential role in fear memory formation. In addition, using all publicly available data, we generated a comprehensive catalogue of genetic markers. Genome-wide linkage disequilibrium scans identified potential selection signatures at multiple loci. The top candidate region comprises several genes and includes BDNF, a gene involved in stress response, fear memory formation, and tameness. We propose that the strict association with humans in this species is linked with the evolution of pathways typically under selection in domesticated taxa.

Details

Database :
OpenAIRE
Accession number :
edsair.doi...........82a058f0319f61cf953d1b6e1afa3a68
Full Text :
https://doi.org/10.1101/2022.03.28.486082