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Martin, Claudia A. 
ORCID: https://orcid.org/0000-0003-2645-0790, Sheppard, Eleanor C., Ali, Hisham A. A., Illera, Juan Carlos, Suh, Alexander ORCID: https://orcid.org/0000-0002-8979-9992, Spurgin, Lewis G. and Richardson, David S. ORCID: https://orcid.org/0000-0001-7226-9074
(2024)
Genomic landscapes of divergence among island bird populations: Evidence of parallel adaptation but at different loci?
Molecular Ecology, 33 (12).
ISSN 0962-1083
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Abstract
When populations colonise new environments, they may be exposed to novel selection pressures but also suffer from extensive genetic drift due to founder effects, small population sizes and limited interpopulation gene flow. Genomic approaches enable us to study how these factors drive divergence, and disentangle neutral effects from differentiation at specific loci due to selection. Here, we investigate patterns of genetic diversity and divergence using whole-genome resequencing (>22× coverage) in Berthelot's pipit (Anthus berthelotii), a passerine endemic to the islands of three north Atlantic archipelagos. Strong environmental gradients, including in pathogen pressure, across populations in the species range, make it an excellent system in which to explore traits important in adaptation and/or incipient speciation. First, we quantify how genomic divergence accumulates across the speciation continuum, that is, among Berthelot's pipit populations, between sub species across archipelagos, and between Berthelot's pipit and its mainland ancestor, the tawny pipit (Anthus campestris). Across these colonisation timeframes (2.1 million–ca. 8000 years ago), we identify highly differentiated loci within genomic islands of divergence and conclude that the observed distributions align with expectations for non-neutral divergence. Characteristic signatures of selection are identified in loci associated with craniofacial/bone and eye development, metabolism and immune response between population comparisons. Interestingly, we find limited evidence for repeated divergence of the same loci across the colonisation range but do identify different loci putatively associated with the same biological traits in different populations, likely due to parallel adaptation. Incipient speciation across these island populations, in which founder effects and selective pressures are strong, may therefore be repeatedly associated with morphology, metabolism and immune defence.
| Item Type: | Article |
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| Additional Information: | Data availability statement: All data and code used to perform the data analysis within this manuscript are openly available on the Dryad Digital Repository: https://doi.org/10.5061/dryad.1g1jwsv4b (Martin et al., 2024). Funding Information: This work was supported by Natural Environment Research Council (NERC) studentships awarded to CAM through the EnvEAST DTP (NE/L002582/1) and ECS through the ARIES DTP (NE/S007334/1). Genome sequencing was funded through a Norwich Research Park Science Links Seed Fund. JCI was funded by a research grant from the Spanish Ministry of Science, Innovation and Universities, and the European Regional Development Fund (PGC2018\u2010097575\u2010B\u2010I00) and by a regional GRUPIN grant from the Regional Government of Asturias (AYUD/2021/51261). |
| Uncontrolled Keywords: | birds,craniofacial evolution,divergence landscape,genomic islands,immune defence,parallel adaptation,speciation,ecology, evolution, behavior and systematics,genetics ,/dk/atira/pure/subjectarea/asjc/1100/1105 |
| Faculty \ School: | Faculty of Science > School of Biological Sciences |
| Related URLs: | |
| Depositing User: | LivePure Connector |
| Date Deposited: | 05 Nov 2024 12:30 |
| Last Modified: | 12 Nov 2024 13:31 |
| URI: | https://ueaeprints.uea.ac.uk/id/eprint/97510 |
| DOI: | 10.1111/mec.17365 |
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