Combining genomic and field analyses to reveal migratory status in a burrowing owl population
Data files
Jan 08, 2024 version files 468.96 KB
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BUOW.DNA01_B2020.104SNP_assays.3loc.str
45.68 KB
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BUOW.DNA01_B2020.cmpd_geno.104SNP_assays.genepop.wF1.txt
102.64 KB
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BUOW.DNA01_B2020.cmpd_geno.104SNP_assays.NH_input.sample_prior.txt
36.20 KB
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BUOW.meta_inclSCfeathers.csv
6.12 KB
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BUOW.sim_allHybridCat.NH_input.txt
258.89 KB
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mainparams.BUOW.migr_res106ind.104SNP_assay.loc
2.65 KB
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README.md
2.09 KB
Abstract
Partial migration, in which some members of a population migrate and others do not, is a widely-occurring strategy among animal species, but studies of this behavior are impeded by the difficultly in distinguishing migrant from resident individuals. We used a combination of genomic sequencing and bird banding to determine the migratory status of individuals in a declining population of western burrowing owls (Athene cunicularia hypugaea) in northern California. We banded individuals for four consecutive years in winter and summer. Each summer we looked for birds we had banded in the winter. Using genomic analysis, we analyzed feathers from winter birds and birds found in the summer to assess migratory status and interactions between winter and summer birds. We found a pattern of migration in which birds from outside the region joined resident birds at the breeding sites in the winter, but disappeared by the next breeding season. These results fit the pattern for partial breeding migration. Although we never observed any individuals in a breeding season that we banded -in winter, genomic analysis showed that small numbers of migrants stayed into the summer and bred with resident birds to produce hybrids between residents and migrants. This interaction brings different genetic material into the small resident population, a contribution that may benefit this declining population. This work demonstrates the value of combining genomic assessments of migratory status with careful field measurements to better characterize population structure and inform management actions.
README: Combining genomic and field analyses to reveal migratory status in a burrowing owl population
https://doi.org/10.5068/D1CT14
We used a combination of genomic sequencing and bird banding to determine the migratory status of individuals in a declining population of western burrowing owls (Athene cunicularia hypugaea) in northern California. We banded individuals for four consecutive years in winter and summer. Each summer we surveyed for birds we had banded during previous winters. Using genomic analysis, we analyzed feathers from birds found in winter and summer to assess migratory status and interactions between winter and summer owls.
Description of the data and file structure
1) BUOW.DNA01_B2020.104SNP_assays.3loc.str: is the structure genotype input file that includes 106 individuals, 104 variants, and 3 location priors: 1= migrant (or not a Northern California resident), 2= resident and 3= unknown. We labeled all feathers collected as “unknown” because we were testing whether we could diagnose these individuals as migrant or resident.
2) mainparams.BUOW.migr_res106ind.104SNP_assay.loc: is the main parameter file for running structure. Structure was run 5 times for a K of 2, 104 loci and 106 individuals.
3) BUOW.DNA01_B2020.cmpd_geno.104SNP_assays.genepop.wF1.txt: The genepop file of migrants, resident and simulated F1 hybrid genotypes we used to simulate genotypes of hybrid categories using HybridLab
4) BUOW.DNA01_B2020.cmpd_geno.104SNP_assays.NH_input.sample_prior: The NewHybrids genotype input file for 106 individuals and 104 variants. We also included sample priors for known migrants and known residents.
5) BUOW.sim_allHybridCat.NH_input.txt: The NewHybrids genotype input file for all simulated hybrid categories (Pure resident, Pure migrant, F1, F2, Backcross resident, Backcross migrant). 100 genotypes of each hybrid category were simulated in HybridLab (file 3).
6) BUOW.meta_inclSCfeathers.csv: Meta data associated with the 106 individuals in structure and NewHybrids analyses.