Abstract / Description of output
Poster abstract:
Recombination is a feature of sexual reproduction that creates new combinations of alleles during meiosis. Recombination rate varies by species, population, sex, individual, and chromosome. Our objectives were to characterise recombination and other genomic features in three commercial turkey selection lines. Individuals (1889 from line 1, 2540 from line 2, and 2410 from line 3) were genotyped with a 60K SNP array. We detected crossovers with LINKPHASE3, estimated recombination rate in sliding 1 Mb windows, and identified recombination hotspots. Runs of homozygosity (ROH) were detected using PLINK v1.9 and CG and CpG content was identified using the Turkey5.1 assembly. Average male recombination was 3.9x10-8 (SE=1.0x10-9), 3.3x10-8 (3.5x10-10), and 3.5x10-8 (7.2x10-10) in lines 1, 2 and 3. Mean ROH length was 3.18 kb (SE=0.03), 3.29 (0.02), and 3.09 kb (0.02) in lines 1, 2 and 3, and likely affected our ability to identify all crossover events. We will look for associations between recombination, ROH, and CG and CpG content in sliding 1 Mb windows. Our efforts to update the turkey recombination map and characterise genomic features, could contribute to the development of methods to improve long-term selection and maintenance of genetic diversity.
Recombination is a feature of sexual reproduction that creates new combinations of alleles during meiosis. Recombination rate varies by species, population, sex, individual, and chromosome. Our objectives were to characterise recombination and other genomic features in three commercial turkey selection lines. Individuals (1889 from line 1, 2540 from line 2, and 2410 from line 3) were genotyped with a 60K SNP array. We detected crossovers with LINKPHASE3, estimated recombination rate in sliding 1 Mb windows, and identified recombination hotspots. Runs of homozygosity (ROH) were detected using PLINK v1.9 and CG and CpG content was identified using the Turkey5.1 assembly. Average male recombination was 3.9x10-8 (SE=1.0x10-9), 3.3x10-8 (3.5x10-10), and 3.5x10-8 (7.2x10-10) in lines 1, 2 and 3. Mean ROH length was 3.18 kb (SE=0.03), 3.29 (0.02), and 3.09 kb (0.02) in lines 1, 2 and 3, and likely affected our ability to identify all crossover events. We will look for associations between recombination, ROH, and CG and CpG content in sliding 1 Mb windows. Our efforts to update the turkey recombination map and characterise genomic features, could contribute to the development of methods to improve long-term selection and maintenance of genetic diversity.
| Original language | English |
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| Publication status | E-pub ahead of print - 14 Nov 2023 |
| Event | Edinburgh Next Generation of Genomic Symposium 2023 - Playfair Library, University of Edinburgh, Edinburgh, United Kingdom Duration: 14 Oct 2023 → 14 Oct 2023 |
Conference
| Conference | Edinburgh Next Generation of Genomic Symposium 2023 |
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| Country/Territory | United Kingdom |
| City | Edinburgh |
| Period | 14/10/23 → 14/10/23 |