Genome-Wide Patterns of Homozygosity Reveal the Conservation Status in Five Italian Goat Populations
| Autor: | Baldassare Portolano, Marco Tolone, Matteo Cortellari, Rosalia Di Gerlando, Donata Marletta, Anna Maria Sutera, Salvatore Mastrangelo, Maria Teresa Sardina, Angelo Moscarelli, Paola Crepaldi |
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| Přispěvatelé: | Salvatore Mastrangelo, Rosalia Di Gerlando, Maria Teresa Sardina , Anna Maria Sutera , Angelo Moscarelli, Marco Tolone, Matteo Cortellari, Donata Marletta, Paola Crepaldi, Baldassare Portolano |
| Rok vydání: | 2021 |
| Předmět: |
Genetic diversity
runs of homozygosity General Veterinary genomic regions Veterinary medicine Population size inbreeding Single-nucleotide polymorphism Phenotypic trait Biology Runs of Homozygosity local goat population Breed Article Gene flow QL1-991 Evolutionary biology local goat populations SF600-1100 Animal Science and Zoology Zoology Inbreeding Genomic regions Local goat populations Runs of homozygosity |
| Zdroj: | Animals : an Open Access Journal from MDPI Animals, Vol 11, Iss 1510, p 1510 (2021) Animals Volume 11 Issue 6 |
| ISSN: | 2076-2615 |
| Popis: | The application of genomic technologies has facilitated the assessment of genomic inbreeding based on single nucleotide polymorphisms (SNPs). In this study, we computed several runs of homozygosity (ROH) parameters to investigate the patterns of homozygosity using Illumina Goat SNP50 in five Italian local populations: Argentata dell’Etna (N = 48), Derivata di Siria (N = 32), Girgentana (N = 59), Maltese (N = 16) and Messinese (N = 22). The ROH results showed well-defined differences among the populations. A total of 3687 ROH segments > 2 Mb were detected in the whole sample. The Argentata dell’Etna and Messinese were the populations with the lowest mean number of ROH and inbreeding coefficient values, which reflect admixture and gene flow. In the Girgentana, we identified an ROH pattern related with recent inbreeding that can endanger the viability of the breed due to reduced population size. The genomes of Derivata di Siria and Maltese breeds showed the presence of long ROH (> 16 Mb) that could seriously impact the overall biological fitness of these breeds. Moreover, the results confirmed that ROH parameters are in agreement with the known demography of these populations and highlighted the different selection histories and breeding schemes of these goat populations. In the analysis of ROH islands, we detected harbored genes involved with important traits, such as for milk yield, reproduction, and immune response, and are consistent with the phenotypic traits of the studied goat populations. Finally, the results of this study can be used for implementing conservation programs for these local populations in order to avoid further loss of genetic diversity and to preserve the production and fitness traits. In view of this, the availability of genomic data is a fundamental resource. |
| Databáze: | OpenAIRE |
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