Genotyping-by-sequencing performance in selected livestock species
| Autor: | Monika Bugno-Poniewierska, Igor Jasielczuk, Artur Gurgul, Ewelina Semik-Gurgul, Agnieszka Fornal, Anna Miksza-Cybulska, Agata Piestrzyńska-Kajtoch, Tomasz Szmatoła |
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| Rok vydání: | 2019 |
| Předmět: |
0301 basic medicine
Livestock Genotyping Techniques Population genetics Single-nucleotide polymorphism Sequence Analysis DNA Computational biology Breeding Biology Polymorphism Single Nucleotide Genome DNA sequencing 03 medical and health sciences Restriction enzyme 030104 developmental biology Costs and Cost Analysis Genetics Animals Coding region Genotyping Gene |
| Zdroj: | Genomics. 111:186-195 |
| ISSN: | 0888-7543 |
| DOI: | 10.1016/j.ygeno.2018.02.002 |
| Popis: | Application of next generation sequencing for large scale genotyping in livestock is limited by high costs and challenging data analysis process. However, available restriction enzyme-based enrichment techniques like e.g. genotyping-by-sequencing (GBS) are promising tools allowing reduction of financial outlies by a high sample multiplexing and narrowing down the sequenced genome areas to the randomly distributed read tags. In this study, we tested the performance of standard, PstI endonuclease-adapted GBS protocol for population genetics in cattle, horse and sheep with application of different, including low-depth sequencing setups. It was found that the detected SNPs display desirable polymorphism parameters and are evenly scattered across the whole genome including gene coding regions. It was also shown that the SNPs can be successfully applied in population genetics, revealing the genetic differentiation of the studied breeds. The GBS approach represents a cost-effective alternative to existing genotyping methods which may find adoption in various research applications. |
| Databáze: | OpenAIRE |
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