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Comparative analysis of molecular RFLP and SNP markers in assessing and understanding the genetic diversity of various chicken breeds

Dementieva, Natalia V., Shcherbakov, Yuri S., Tyshchenko, Valentina I., Terletsky, Valeriy P., Vakhrameev, Anatoly B., Nikolaeva, Olga A., Ryabova, Anna E., Azovtseva, Anastasiia I., Mitrofanova, Olga V., Peglivanyan, Grigoriy K., and others. (2022) Comparative analysis of molecular RFLP and SNP markers in assessing and understanding the genetic diversity of various chicken breeds. Genes, 13 (10). Article Number 1876. ISSN 2073-4425. E-ISSN 2073-4425. (doi:10.3390/genes13101876) (KAR id:97470)


Monitoring the genetic diversity of small populations is important with respect to conserving rare and valuable chicken breeds, as well as discovery and innovation in germplasm research and application. Restriction fragment length polymorphisms (RFLPs), the molecular markers that underlie multilocus DNA fingerprinting (MLDF), have historically been employed for this purpose, but over the past two decades, there has been an irreversible shift toward high-throughput single-nucleotide polymorphisms (SNPs). In this study, we conducted a comparative analysis of archived MLDF results and new data from whole-genome SNP genotyping (SNPg) among 18 divergently selected breeds representing a large sample of the world gene pool. As a result, we obtained data that fit the general concept of the phylogenetic distribution of the studied breeds and compared them with RFLP and SNP markers. RFLPs were found to be useful markers for retrospective assessment of changes in the genetic architecture and variability underlying the phenotypic variation in chicken populations, especially when samples from previous generations used for MLDF are unavailable for SNPg. These results can facilitate further research necessary to assess the possibility of extrapolating previous MLDF results to study the long-term dynamics of genetic diversity in various small chicken germplasm populations over time. In general, the whole-genome characterization of populations and breeds by multiple SNP loci will further form the basis for the development and implementation of genomic selection with the aim of effective use of the genetic potential of the domestic gene pool in the poultry industry.

Item Type: Article
DOI/Identification number: 10.3390/genes13101876
Uncontrolled keywords: chicken breeds; divergent selection; genetic diversity; RFLPs; DNA fingerprinting; genome-wide SNP genotyping; phylogeny; gene pool
Subjects: Q Science > QH Natural history > QH426 Genetics
Q Science > QH Natural history > QH75 Conservation (Biology)
S Agriculture > SF Animal culture
Divisions: Divisions > Division of Natural Sciences > Centre for Interdisciplinary Studies of Reproduction
Divisions > Division of Natural Sciences > Biosciences
Signature Themes: Food Systems, Natural Resources and Environment
Depositing User: Mike Romanov
Date Deposited: 17 Oct 2022 17:44 UTC
Last Modified: 08 Sep 2023 13:11 UTC
Resource URI: (The current URI for this page, for reference purposes)

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