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German N.Yu., Volkova N.A., Larionova P.V., Vetokh A.N., Volkova L.A., Sermyagin A.A., Shakhin A.V., Anshakov D.V., Fisinin V.I., Zinovieva N.A. Genome-wide association studies of growth dynamics in quails Coturnix coturnix. Sel'skokhozyaistvennaya Biologiya [Agricultural Biology], 2022, Vol. 57, № 6, p. 1136-1146.
(how to cite this article)

doi: 10.15389/agrobiology.2022.6.1136eng

UDC: 636.5:636.064.6:577.21

Acknowledgements:
Supported financially by Russian Science Foundation, grant No. 21-16-00086

 

GENOME-WIDE ASSOCIATION STUDIES OF GROWTH DYNAMICS IN QUAILS Coturnix coturnix

N.Yu. German1, N.A. Volkova1✉, P.V. Larionova1, A.N. Vetokh1,
L.A. Volkova1, A.A. Sermyagin1, A.V. Shakhin1, D.V. Anshakov2,
V.I. Fisinin3, N.A. Zinovieva1

1Ernst Federal Research Center for Animal Husbandry, 60, pos. Dubrovitsy, Podolsk District, Moscow Province, 142132 Russia, e-mail ngerman9@gmail.com, natavolkova@inbox.ru (✉ corresponding author), volpolina@mail.ru, anastezuya@mail.ru,alex_sermyagin85@mail.ru, lexshahin@mail.ru, n_zinovieva@mail.ru;
2Zagorsk Experimental Pedigree Breeding and Genetics Center — Branch of Federal Scientific Center All-Russian Research and Technological Poultry Institute RAS, 44, ul. Maslieva, Sergiev Posad, Moscow Province, 141311 Russia, e-mail a89265594669@rambler.ru;
3Federal Scientific Center All-Russian Research and Technological Poultry Institute RAS, 10, ul. Ptitsegradskaya, Sergiev Posad, Moscow Province, 141311 Russia, e-mail fisinin@land.ru

ORCID:
German N.Yu. orcid.org/0000-0001-5888-4695
Shakhin A.V. orcid.org/0000-0003-4959-878X
Volkova N.A. orcid.org/0000-0001-7191-3550
Anshakov D.V. orcid.org/0000-0001-5542-0828
Larionova P.V. orcid.org/0000-0001-5047-1888
Fisinin V.I. orcid.org/0000-0003-0081-6336
Vetokh A.N. orcid.org/0000-0002-2865-5960
Zinovieva N.A. orcid.org/0000-0003-4017-6863
Sermyagin A.A. orcid.org/0000-0002-1799-6014

Received September 12, 2022

Identification and mapping genes that determine economically important traits in farm animals, including poultry, is a key task of genomic selection aimed at improving the efficiency of animal husbandry. In recent years, genome-wide association studies have identified many important candidate genes in various farm animals. Of poultry species, a significant proportion of studies on the search and identification of quantitative trait loci (QTL) was carried out on chickens. On quails, such studies are relatively few primarily due to the lack of commercial chips, which makes it difficult to search for SNPs and identify genes associated with valuable traits. To date, there is little information on the quantitative traits loci reliably associated with productivity performance of quails. The meat productivity of quails, e.g., bodyweight and growth rate, depend on feeding and keeping conditions and is genetically determined by a set of QTL. This report submits the results of a genome-wide association study of the growth rate of F2quails in a model resource population. We aimed to identify the QTL in the quail genome, to analyze the association of the found mutations with body weight parameters, and to characterize allelic variants in the studied F2 quail population. The F2 model resource population was obtained by crossing two breeds, the Japanese quails with a slow growth and the Texas quails with a fast growth. After filtering the data of GBS genotyping of the obtained F2 individuals (n = 232), the 92686 SNPs were selected for further analysis. We used PLINK 1.9 software (https://www.cog-genomics.org/plink/) options geno 0.1, mind 0.2, and maf 0.05 to analyze the associations of whole genome genotyping data with the bodyweight which reflects growth and development of birds. High variability of bodyweight was found to be typical of the created resource population. In 1-day-old quails, this indicator varied from 5 to 11 g and averaged 9±0.1 g. At the age of 2, 4, 6, and 8 weeks, the bodyweight reached 69±1, 157±2, 219±2 and 252±2 g, respectively. GWAS identified 149 SNPs that were associated with bodyweight at a high statistical significance (p < 0.00001).These SNPs are located on chromosomes 1, 2, 3, 5, 6, 8, 11, 14, 15, 20, 24, 25 and 26. On chromosomes 1, 2, 3, 5, 11 and 26, there were blocks of 2-9 SNPs linked to the same gene. Seven candidate genes (PCDH9, SMAD9, PAN4, EGFR, WDPCP, MDGA2, and PEPD) were identified that were associated (p < 0.00001) with bodyweight of quails at 8 weeks of age. We intend to further study the detected SNPs as genetic markers in breeding quails for an increased bodyweight. Additionally, associations of these SNPs with other parameters of growth intensity and productivity performance in quails will be under consideration.

Keywords: Coturnix japonica, quail, QTL, SNP, GBS, GWAS, bodyweight, growth dynamics.

 

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