Association between polymorphisms of APOB, SLC27A6, AGPAT6 and PRLR genes and milk production and quality traits in goats

Bagatoli, A.; Melo, Ana Lúcia Puerro de; Gasparino, Eliane; Rodrigues, Marcelo Teixeira; Ferreira, Lucas Batista; García, Olga Sánchez; Soares, Maria Amélia Menck

doi:10.1016/j.smallrumres.2021.106484

Cited by 5 publications

(3 citation statements)

References 42 publications

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“…Through these studies, it has been possible to identify certain genes associated with various economically important traits in goats, such as fiber productivity, including fiber color [28][29][30], meat productivity traits [31][32][33], reproduction [34][35][36], and adaptation ability [37][38][39]. Several studies have focused on identifying genes associated with milk production traits in goats, as well as exterior traits that have a greater impact on level of their development [40][41][42]. To further expand research in this direction for dairy goats, work is being undertaken to develop a new panel of liquid SNP chips at a lower cost, making them more accessible for both scientific research and future practical breeding.…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Association Study of Milk Composition in Karachai Goats

Selionova,

Trukhachev,

Aibazov

et al. 2024

Animals

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This study is first to perform a genome-wide association study (GWAS) to investigate the milk quality traits in Karachai goats. The objective of the study was to identify candidate genes associated with milk composition traits based on the identification and subsequent analysis of all possible SNPs, both genome-wide (high-confidence) and suggestive (subthreshold significance). To estimate the milk components, 22 traits were determined, including several types of fatty acids. DNA was extracted from ear tissue or blood samples. A total of 167 Karachai goats were genotyped using an Illumina GoatSNP53K BeadChip panel (Illumina Inc., San Diego, CA, USA). Overall, we identified 167 highly significant and subthreshold SNPs associated with the milk components of Karachai goats. A total of 10 SNPs were located within protein-coding genes and 33 SNPs in close proximity to them (±0.2 Mb). The largest number of genome-wide significant SNPs was found on chromosomes 2 and 8 and some of them were associated with several traits. The greatest number of genome-wide significant SNPs was identified for crude protein and lactose (6), and the smallest number—only 1 SNP—for freezing point depression. No SNPs were identified for monounsaturated and polyunsaturated fatty acids. Functional annotation of all 43 SNPs allowed us to identify 66 significant candidate genes on chromosomes 1, 2, 3, 4, 5, 8, 10, 13, 16, 18, 21, 23, 25, 26, and 27. We considered these genes potential DNA markers of the fatty acid composition of Karachai goat milk. Also, we found 12 genes that had a polygenic effect: most of them were simultaneously associated with the dry matter content and fatty acids (METTL, SLC1A 8, PHACTR1, FMO2, ECI1, PGP, ABCA3, AMDHD2). Our results suggest that the genes identified in our study affecting the milk components in Karachai goats differed from those identified in other breeds of dairy goats.

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Section: Discussionmentioning

confidence: 99%

Genome-Wide Association Study of Milk Composition in Karachai Goats

Selionova,

Trukhachev,

Aibazov

et al. 2024

Animals

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“…At the same time, the APOB gene has been associated with body growth in chickens [ 62 , 63 ]. Furthermore, a previous study carried out on goats observed that the APOB / Hae III polymorphism is linked to lactose content, lactation length, and somatic cell score, and also, the APOB / Sma I polymorphism is associated with lactation length, lactose percentage, and total yield of solids non-fat, lactose, protein, fat, and milk [ 64 ]. The gene PTPRK (protein tyrosine phosphatase receptor type K) gene has been related to chest perimeter.…”

Section: Discussionmentioning

confidence: 99%

Identification of Genomic Regions and Candidate Genes Associated with Body Weight and Body Conformation Traits in Karachai Goats

Easa

Selionova

Aibazov

et al. 2022

Genes

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The objective of this study was to identify the SNPs and candidate genes related to body weight and seven body conformation traits at the age of 8 months in the Russian aboriginal Karachai goats (n = 269) by conducting genome-wide association studies (GWAS), using genotypes generated by Goat SNP BeadChip (Illumina Inc., San Diego, CA, USA). We identified 241 SNPs, which were significantly associated with the studied traits, including 47 genome-wide SNPs (p < 10−5) and 194 suggestive SNPs (p < 10−4), distributed among all goat autosomes except for autosome 23. Fifty-six SNPs were common for two and more traits (1 SNP for six traits, 2 SNPs for five traits, 12 SNPs for four traits, 20 SNPs for three traits, and 21 SNPs for two traits), while 185 SNPs were associated with single traits. Structural annotation within a window of 0.4 Mb (±0.2 Mb from causal SNPs) revealed 238 candidate genes. The largest number of candidate genes was identified at Chr13 (33 candidate genes for the five traits). The genes identified in our study were previously reported to be associated with growth-related traits in different livestock species. The most significant genes for body weight were CRADD, HMGA2, MSRB3, MAX, HACL1 and RAB15, which regulate growth processes, body sizes, fat deposition, and average daily gains. Among them, the HMGA2 gene is a well-known candidate for prenatal and early postnatal development, and the MSRB3 gene is proposed as a candidate gene affecting the growth performance. APOB, PTPRK, BCAR1, AOAH and ASAH1 genes associated with withers height, rump height and body length, are involved in various metabolic processes, including fatty acid metabolism and lipopolysaccharide catabolism. In addition, WDR70, ZBTB24, ADIPOQ, and SORCS3 genes were linked to chest width. KCNG4 was associated with rump height, body length and chest perimeter. The identified candidate genes can be proposed as molecular markers for growth trait selection for genetic improvement in Karachai goats.

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“…The successful implementation of several international projects on goat genome research, the development of Goat 50K BeadChip and the use of genomewide associative analysis (GWAS) provided significant progress in the search for breeding prints and the identification of SNPs associated with different indicators of goat productivity [9][10][11]. The following groups of genes have been identified: controlling signs of lactic acid [12][13][14][15][16], down productivity and wool color [17,18], reproduction [19][20][21][22], as well as adaptations [23,24].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Association and Pathway Analysis of Carcass and Meat Quality Traits in Karachai Young Goats

Selionova,

Aibazov,

Sermyagin

et al. 2023

Animals

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Goats with diverse economic phenotypic traits play an important role in animal husbandry. However, the genetic mechanisms underlying complex phenotypic traits are unclear in goats. Genomic studies of variations provided a lens to identify functional genes. The work aimed to search for candidate genes related to body measurements and body weight of Karachai goats and develop an experimental PCR-RV test system for genotyping significant SNPs. Comparison of GWAS results for ages 4 and 8 months revealed 58 common SNPs for significant genotypes. 11 common SNPs were identified for body weight, 4 SNPs—for group of traits withers height, rump height, body length, 2 SNPs—for withers height and rump height, 1 SNP—for body length and chest depth. Structural annotation of genomic regions covering a window of ±0.20 Mb showed the presence of 288 genes; 52 of them had the described functions in accordance with gene ontology. The main molecular functions of proteins encoded by these genes are the regulation of transcription, cell proliferation, angiogenesis, body growth, fatty acid and lipid metabolism, nervous system development, and spermatogenesis. SNPs common to body weight and localized within a window of ±200 kb from the structural genes CRADD, HMGA2, MSRB3, FUT8, MAX, and RAB15 were selected to create a test system. The study of meat productivity after slaughter and chemical analysis of muscle tissue in Karachai goats at the age of 8 months of different genotypes according to the identified SNPs revealed that rs268269710 is the most promising for further research and use in breeding. The GG genotype is associated with a larger live weight of animals, a larger carcass yield, the content of the boneless part in it, and the ratio of protein and adipose tissue in meat preferred for dietary nutrition. These results will contribute to the genetic improvement of Karachai goats.

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Association between polymorphisms of APOB, SLC27A6, AGPAT6 and PRLR genes and milk production and quality traits in goats

Cited by 5 publications

References 42 publications

Genome-Wide Association Study of Milk Composition in Karachai Goats

Genome-Wide Association Study of Milk Composition in Karachai Goats

Identification of Genomic Regions and Candidate Genes Associated with Body Weight and Body Conformation Traits in Karachai Goats

Genome-Wide Association and Pathway Analysis of Carcass and Meat Quality Traits in Karachai Young Goats

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