Dataset Information

Genome-wide association study reveals the genetic determinism of serum biochemical indicators in ducks.

ABSTRACT:

Background

The serum is rich in nutrients and plays an essential role in electrolyte and acid-base balance, maintaining cellular homeostasis. In addition, serum parameters have been commonly used as essential biomarkers for clinical diagnosis. However, little is known about the genetic mechanism of the serum parameters in ducks.

Results

This study measured 18 serum parameters in 320 samples of the F₂ segregating population generated by Mallard × Pekin duck. The phenotypic correlations showed a high correlation between LDH, HBDH, AST, and ALT (0.59-0.99), and higher coefficients were also observed among TP, ALB, HDL-C, and CHO (0.46-0.87). And then, we performed the GWAS to reveal the genetic basis of the 18 serum biochemical parameters in ducks. Fourteen candidate protein-coding genes were identified with enzyme traits (AST, ALP, LDH, HBDH), and 3 protein-coding genes were associated with metabolism and protein-related serum parameters (UA, TG). Moreover, the expression levels of the above candidate protein-coding genes in different stages of breast muscle and different tissues were analyzed. Furthermore, the genes located within the high-LD region (r² > 0.4 and - log₁₀(P) < 4) neighboring the significant locus also remained. Finally, 86 putative protein-coding genes were used for GO and KEGG enrichment analysis, the enzyme-linked receptor protein signaling pathway and ErbB signaling pathway deserve further focus.

Conclusions

The obtained results can contribute to new insights into blood metabolism and provide new genetic biomarkers for application in duck breeding programs.

SUBMITTER: Tang H

PROVIDER: S-EPMC9795613 | biostudies-literature | 2022 Dec

REPOSITORIES: biostudies-literature

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Genome-wide association study reveals the genetic determinism of serum biochemical indicators in ducks.

Tang Hehe H Zhang He H Liu Dapeng D Wang Zhen Z Yu Daxin D Fan Wenlei W Guo Zhanbao Z Huang Wei W Hou Shuisheng S Zhou Zhengkui Z

BMC genomics 20221227 1

<h4>Background</h4>The serum is rich in nutrients and plays an essential role in electrolyte and acid-base balance, maintaining cellular homeostasis. In addition, serum parameters have been commonly used as essential biomarkers for clinical diagnosis. However, little is known about the genetic mechanism of the serum parameters in ducks.<h4>Results</h4>This study measured 18 serum parameters in 320 samples of the F<sub>2</sub> segregating population generated by Mallard × Pekin duck. The phenotyp ...[more]

PMID: 36575369

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Project description:BackgroundBirds have various plumage color patterns, and spot is a common phenotype. Herein, we conducted genome-wide association studies (GWAS) in a population of 225 ducks with different sized black spots to reveal the genetic basis of this phenomenon.ResultsFirst, we quantified the black spot phenotype within the duck population. The results showed that the uncolored area of the body surface first appeared on the ventral side. With increasing duck age, the area of the black spots was highly conserved across the whole body surface. The GWAS results identified a 198 kb (Chr4: 10,149,651 bp to 10,348,068 bp) genetic region that was significantly associated with the black spot phenotype. The conditional GWAS and linkage disequilibrium (LD) analysis further narrowed the ultimate candidate region to 167 kb (Chr4: 10,180,939 bp to 10,348,068 bp). A key gene regulating melanoblast migration and differentiation, EDNRB2 (Endothelin B receptor-like), was found in the candidate region and having significant mRNA expression level changes in embryonic duck skin tissue with different spot sizes. The significant SNPs (single nucleotide polymorphisms) associated with the EDNRB2 gene were annotated, and two mutations (Chr4: 10,180,939 T > C and Chr4: 10,190,671 A > T) were found to result in the loss of binding sites for two trans-factors, XBP1 and cMYB. The phenotypic effect of these two mutations suggested that they can regulate the size of black spots in a dose-dependent manner, and Chr4: 10,180,939 T > C was the major allele locus.ConclusionsOur results revealed that EDNRB2 was the gene responsible for the variation in duck body surface spot size. Chr4: 10,180,939 T > C was the major allele that explained 49.5 % (dorsal side) and 32.9 % (ventral side) of the variation in duck body surface spot size, while 32.1 % (dorsal side) and 19.1 % (ventral side) of the variation could be explained by Chr4: 10,190,671 A > T. The trans-factor prediction also suggested that XBP1 and cMYB have the potential to interact with EDNRB2, providing new insights into the mechanism of action of these genes.

Dataset Information

Genome-wide association study reveals the genetic determinism of serum biochemical indicators in ducks.

Background

Results

Conclusions

Publications

Genome-wide association study reveals the genetic determinism of serum biochemical indicators in ducks.

Similar Datasets

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