Identification and Dissection of Four Major QTL Affecting Milk Fat Content in the German Holstein-Friesian Population

Wang, Xiaolong; Wurmser, Christine; Pausch, Hubert; Jung, Simone; Reinhardt, F; Tetens, Jens; Thaller, Georg; Fries, R.

doi:10.1371/journal.pone.0040711

Cited by 83 publications

(98 citation statements)

References 36 publications

(55 reference statements)

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“…The polymorphisms of AGPAT6 were highly significantly associated with the milk fat percentage estimated breeding values in the German Holstein-Friesian population, as shown in a recent research (Wang et al, 2012). The result of a study by Nafikov (2010) showed that AGPAT6 was associated significantly with large differences in the compositions of milk fat, such as concentrations of saturated fatty acids, unsaturated fatty acids, monounsaturated fatty acids, and so on.…”

Section: Introductionmentioning

confidence: 66%

Molecular cloning, sequence characterization, and gene expression profiling of a novel water buffalo (Bubalus bubalis) gene, AGPAT6

Song¹,

Huo²,

Li³

et al. 2013

Genet. Mol. Res.

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ABSTRACT. Several 1-acylglycerol-3-phosphate-O-acyltransferases (AGPATs) can acylate lysophosphatidic acid to produce phosphatidic acid. Of the eight AGPAT isoforms, AGPAT6 is a crucial enzyme for glycerolipids and triacylglycerol biosynthesis in some mammalian tissues. We amplified and identified the complete coding sequence (CDS) of the water buffalo AGPAT6 gene by using the reverse transcription-polymerase chain reaction, based on the conversed sequence information of the cattle or expressed sequence tags of other Bovidae species. This novel gene was deposited in the NCBI database (accession No. JX518941). Sequence analysis revealed that the CDS of this AGPAT6 encodes a 456-amino acid enzyme (molecular mass = 52 kDa; pI = 9.34). Water buffalo AGPAT6 contains three hydrophobic transmembrane regions and a signal 37-amino acid peptide, localized in the cytoplasm. The deduced amino acid sequences share 99, 98, 98, 97, 98, 98, 97 and 95% identity with their homologous sequences from cattle, horse, human, mouse, orangutan, pig, rat, and chicken, respectively. The phylogenetic tree analysis based on the AGPAT6 CDS showed that water buffalo has a closer genetic relationship with cattle than with other species. Tissue expression profile analysis shows that this gene is highly expressed in the mammary gland, moderately expressed in the heart, muscle, liver, and brain; weakly expressed in the pituitary gland, spleen, and lung; and almost silently expressed in the small intestine, skin, kidney, and adipose tissues. Four predicted microRNA target sites are found in the water buffalo AGPAT6 CDS. These results will establish a foundation for further insights into this novel water buffalo gene.

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Section: Introductionmentioning

confidence: 66%

Molecular cloning, sequence characterization, and gene expression profiling of a novel water buffalo (Bubalus bubalis) gene, AGPAT6

Song¹,

Huo²,

Li³

et al. 2013

Genet. Mol. Res.

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“…Significant associations involving markers within or close to other fat metabolism associated genes such as FASN, SREBPB1 and STAST5A have also been reported for milk production traits in dairy cattle [20]. In a recent study of a German Holstein-Friesian population, two highly significant polymorphisms were found to be associated with milk fat content; one of these variants is located within the promoter region of the EPS8 gene on chromosome 5 and the other variant is located near the GPAT4 gene on chromosome 27 [158].…”

Section: Candidate Genes Identified In the Key Tissues Through Associmentioning

confidence: 90%

“…Interaction of the EPS8 gene product with EGFR increases the signalling response to epidermal growth factor (EGF) [123]. The promoter SNP reported by [158] in EPS8 may mediate the binding of transcription factor TFAP2A to influence the transcription rate of EPS8. The expression of TFAP2A is correlated with the concentration of NEFA and liver triacylglycerol [158].…”

Section: Candidate Genes Identified In the Key Tissues Through Associmentioning

confidence: 99%

“…The promoter SNP reported by [158] in EPS8 may mediate the binding of transcription factor TFAP2A to influence the transcription rate of EPS8. The expression of TFAP2A is correlated with the concentration of NEFA and liver triacylglycerol [158]. It has been demonstrated that sterol regulatory element-binding proteins (SREBPs), which control the expression of genes required for the uptake and synthesis of cholesterol, fatty acid and triglycerides, are regulated by the epidermal growth factors [26].…”

Section: Candidate Genes Identified In the Key Tissues Through Associmentioning

confidence: 99%

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Tissues, Metabolic Pathways and Genes of Key Importance in Lactating Dairy Cattle

Nayeri

Stothard

2016

Springer Science Reviews

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Milk and dairy products are valuable sources of food for humans. Increased milk yield and changes in milk composition in dairy cows have been achieved through a variety of means including better nutrition, management and genetic selection. This selection can be performed without consideration of the specific genes and genetic variation involved. However, association analysis using dense SNP genotyping panels provides an approach for identifying genomic regions affecting milk production. Coupling physiological and metabolic information with association analysis results can provide greater insight into the specific genetic variants and molecular mechanisms affecting production traits as well as the potential effects of these variants on fertility in dairy cattle. To this end, this review highlights key tissues, metabolic pathways and genes of importance in lactating dairy cattle, particularly early in lactation. Physiological and metabolic adaptations in three key tissues (adipose, mammary gland and liver) are discussed, followed by the important endocrine adaptations during negative energy balance. Key genes mediating metabolic and endocrine adaptations are also highlighted. Finally, genes that account for variation in production traits are presented in relation to the tissues and processes described. Knowledge of the genes and pathways involved will be important for ongoing efforts aimed at finding other genes and variants that contribute to milk production and fertility traits. Also, a better understanding of the molecular basis of these traits may lead to more accurate genomic predictions.

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“…Conservative cattle genome regions with significant associations with milk production traits have been defined: casein cluster (CSN), diacylglycerol O-acyltransferase (DGAT1), growth hormone receptor (GHR) and others, as well as a number of not previously described population-wide mutations [20][21][22]. Studies of associations for low inheritable traits make it possible to improve breeding effectiveness by detection or elimination of genes responsible for the health and reproduction of animals, and to fix valuable genotypes in the population [23][24][25][26][27].…”

mentioning

confidence: 99%

Genome-Wide Association Study for Milk Production and Reproduction Traits in Russian Holstein Cattle Population

Sermyagin¹,

Гладырь²,

Харитонов³

et al. 2016

S-h. biol.

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A b s t r a c tGenome-wide association study (GWAS) has been proven as a powerful tool for identifying genomic variants associated with economically important traits in domestic animal species. Development of the methods for genomic evaluation opens the new opportunities in improvement of milk production and fertility traits of livestock. The objective of our study was to evaluate the wholegenome associations between single nucleotide polymorphisms (SNPs) and estimated breeding values (EBVs) for milk production and reproduction traits in Russian Holsteins. SNPs screening was performed in 195 progeny-tested and 61 young bulls using Illumina Bovine SNP50 v2 BeadChip. EBVs were calculated for milk production traits (305-d milk yield (MY), milk fat content (FC), milk protein content (PC), milk fat yield (FY) and milk protein yield (PY)) and reproduction performances (age at fist calving (CA), calving difficulty (CD), conception rate (CR), days open (DO), gestation length (GL) and interval between calving (CI)) using BLUP Sire Model approach. In total, 41370 SNPs were selected for the association analysis based on the quality control results. Direct genomic values (DGV) were calculated by GBLUP approach using genomic relationship matrix (G). Genomic EBVs (GEBVs) were calculated as combination of residual polygenic effects (EBV) with the DGV. To increase the probabilities of GWAS values we used the GEBV values for young bulls, whereas deregressed DGV values were used for progeny-tested bulls. The Bonferroni correction test for detection of significant associations and local false discovery rate (LocFdr) were used to check a type I errors in null-cases hypothesis. Heritability coefficient values for reproduction traits ranged from 0.035 for CR to 0.221 CA, whereas for milk production traits they were higher, i.e. from 0.250 for MY to 0.401 for PC. According to the Bonferroni and LocFdr tests, we have identified several high-significant SNPs, which were associated both with milk production and with fertility traits. Two SNPs with the most significant effect on MY were located on BTA17 (ARS-BFGLNGS-50172) and BTA13 (Hapmap54246-rs29017970). The association analysis for milk components revealed four SNPs at conservative regions, which were significantly associated with FC, i.e. BTA-104917-no-rs and BTB-01604502 (58 Mb, BTA9), ARS-BFGL-NGS-107379 and ARS-BFGL-NGS-4939 (1.8-2.0 Mb, BTA14), and one SNP, which was significantly associated with PC -Hapmap 43278-BTA-50082 (BTA20). Polymorphisms ARS-BFGL-BAC-7205 (BTA1) and were associated with PY. Several SNPs were found to be associated with reproduction traits, i.e. BTB-01622929 on BTA1 for CA, ARS-BFGL-NGS-89711 on BTA27 for CR, ARS-BFGL-NGS-117881 on BTA5 for DO, BTA-31636-no-rs on BTA1 and Hapmap26774-BTA-163037 on BTA27 for CI. The significant effects of SNPs explained up to more than 9.0 % of additive genetic variances. Some of the referent mutations with most significant effect were located within or close to the genes TRAFD1, DGAT1, SLC16A7, DUSP26 and CCDC58. Thus, ...

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Identification and Dissection of Four Major QTL Affecting Milk Fat Content in the German Holstein-Friesian Population

Cited by 83 publications

References 36 publications

Molecular cloning, sequence characterization, and gene expression profiling of a novel water buffalo (Bubalus bubalis) gene, AGPAT6

Molecular cloning, sequence characterization, and gene expression profiling of a novel water buffalo (Bubalus bubalis) gene, AGPAT6

Tissues, Metabolic Pathways and Genes of Key Importance in Lactating Dairy Cattle

Genome-Wide Association Study for Milk Production and Reproduction Traits in Russian Holstein Cattle Population

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