scholarly journals Expression profiles and polymorphic identification of the <i>ACSL1</i> gene and their association with body size traits in Dezhou donkeys

2020 ◽  
Vol 63 (2) ◽  
pp. 377-386
Author(s):  
Zhenyu Lai ◽  
Fei Wu ◽  
Zihui Zhou ◽  
Mei Li ◽  
Yuan Gao ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Body Size ◽  
Association Analysis ◽  
Growth And Development ◽  
Growth Traits ◽  
Expression Profiles ◽  
Wild Genotype ◽  
Mutant Genotype ◽  
Polymorphic Loci ◽  
Genotype Ii

Abstract. Finding out the genetic mechanism of growth and development traits and the development of related molecular markers can help improve the breeding of livestock. The long-chain acyl coenzyme A synthase 1 (ACSL1) gene plays a major role in lipid synthesis and fatty acid catabolism. However, there are few studies on the ACSL1 gene polymorphism of Dezhou donkeys. This study analyzed the expression level of the ACSL1 gene in different tissues of young and adult Dezhou donkeys, as well as association analysis of four gene polymorphic loci in 450 individuals. The results showed that expression levels of the ACSL1 gene are higher in heart, liver, spleen, lung, renal, gastric and muscle tissues of adult donkeys than in those of young donkeys. In the association analysis between genotype and body size traits, the wild genotype DD at the ACSL1-1 locus in female and male donkeys was greater than the mutant genotype II (P<0.05); genotype II of ACSL1-2 was significantly higher than that of DD in withers height, body length, rump width and body weight of male donkeys (P<0.05); and ACSL1-3 showed a tendency for the wild genotype II to be greater than the mutant genotype DD in female and male donkeys (P<0.05). In addition, among the five haplotype combinations constructed, Hap3Hap3 (II-II-DD-DD) and Hap6Hap6 (DD-II-II-II) haplotype combinations were superior to other haplotype combinations in growth traits, which also indicated that the results of haplotype combination association analysis and genotype association analysis tended to be the same. In conclusion, the results of this study indicate that the polymorphic loci of the ACSL1 gene can be used as candidate molecular markers for the growth and development of Dezhou donkeys, and provide a theoretical reference for the breeding of Dezhou donkeys.

scholarly journals Multiple association analysis of loci and candidate genes that regulate body size at three growth stages in Simmental beef cattle

2020 ◽  
Author(s):  
Bingxing An ◽  
Lei Xu ◽  
Jiangwei Xia ◽  
Xiaoqiao Wang ◽  
Jian Miao ◽  
...  
Keyword(s):  
Body Size ◽  
Beef Cattle ◽  
Candidate Genes ◽  
Association Analysis ◽  
Growth Traits ◽  
Association Studies ◽  
Growth Stages ◽  
Genome Wide Association Studies ◽  
Trait Analysis ◽  
Multiple Association

Abstract Background: Body size traits as one of the main breeding selection criteria was widely used to monitor cattle growth and to evaluate the selection response. In this study, body size was defined as body height (BH), body length (BL), hip height (HH), heart size (HS), abdominal size (AS), and cannon bone size (CS). We performed genome-wide association studies (GWAS) of these traits over the course of three growth stages (6, 12 and 18 months after birth) using three statistical models, single-trait GWAS, multi-trait GWAS and LONG-GWAS. The Illumina Bovine HD 770K BeadChip was used to identify genomic single nucleotide polymorphisms (SNPs) in 1217 individuals. Results: In total, 19, 29, and 10 significant SNPs were identified by the three models, respectively. Among these, 21 genes were promising candidate genes, including SOX2, SNRPD1, RASGEF1B, EFNA5, PTBP1, SNX9, SV2C, PKDCC, SYNDIG1, AKR1E2, and PRIM2 identified by single-trait analysis; SLC37A1, LAP3, PCDH7, MANEA, and LHCGR identified by multi-trait analysis; and P2RY1, MPZL1, LINGO2, CMIP, and WSCD1 identified by LONG-GWAS. Conclusions: Multiple association analysis was performed for six growth traits at each growth stage. These findings offer valuable insights for the further investigation of potential genetic mechanism of growth traits in Simmental beef cattle.

scholarly journals Multiple association analysis of loci and candidate genes that regulate body size at three growth stages in Simmental beef cattle

2020 ◽  
Author(s):  
Bingxing An ◽  
Lei Xu ◽  
Jiangwei Xia ◽  
Xiaoqiao Wang ◽  
Jian Miao ◽  
...  
Keyword(s):  
Body Size ◽  
Beef Cattle ◽  
Candidate Genes ◽  
Association Analysis ◽  
Growth Traits ◽  
Association Studies ◽  
Growth Stages ◽  
Genome Wide Association Studies ◽  
Trait Analysis ◽  
Multiple Association

Abstract Background: Body size traits as one of the main breeding selection criteria was widely used to monitor cattle growth and to evaluate the selection response. In this study, body size was defined as body height (BH), body length (BL), hip height (HH), heart size (HS), abdominal size (AS), and cannon bone size (CS). We performed genome-wide association studies (GWAS) of these traits over the course of three growth stages (6, 12 and 18 months after birth) using three statistical models, single-trait GWAS, multi-trait GWAS and LONG-GWAS. The Illumina Bovine HD 770K BeadChip was used to identify genomic single nucleotide polymorphisms (SNPs) in 1217 individuals. Results: In total, 19, 29, and 10 significant SNPs were identified by the three models, respectively. Among these, 21 genes were promising candidate genes, including SOX2, SNRPD1, RASGEF1B, EFNA5, PTBP1, SNX9, SV2C, PKDCC, SYNDIG1, AKR1E2, and PRIM2 identified by single-trait analysis; SLC37A1, LAP3, PCDH7, MANEA, and LHCGR identified by multi-trait analysis; and P2RY1, MPZL1, LINGO2, CMIP, and WSCD1 identified by LONG-GWAS. Conclusions: Multiple association analysis was performed for six growth traits at each growth stage. These findings offer valuable insights for the further investigation of potential genetic mechanism of growth traits in Simmental beef cattle.

scholarly journals Novel InDels of GHR, GHRH, GHRHR and Their Association with Growth Traits in Seven Chinese Sheep Breeds

Animals ◽  
2020 ◽  
Vol 10 (10) ◽  
pp. 1883
Author(s):  
Mingli Wu ◽  
Haidong Zhao ◽  
Xiaoqin Tang ◽  
Qi Li ◽  
Xiaohua Yi ◽  
...  
Keyword(s):  
Body Weight ◽  
Body Size ◽  
Growth And Development ◽  
Growth Traits ◽  
Body Height ◽  
The Body ◽  
Phenotypic Traits ◽  
Mutation Site ◽  
Indel Mutation ◽  
Genotype Frequencies

The GH growth axis plays an important role in the growth and development of animals and runs through the whole life of animals. Many studies have shown that molecular mutations in key genes of the GH axis will affect the growth and development of animals. The purpose of this study was to explore the distribution characteristics of InDels of GHR, GHRH, and GHRHR in seven Chinese sheep populations, and to further explore the relationship between InDels and sheep growth traits. GHR showed high variation in Chinese sheep, and GHR-53 showed the highest minimum allele frequency (MAF). There was only one InDel mutation site in both GHRH and GHRHR. The genotype frequencies of Hu sheep (HS), Tong sheep (TS), and Lanzhou fat-tail sheep (LFTS) were quite different from other breeds. The association between GHR, GHRH, and GHRHR InDels and body size traits in seven varieties were analyzed. The results showed that there was no significant relationship between GHRH and body size traits in the seven sheep populations. There was a positive association between GHR-21 and hip height of LFSH (p < 0.05). GHR-43 reduced body height and chest depth of Small tail han sheep (STHS) and hip width of TS. GHR-44 significantly affected the body weight of HS, the body height of STHS and the head depth of TS. GHR-53 significantly reduced cannon girth of HS, chest of STHS and forehead width of TS. GHRHR-2 significantly reduced the body weight of LFHS. To sum up, this study revealed the effects of GHR, GHRH, and GHRHR InDels on sheep phenotypic traits, which indicated their potential application prospects in the genetic improvement of mutton sheep.

scholarly journals Identification and Expression Characterization of the Smad3 Gene and SNPs Associated with Growth Traits in the Hard Clam (Meretrix meretrix)

Fishes ◽  
2021 ◽  
Vol 6 (4) ◽  
pp. 83
Author(s):  
Lulu Fu ◽  
Qiudie Chi ◽  
Yongbo Bao ◽  
Hanhan Yao ◽  
Zhihua Lin ◽  
...  
Keyword(s):  
Growth And Development ◽  
Time Course ◽  
Growth Traits ◽  
Expression Profiles ◽  
Promoter Sequence ◽  
Expression Level ◽  
Hard Clam ◽  
Meretrix Meretrix ◽  
Nucleotide Polymorphisms ◽  
Expression Characterization

It has been demonstrated that the sekelsky mothers against decapentaplegic homolog 3 (Smad3) plays an important role in the growth and development of vertebrates. However, little is known about the association between the Smad3 gene and the growth traits of mollusks. In this study, Smad3 from the hard clam Meretrix meretrix (Mm-Smad3) was cloned, characterized, and screened for growth-related single nucleotide polymorphisms (SNPs) in its exons. The full-length cDNA of Mm-Smad3 was 1938 bp, encoding a protein with 428 amino acid residues. The protein sequence included an MH1 (27–135 aa) and MH2 domain (233–404 aa). Promoter analysis showed that the promoter sequence of Mm-Smad3 was 2548 bp, and the binding sites of Pit-1a, Antp, Hb, and other transcription factors are related to the growth and development of hard clams. The phylogenetic tree was divided into two major clusters, including mollusks and vertebrate. The expression level of Mm-Smad3 was predominantly detected in the mantle and foot, while extremely less expression was observed in the digestive gland. The low expression level of Mm-Smad3 was detected at the stages of unfertilized mature eggs, fertilized eggs, four-cell embryos, blastula, gastrulae, trochophore, and D-shaped larvae, whereas an opposite trend was observed regarding the highest expression at the umbo larvae stage (p < 0.05). In the mantle repair experiment, the time-course expression profiles showed that compared to the expression level at 0 h, Mm-Smad3 significantly decreased at 6 h (p < 0.05) but increased at 12 and 48 h. Further, the association analysis identified 11 SNPs in the exons of Mm-Smad3, of which three loci (c.597 C > T, c.660 C > T, c.792 A > T) were significantly related to the growth traits of clam (p < 0.05). Overall, our findings indicated that Mm-Smad3 is a growth-related gene and the detected SNP sites provide growth-related markers for molecular marker-assisted breeding of this species.

scholarly journals Multiple association analysis of loci and candidate genes that regulate body size at three growth stages in Simmental beef cattle

2020 ◽  
Author(s):  
Bingxing An ◽  
Lei Xu ◽  
Jiangwei Xia ◽  
Xiaoqiao Wang ◽  
Jian Miao ◽  
...  
Keyword(s):  
Body Size ◽  
Beef Cattle ◽  
Candidate Genes ◽  
Association Analysis ◽  
Growth Traits ◽  
Association Studies ◽  
Growth Stages ◽  
Genome Wide Association Studies ◽  
Trait Analysis ◽  
Multiple Association

Abstract Background: Body size traits as one of the main breeding selection criteria was widely used to monitor cattle growth and to evaluate the selection response. In this study, body size was defined as body height (BH), body length (BL), hip height (HH), heart size (HS), abdominal size (AS), and cannon bone size (CS). We performed genome-wide association studies (GWAS) of these traits over the course of three growth stages (6, 12 and 18 months after birth) using three statistical models, single-trait GWAS, multi-trait GWAS and LONG-GWAS. The Illumina Bovine HD 770K BeadChip was used to identify genomic single nucleotide polymorphisms (SNPs) in 1217 individuals. Results: In total, 19, 29, and 10 significant SNPs were identified by the three models, respectively. Among these, 21 genes were promising candidate genes, including SOX2, SNRPD1, RASGEF1B, EFNA5, PTBP1, SNX9, SV2C, PKDCC, SYNDIG1, AKR1E2, and PRIM2 identified by single-trait analysis; SLC37A1, LAP3, PCDH7, MANEA, and LHCGR identified by multi-trait analysis; and P2RY1, MPZL1, LINGO2, CMIP, and WSCD1 identified by LONG-GWAS. Conclusions: Multiple association analysis was performed for six growth traits at each growth stage. These findings offer valuable insights for the further investigation of potential genetic mechanism of growth traits in Simmental beef cattle.

scholarly journals Multiple association analysis of loci and candidate genes that regulate body size at three growth stages in Simmental beef cattle

2020 ◽  
Author(s):  
Bingxing An ◽  
Lei Xu ◽  
Jiangwei Xia ◽  
Xiaoqiao Wang ◽  
Jian Miao ◽  
...  
Keyword(s):  
Body Size ◽  
Beef Cattle ◽  
Candidate Genes ◽  
Association Analysis ◽  
Growth Traits ◽  
Association Studies ◽  
Growth Stages ◽  
Genome Wide Association Studies ◽  
Trait Analysis ◽  
Multiple Association

Abstract Background: Body size traits as one of the main breeding selection criteria was widely used to monitor cattle growth and to evaluate the selection response. In this study, body size was defined as body height (BH), body length (BL), hip height (HH), heart size (HS), abdominal size (AS), and cannon bone size (CS). We performed genome-wide association studies (GWAS) of these traits over the course of three growth stages (6, 12 and 18 months after birth) using three statistical models, single-trait GWAS, multi-trait GWAS and LONG-GWAS. The Illumina Bovine HD 770K BeadChip was used to identify genomic single nucleotide polymorphisms (SNPs) in 1217 individuals. Results: In total, 19, 29, and 10 significant SNPs were identified by the three models, respectively. Among these, 21 genes were promising candidate genes, including SOX2, SNRPD1, RASGEF1B, EFNA5, PTBP1, SNX9, SV2C, PKDCC, SYNDIG1, AKR1E2, and PRIM2 identified by single-trait analysis; SLC37A1, LAP3, PCDH7, MANEA, and LHCGR identified by multi-trait analysis; and P2RY1, MPZL1, LINGO2, CMIP, and WSCD1 identified by LONG-GWAS. Conclusions: Multiple association analysis was performed for six growth traits at each growth stage. These findings offer valuable insights for the further investigation of potential genetic mechanism of growth traits in Simmental beef cattle.

scholarly journals Multiple association analysis strategies identified loci and candidate genes for body size on three growth stages in Simmental beef cattle

2019 ◽  
Author(s):  
Bingxing An ◽  
Lei Xu ◽  
Jiangwei Xia ◽  
Tianpeng Chang ◽  
Xiaoqiao Wang ◽  
...  
Keyword(s):  
Body Size ◽  
Beef Cattle ◽  
Candidate Genes ◽  
Association Analysis ◽  
Growth Traits ◽  
Association Studies ◽  
Growth Stages ◽  
Genome Wide Association Studies ◽  
Multiple Association ◽  
Analysis Strategies

Abstract Background: Body size traits as one of the main breeding selection criteria have long since being widely used to monitor cattle growth and evaluate the selection response. Here the volume of body size is indicated by body height (BH), body length (BL), hip height (HH), heart size (HS), abdominal size (AS) and cannon bone size (CS). We performed genome-wide association studies (GWAS) for these traits to a broad spectrum of three growth stages (months 6, 12 and 18 after birth) under three statistical models: single-trait GWAS, multi-trait GWAS and LONG-GWAS. The whole genomic single nucleotide polymorphisms (SNPs) were obtained from the Illumina Bovine HD 770K BeadChip genotype on 1217 individuals. Results: In total, 19, 29, and 10 significant SNPs were identified by the three models, respectively. While 21 genes among in these loci appeared to be promising candidate genes, including SOX2, SNRPD1, RASGEF1B, EFNA5, PTBP1, SNX9, SV2C, PKDCC, SYNDIG1, AKR1E2 and PRIM2 detected by single-trait analyze; SLC37A1, LAP3, PCDH7, MANEA and LHCGR detected by multi-trait analyze; P2RY1, MPZL1, LINGO2, CMIP and WSCD1 detected by LONG-GWAS. Conclusions: Multiple association analysis strategies were performed for six growth traits on each stage. This research could offer valuable insights to further explore the potential mechanism of growth traits in Simmental beef cattle.

Expression profiles and association analysis with growth traits of the MyoG and Myf5 genes in the Jinghai yellow chicken

2014 ◽  
Vol 41 (11) ◽  
pp. 7331-7338 ◽  
Author(s):  
Zhang Genxi ◽  
Tang Ying ◽  
Zhang Tao ◽  
Wang Jinyu ◽  
Wang Yongjuan
Keyword(s):  
Association Analysis ◽  
Growth Traits ◽  
Expression Profiles ◽  
Jinghai Yellow Chicken

Exploring Molecular Markers of Preharvest Sprouting Resistance Gene Using Wheat Intact Spikes by Association Analysis

2014 ◽  
Vol 40 (10) ◽  
pp. 1725 ◽  
Author(s):  
Yu-Lei ZHU ◽  
Sheng-Xing WANG ◽  
Liang-Xia ZHAO ◽  
De-Xin ZHANG ◽  
Jian-Bang HU ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Resistance Gene ◽  
Association Analysis ◽  
Preharvest Sprouting ◽  
Sprouting Resistance ◽  
Preharvest Sprouting Resistance

scholarly journals Function of the Porcine TRPC1 Gene in Myogenesis and Muscle Growth

Cells ◽  
2021 ◽  
Vol 10 (1) ◽  
pp. 147
Author(s):  
Yu Fu ◽  
Peng Shang ◽  
Bo Zhang ◽  
Xiaolong Tian ◽  
Ruixue Nie ◽  
...  
Keyword(s):  
Transient Receptor Potential ◽  
Growth Traits ◽  
Expression Profiles ◽  
Muscle Growth ◽  
Receptor Potential ◽  
Transient Receptor Potential Channel ◽  
Nucleotide Polymorphisms ◽  
Pig Breeds ◽  
Muscle Tissues ◽  
Transient Receptor

In animals, muscle growth is a quantitative trait controlled by multiple genes. Previously, we showed that the transient receptor potential channel 1 (TRPC1) gene was differentially expressed in muscle tissues between pig breeds with divergent growth traits base on RNA-seq. Here, we characterized TRPC1 expression profiles in different tissues and pig breeds and showed that TRPC1 was highly expressed in the muscle. We found two single nucleotide polymorphisms (SNPs) (C-1763T and C-1604T) in TRPC1 that could affect the promoter region activity and regulate pig growth rate. Functionally, we used RNAi and overexpression to illustrate that TRPC1 promotes myoblast proliferation, migration, differentiation, fusion, and muscle hypertrophy while inhibiting muscle degradation. These processes may be mediated by the activation of Wnt signaling pathways. Altogether, our results revealed that TRPC1 might promote muscle growth and development and plays a key role in Wnt-mediated myogenesis.

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