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Xu L, Chen Z, Chen S, Chen Y, Guo J, Zhong T, Wang L, Zhan S, Li L, Zhang H, Cao J. An Identification of Functional Genetic Variants in B4GALNT2 Gene and Their Association with Growth Traits in Goats. Genes (Basel) 2024; 15:330. [PMID: 38540389 PMCID: PMC10970026 DOI: 10.3390/genes15030330] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2024] [Revised: 02/27/2024] [Accepted: 02/29/2024] [Indexed: 06/14/2024] Open
Abstract
β-1,4-N-acetylgalactosamine transferase 2 (B4GALNT2) is a vital candidate gene that affects the growth traits in sheep. However, whether it has the same function in goats remains to be investigated further. This study selected 348 Nanjiang Yellow goats, screened all exons, and conserved non-coding regions of the B4GALNT2 gene for single-nucleotide polymorphisms (SNPs). Our results revealed the presence of a synonymous mutation, rs672215506, within the exon of the B4GALNT2 gene in the Nanjiang Yellow goat population. The mutation resulted in a decrease in the mRNA stability of the B4GALNT2 gene. The results of SNP detection of the conserved non-coding region of the B4GALNT2 gene showed five potential regulatory SNPs in the Nanjiang Yellow goat population. Except for rs66095343, the ~500 bp fragments of the other four SNPs (rs649127714, rs649573228, rs652899012, and rs639183528) significantly increased the luciferase activity both in goat skeletal muscle satellite cells (MuSCs) and 293T cells. The genetic diversity indexes indicated low or intermediate levels for all six SNPs analyzed, and the genotype frequencies were in Hardy-Weinberg equilibrium. Association analysis showed that rs660965343, rs649127714, and rs649573228 significantly correlate with growth traits in the later stage of growth and development of Nanjiang Yellow goats. The haplotype combinations of H2H3 and H2H2 had higher body weight and greater body size. Moreover, H2H2 haplotype combinations significantly correlated with the litter size of the Nanjiang Yellow goats. The results of our study demonstrate the potential role of the B4GALNT2 gene as a functional genetic marker in the breeding programs of Nanjiang Yellow goats.
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Affiliation(s)
- Liang Xu
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
| | - Zitong Chen
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
- Xinjiang Yili Prelecture Animal Husbandry Station, Yining 835000, China
| | - Shuheng Chen
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
| | - Yu Chen
- Sichuan Nanjiang Yellow Goat Breeding Farm, Nanjiang 635600, China;
| | - Jiazhong Guo
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
| | - Tao Zhong
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
| | - Linjie Wang
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
| | - Siyuan Zhan
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
| | - Li Li
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
| | - Hongping Zhang
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
| | - Jiaxue Cao
- Key Laboratory of Livestock and Poultry Multiomics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (L.X.); (Z.C.); (S.C.); (J.G.); (T.Z.); (L.W.); (L.L.); (H.Z.)
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Bai J, Wang X, Zhao Y. Research Note: Association of insulin-like growth factor 1 receptor gene polymorphism with production performance in Savimalt and French Giant meat-type quails. Poult Sci 2023; 102:103074. [PMID: 37856909 PMCID: PMC10591003 DOI: 10.1016/j.psj.2023.103074] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2023] [Revised: 08/24/2023] [Accepted: 08/24/2023] [Indexed: 10/21/2023] Open
Abstract
This study aimed to investigate the association of insulin-like growth factor 1 receptor (IGF-1R) gene single nucleotide polymorphisms (SNPs) with growth traits and carcass traits of quail by PCR amplification and direct sequencing technology. Genomic DNA was extracted from blood samples collected from 49 female French Giant (FG) quails and 36 female Savimalt (SV) quails as part of this study. Growth traits and carcass traits were measured and assessed for IGF-1R gene analysis in the 2 meat-type quail strains. The results showed that 2 SNPs (A57G and A72T) of the IGF-1R gene were detected in the 2 quail strains. The A57G (P = 0.002) and A72T (P = 0.026) were significantly associated with breastbone length (BBL) in FG. Whereas A57G was significantly associated with chest weight (CW, P = 0.004), BBL (P = 0.009), and body length (BL, P = 0.009) in SV, while A72T was significantly associated with BBL (P = 0.014) and BL (P = 0.028) in SV. Haplotypes based on these 2 SNPs showed significant effects on BBL in FG strain (P = 0.000), and they also had significant effects on CW (P = 0.007), BBL (P = 0.004), and BL (P = 0.001) in SV strain. Additionally, A57G was significantly associated with liver rate (LR) in FG strain (P = 0.017). A72T showed significant associations with dressed carcass weight (DCW, P = 0.048) and breast muscle weight (BMW, P = 0.018) in FG strain. A57G was significantly associated with DCW (P = 0.048), whole net carcass weight (WNCW, P = 0.048), BMW (P = 0.036), and liver muscle rate (LMR, P = 0.003) in SV strain. Haplotypes also displayed significant effects on BMW (P = 0.029) and LMR (P = 0.010) in FG strain. These findings indicated that the IGF-1R gene could serve as a valuable molecular genetic marker for enhancing growth traits and carcass traits in meat-type quails.
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Affiliation(s)
- Junyan Bai
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
| | - Xinle Wang
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
| | - Yonggang Zhao
- China Animal Health and Epidemiology Center, Qingdao, Shandong 266032, China.
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Alex P, Kanakkaparambil R, Gopalakrishnan R, Ramasamy C, Thazhathuveettil A. The effect of insulin-like growth factor 1 receptor gene single nucleotide polymorphism on growth and milk production traits in two native Indian tropical goat breeds. Anim Biotechnol 2023; 34:4828-4836. [PMID: 37029727 DOI: 10.1080/10495398.2023.2197468] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/09/2023]
Abstract
Insulin like growth factor1(IGF-1) is an essential growth factor that mediates the growth-promoting functions of pituitary growth hormone. Insulin like growth factor 1 receptor (IGF1R) is a tyrosine kinase receptor that mediates the actions of IGF1. Therefore, IGF1R is a candidate gene for examining SNPs linked with growth and production traits. The objective of this study was to detect the c.546 + 179170A > T transversion in intron 2 of the gene encoding IGF1R in two goat breeds, Attappady Black and Malabari, and examine the association of this polymorphism with growth and milk production. For the identification of the SNP, the T-ARMS-PCR was utilized. All three genotypes were present in the two investigated breeds. The polymorphism was found to be significantly (p < 0.05) linked with growth traits. At birth, 3 and 6 months of age, Attappady goats with the AT genotype had significantly (p < 0.05) higher body weights than those with the AA and TT genotypes. Malabari goats with the AT genotype had significantly (p < 0.05) higher body weights at birth and at 3 months of age. The genotypes of the IGF1R gene had no effect on total or peak milk production. Therefore, this SNP could be used as a molecular marker in selection of meat-producing goat breeds.HIGHLIGHTSc.546 + 179170A > T IGF1R transversion was detected using T-ARMS-PCR in two indigenous goat breeds from Kerala.Attappady Black and Malabari goat breeds of Kerala possessed all the three genotypesIn these breeds, there was a significant correlation between this SNP, c.546 + 179170A > T IGF1R, and body weight.In both the breeds, there was no association between this SNP and milk production traits.
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Affiliation(s)
- Philip Alex
- School of Applied Animal Production and Biotechnology, College of Veterinary and Animal Sciences, Kerala Veterinary and Animal Sciences University, Thrissur, India
| | - Raji Kanakkaparambil
- Department of Veterinary Physiology, College of Veterinary and Animal Sciences, Kerala Veterinary and Animal Sciences University, Wayanad, India
| | - Radhika Gopalakrishnan
- Department of Animal Breeding, Genetics and Biostatistics, College of Veterinary and Animal Sciences, Thrissur, India
| | - Chitra Ramasamy
- Department of Animal Genetics and Breeding, Veterinary College and Research Institute, Tamil Nadu Veterinary and Animal Sciences University, Salem, India
| | - Aravindakshan Thazhathuveettil
- School of Applied Animal Production and Biotechnology, College of Veterinary and Animal Sciences, Kerala Veterinary and Animal Sciences University, Thrissur, India
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Bai J, Wang X, Li J, Wang L, Fan H, Chen M, Zeng F, Lu X, He Y. Research Note: Association of IGF-1R gene polymorphism with egg quality and carcass traits of quail (Coturnix Japonica). Poult Sci 2023; 102:102617. [PMID: 37094469 PMCID: PMC10141505 DOI: 10.1016/j.psj.2023.102617] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2023] [Revised: 02/21/2023] [Accepted: 02/22/2023] [Indexed: 03/06/2023] Open
Abstract
Insulin-like growth factor 1 receptor (IGF-1R) gene is the main effector of insulin-like growth factor (IGF), which plays an important role in growth, development and reproduction of the animal organism. This study aimed to investigate the association of IGF-1R gene single nucleotide polymorphisms (SNPs) with egg quality and carcass traits of quail by direct sequencing. In this study, genomic DNA was extracted from quail blood samples of 46 Chinese yellow (CY) quail, 49 Beijing white (BW) quail and 48 Korean (KO) quail strains. Egg quality and carcass traits were measured and used for IGF-1R gene analysis in 3 quail strains. The results showed that 2 SNPs (A57G and A72T) of the IGF-1R gene were detected in 3 quail strains. The A57G was significantly associated with yolk width (YWI) in BW strain (P < 0.05). Whereas A72T was significantly associated with egg shell thickness (EST) in BW strain (P < 0.05), and significantly associated with egg weight (EW), egg long (EL), and egg short (ES) in KO strain (P < 0.05). Haplotypes based on 2 SNPs showed significant effect on EST in 3 quail strains (P < 0.05), it also has a significant effect on EW in KO strain (P < 0.05). Meanwhile, A72T was significantly associated with liver weight (LW) and dressing percentage (DP) in 3 strains (P < 0.05). Haplotypes showed significant effect on LW (P < 0.05). Therefore, the IGF-1R gene may be a molecular genetic marker to improve egg quality and carcass traits in quails.
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Affiliation(s)
- Junyan Bai
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China.
| | - Xinle Wang
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
| | - Jingyun Li
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
| | - Longwei Wang
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
| | - Hongdeng Fan
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
| | - Mengke Chen
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
| | - Fanlin Zeng
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
| | - Xiaoning Lu
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
| | - Yuhan He
- College of Animal Science and Technology, Henan University of Science and Technology, Luoyang, Henan 471023, China
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Genetic Polymorphisms of IGF1 and IGF1R Genes and Their Effects on Growth Traits in Hulun Buir Sheep. Genes (Basel) 2022; 13:genes13040666. [PMID: 35456472 PMCID: PMC9031115 DOI: 10.3390/genes13040666] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2022] [Revised: 03/25/2022] [Accepted: 04/07/2022] [Indexed: 01/08/2023] Open
Abstract
The identification of candidate genes and genetic variations associated with growth traits is important for sheep breeding. Insulin like growth factor 1 (IGF1) and insulin like growth factor 1 receptor (IGF1R) are well-accepted candidate genes that affect animal growth and development. The current study attempted to assess the association between IGF1 and IGF1R genetic polymorphisms and growth traits in Hulun Buir sheep. To achieve this goal, we first identified three and ten single nucleotide polymorphisms (SNPs) in exons of IGF1 and IGF1R in Hulun Buir sheep and then constructed six haplotypes of IGF1R based on linkage disequilibrium, respectively. Association studies were performed between SNPs and haplotypes of IGF1 and IGF1R with twelve growth traits in a population encompassing 229 Hulun Buir sheep using a general linear model. Our result indicated three SNPs in IGF1 were significantly associated with four growth traits (p < 0.05). In IGF1R, three SNPs and two haplotype blocks were significantly associated with twelve growth traits (p < 0.05). The combined haplotype H5H5 and H5H6 in IGF1R showed the strong association with 12 superior growth traits in Hulun Buir sheep (p < 0.05). In conclusion, we identified SNPs and haplotype combinations associated with the growth traits, which provided genetic resources for marker-assisted selection (MAS) in Hulun Buir sheep breeding.
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Wang Y, Zhang C, Peng Y, Cai X, Hu X, Bosse M, Zhao Y. Whole‐genome analysis reveals the hybrid formation of Chinese indigenous DHB pigs following human migration. Evol Appl 2022; 15:501-514. [PMID: 35386394 PMCID: PMC8965386 DOI: 10.1111/eva.13366] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2021] [Revised: 12/07/2021] [Accepted: 02/20/2022] [Indexed: 12/01/2022] Open
Abstract
Hybridization is widespread in nature and is a valuable tool in domestic breeding. The DHB (DaHuaBai) pig in South China is the product of such a breeding strategy, resulting in increased body weight compared with other pigs in the surrounding area. We analyzed genomic data from 20 Chinese pig breeds and investigated the genomic architecture after breed formation of DHB. The breed showed inconsistency in genotype and body weight phenotype, in line with selection after hybridization. By quantifying introgression with a haplotype‐based approach, we proposed a two‐step introgression from large‐sized pigs into small‐sized pigs to produce DHB, consistent with the human migration events in Chinese history. Combining with gene prioritization and allele frequency analysis, we identify candidate genes that showed selection after introgression and that may affect body weight, such as IGF1R, SRC, and PCM1. Our research provides an example of a hybrid formation of domestic breeds along with human migration patterns.
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Affiliation(s)
- Yuzhan Wang
- State Key Laboratory of Agrobiotechnology College of Biological Sciences China Agricultural University Beijing 100193 China
| | - Chunyuan Zhang
- State Key Laboratory of Agrobiotechnology College of Biological Sciences China Agricultural University Beijing 100193 China
| | - Yebo Peng
- State Key Laboratory of Agrobiotechnology College of Biological Sciences China Agricultural University Beijing 100193 China
| | - Xinyu Cai
- State Key Laboratory of Agrobiotechnology College of Biological Sciences China Agricultural University Beijing 100193 China
| | - Xiaoxiang Hu
- State Key Laboratory of Agrobiotechnology College of Biological Sciences China Agricultural University Beijing 100193 China
| | - Mirte Bosse
- Animal Breeding and Genomics Centre Wageningen University Wageningen 6708 WD The Netherlands
| | - Yiqiang Zhao
- State Key Laboratory of Agrobiotechnology College of Biological Sciences China Agricultural University Beijing 100193 China
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Zhou Z, Wang M, Yang J, Liu B, Li L, Shi Y, Pu F, Xu P. Genome-wide association analysis reveals genetic variations and candidate genes associated with growth-related traits and condition factor in Takifugu bimaculatus. REPRODUCTION AND BREEDING 2021. [DOI: 10.1016/j.repbre.2021.05.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023] Open
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Grochowska E, Lisiak D, Akram MZ, Adeniyi OO, Lühken G, Borys B. Association of a polymorphism in exon 3 of the IGF1R gene with growth, body size, slaughter and meat quality traits in Colored Polish Merino sheep. Meat Sci 2020; 172:108314. [PMID: 32987303 DOI: 10.1016/j.meatsci.2020.108314] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2020] [Revised: 09/01/2020] [Accepted: 09/14/2020] [Indexed: 02/07/2023]
Abstract
This study aimed to genotype the polymorphism (c.654G > A) in the exon 3 of the insulin-like growth factor 1 receptor gene (IGF1R) and to analyze its association with growth, body size, slaughter and meat quality traits in Colored Polish Merino sheep. In total, 67 traits were analyzed. The IGF1R polymorphism was genotyped using the polymerase chain reaction single-strand conformation polymorphism (PCR-SSCP) method. The MIXED procedure of the SAS software was used to assess the genotypic effects of the polymorphism (c.654G > A) on production traits of interest. The IGF1R c.654G > A genotypes were found to have a significant effect on the average daily gain between the 56th and 78th day of life, cold carcass, leg part, leg cut, fore shank, and kidney weights, as well as eye of loin depth, intramuscular fat content, and water-holding capacity of meat. The results suggest that the studied polymorphism may provide useful information for marker-assisted selection for increased meat performance in Colored Polish Merino sheep.
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Affiliation(s)
- E Grochowska
- Department of Animal Biotechnology and Genetics, UTP University of Science and Technology, Mazowiecka 28 St, 85-084 Bydgoszcz, Poland.
| | - D Lisiak
- Department of Meat and Fat Technology, Prof. Wacław Dąbrowski Institute of Agricultural and Food Biotechnology, Rakowiecka 36 St., 02-532 Warsaw, Poland
| | - M Z Akram
- Department of Animal Production and Technologies, Niğde Ömer Halisdemir University, 51240 Niğde, Turkey
| | - O O Adeniyi
- Institute of Animal Breeding and Genetics, Justus-Liebig University, Ludwigstrasse 21, 35390 Giessen, Germany
| | - G Lühken
- Institute of Animal Breeding and Genetics, Justus-Liebig University, Ludwigstrasse 21, 35390 Giessen, Germany
| | - B Borys
- National Research Institute of Animal Production, Experimental Station Kołuda Wielka, Parkowa 1 St., 88-160 Janikowo, Poland
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Wang C, Wang S, Liu S, Cheng Y, Geng H, Yang R, Feng T, Lu G, Sun X, Song J, Hao L. Synonymous Mutations of Porcine Igf1r Extracellular Domain Affect Differentiation and Mineralization in MC3T3-E1 Cells. Front Cell Dev Biol 2020; 8:623. [PMID: 32754602 PMCID: PMC7381325 DOI: 10.3389/fcell.2020.00623] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Accepted: 06/22/2020] [Indexed: 12/27/2022] Open
Abstract
Owing to the wide application of miniature pigs in biomedicine, the formation mechanism of its short stature must be elucidated. The insulin-like growth factor 1 receptor (IGF-1R), which receives signals through the extracellular domain (ECD) binding with ligands, is crucial in regulating cell growth and bone matrix mineralization. In this study, two haplotypes of Igf1r with four synonymous mutations in the coding sequences of IGF-1R ECD between large pigs (LP) and Bama pigs (BM) were stably expressed in the Igf1r-knockout MC3T3-E1 cells and named as MC3T3-LP cells (LP group) and MC3T3-BM cells (BM group), respectively. IGF-1R expression was lower in the BM group than in the LP group both in terms of transcription and translation levels, and IGF-1R expression inhibited cell proliferation. In addition, IGF-1R expression in the BM group promoted early-stage differentiation but delayed late-stage differentiation, which not only suppressed the expression of bone-related factors but also reduced alkaline phosphatase activity and calcium deposition. Moreover, different haplotypes of Igf1r changed the stability and conformation of the protein, further affecting the binding with IGF-1. Our data indicated that the four synonymous mutations of IGF1R ECD encoded by affect gene transcription and translation, thereby further leading to differences in the downstream pathways and functional changes of osteoblasts.
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Affiliation(s)
- Chunli Wang
- College of Animal Sciences, Jilin University, Changchun, China
| | - Siyao Wang
- College of Animal Sciences, Jilin University, Changchun, China
| | - Songcai Liu
- College of Animal Sciences, Jilin University, Changchun, China
| | - Yunyun Cheng
- College of Animal Sciences, Jilin University, Changchun, China
| | - Hongwei Geng
- College of Animal Sciences, Jilin University, Changchun, China
| | - Rui Yang
- College of Animal Sciences, Jilin University, Changchun, China
| | - Tianqi Feng
- College of Animal Sciences, Jilin University, Changchun, China
| | - Guanhong Lu
- College of Animal Sciences, Jilin University, Changchun, China
| | - Xiaotong Sun
- College of Animal Sciences, Jilin University, Changchun, China
| | - Jie Song
- College of Animal Sciences, Jilin University, Changchun, China
| | - Linlin Hao
- College of Animal Sciences, Jilin University, Changchun, China
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Ciecierska A, Motyl T, Sadkowski T. Transcriptomic Profile of Primary Culture of Skeletal Muscle Cells Isolated from Semitendinosus Muscle of Beef and Dairy Bulls. Int J Mol Sci 2020; 21:E4794. [PMID: 32645861 PMCID: PMC7369917 DOI: 10.3390/ijms21134794] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2020] [Revised: 06/30/2020] [Accepted: 07/02/2020] [Indexed: 01/05/2023] Open
Abstract
The aim of the study was to identify differences in the transcriptomic profiles of primary muscle cell cultures derived from the semitendinosus muscle of bulls of beef breeds (Limousin (LIM) and Hereford (HER)) and a dairy breed (Holstein-Friesian (HF)) (n = 4 for each breed). Finding a common expression pattern for proliferating cells may point to such an early orientation of the cattle beef phenotype at the transcriptome level of unfused myogenic cells. To check this hypothesis, microarray analyses were performed. The analysis revealed 825 upregulated and 1300 downregulated transcripts similar in both beef breeds (LIM and HER) and significantly different when compared with the dairy breed (HF) used as a reference. Ontological analyses showed that the largest group of genes were involved in muscle organ development. Muscle cells of beef breeds showed higher expression of genes involved in myogenesis (including erbb-3, myf5, myog, des, igf-1, tgfb2) and those encoding proteins comprising the contractile apparatus (acta1, actc1, myh3, myh11, myl1, myl2, myl4, tpm1, tnnt2, tnnc1). The obtained results confirmed our hypothesis that the expression profile of several groups of genes is common in beef breeds at the level of proliferating satellite cells but differs from that observed in typical dairy breeds.
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Affiliation(s)
- Anna Ciecierska
- Department of Human Nutrition, Institute of Human Nutrition Sciences, Warsaw University of Life Sciences - SGGW, Nowoursynowska 159C, 02-776 Warsaw, Poland;
| | - Tomasz Motyl
- Department of Physiological Sciences, Institute of Veterinary Medicine, Warsaw University of Life Sciences - SGGW, Nowoursynowska 159, 02-776 Warsaw, Poland;
| | - Tomasz Sadkowski
- Department of Physiological Sciences, Institute of Veterinary Medicine, Warsaw University of Life Sciences - SGGW, Nowoursynowska 159, 02-776 Warsaw, Poland;
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Wang C, Liu S, Wu Q, Cheng Y, Feng T, Song J, Yang R, Geng H, Lu G, Wang S, Hao L. Porcine IGF-1R synonymous mutations in the intracellular domain affect cell proliferation and alter kinase activity. Int J Biol Macromol 2020; 152:147-153. [PMID: 32109480 DOI: 10.1016/j.ijbiomac.2020.02.281] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2019] [Revised: 02/23/2020] [Accepted: 02/24/2020] [Indexed: 01/04/2023]
Abstract
Miniature pigs are regarded as ideal organ donors for xenotransplantation into humans. Elucidating the formation mechanism of miniature pigs is important. The insulin-like growth factor 1 receptor (IGF-1R) is crucial in the regulation of cell proliferation and organismal growth. According to our previous research, the IGF-1R expression levels between large and miniature pigs showed different profiles in liver and muscle tissues. Here, five synonymous mutations of IGF-1R in the coding sequence (CDS) of intracellular domain (ICD) between large and miniature pigs were analysed by constructing expression vectors of two haplotypes and named pcDNA3.1-LP (with the CDS of IGF-1R ICD of Large White pigs, LP group) and pcDNA3.1-BM (with the CDS of IGF-1R ICD of Bama Xiang pigs, BM group). The IGF-1R of the BM group was expressed lower than that of the LP group in transcription, translation and autophosphorylation levels. The IGF-1R of the BM group also down-regulated the protein levels of p-AKT/p-ERK than that of the LP group. PK-15 and C2C12 cell proliferation were detected to further understand the function of the haplotype. Results showed that the proliferation viability of PK-15 and C2C12 cells weakened in the BM group. Moreover, the mRNA and protein stabilities of the BM group were higher than those of the LP group. Our data indicated that two haplotypes of IGF-1R CDS in ICD between large and miniature pigs altered IGF-1R expression and down-regulated AKT and ERK signalling pathways at translation levels, resulting in an inhibitory effect on PK-15 and C2C12 cell proliferation.
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Affiliation(s)
- Chunli Wang
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China
| | - Songcai Liu
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China; Five-Star Animal Health Pharmaceutical Factory of Jilin Province, 5333 Xi'an Road, Changchun, Jilin 130062, China
| | - Qingyan Wu
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China
| | - Yunyun Cheng
- Guangdong Provincial Key Laboratory of Animal Nutritional Regulation, National Engineering Research Center for Breeding Swine Industry, Guangdong Provincial Key Laboratory of Agro-Animal Genomics and Molecular Breeding, College of Animal Science, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China
| | - Tianqi Feng
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China
| | - Jie Song
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China
| | - Rui Yang
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China
| | - Hongwei Geng
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China
| | - Guanhong Lu
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China
| | - Siyao Wang
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China
| | - Linlin Hao
- College of Animal Science, Jilin University, 5333 Xi'an Road, Changchun, Jilin 130062, China.
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12
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Ma YL, Wen YF, Cao XK, Cheng J, Huang YZ, Ma Y, Hu LY, Lei CZ, Qi XL, Cao H, Chen H. Copy number variation (CNV) in the IGF1R gene across four cattle breeds and its association with economic traits. Arch Anim Breed 2019; 62:171-179. [PMID: 31807627 PMCID: PMC6852844 DOI: 10.5194/aab-62-171-2019] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2018] [Accepted: 03/27/2019] [Indexed: 01/21/2023] Open
Abstract
The insulin-like growth factor 1 receptor (IGF1R) plays a vital role in
immunomodulation and muscle and bone growth. The copy number variation (CNV) is
believed to the reason for many complex phenotypic variations. In
this paper, we statistically analyzed the copy number and the expression
profiling in different tissue types of the IGF1R gene using the
422 samples from four Chinese beef cattle breeds, and the mRNA of
IGF1R was widely expressed in nine tissue types of adult cattle (heart,
liver, kidney, muscle, fat, stomach, spleen, lung and testis). Results of CNV and growth traits indicated that the IGF1R CNV
was significantly associated with body weight and body height of Jinnan (JN)
cattle and was significantly associated with body height and hucklebone width
of Qinchuan (QC) cattle, making IGF1R CNV a promising molecular
marker to improve meat production in beef cattle breeding. Bioinformatics
predictions show that the CNV region is highly similar to the human genome,
and there are a large number of transcription factors, DNase I hypersensitive
sites, and high levels of histone acetylation, suggesting that this region may
play a role in transcriptional regulation, providing directions for further
study of the role of bovine CNV and economic traits.
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Affiliation(s)
- Yi-Lei Ma
- College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi, 712100, P. R. China
| | - Yi-Fan Wen
- College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi, 712100, P. R. China
| | - Xiu-Kai Cao
- College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi, 712100, P. R. China
| | - Jie Cheng
- College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi, 712100, P. R. China
| | - Yong-Zhen Huang
- College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi, 712100, P. R. China
| | - Yun Ma
- College of Life Sciences, Xinyang Normal University, Institute for Conservation and Utilization of Agro-Bioresources in Dabie Mountains, Xinyang, Henan, 464000, P. R. China
| | - Lin-Yong Hu
- Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, Qinghai, 810001, P. R. China
| | - Chu-Zhao Lei
- College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi, 712100, P. R. China
| | - Xing-Lei Qi
- Bureau of Animal Husbandry of Biyang County, Biyang, Henan, 463700, P. R. China
| | - Hui Cao
- Shaanxi Kingbull Animal Husbandry Co. Ltd., Yangling, Shaanxi, 712100, P. R. China
| | - Hong Chen
- College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi, 712100, P. R. China
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13
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Asadollahpour Nanaei H, Ayatollahi Mehrgardi A, Esmailizadeh A. Comparative population genomics unveils candidate genes for athletic performance in Hanoverians. Genome 2019; 62:279-285. [DOI: 10.1139/gen-2018-0151] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Equine athletes have a genetic heritage that has been evolved for millions of years, which provides an opportunity to study the genetics of locomotion pattern and performance in mammals. The Hanoverian, a breed originating in Germany, is arguably among the most athletic of horse breeds, as well as possessing a balanced character and beautiful appearance. Here, we compared the whole genomes of Hanoverian with three other horse breeds (Akhal-Teke, Franches-Montagnes, and Standardbred), using the fixation index (Fst) and cross-population composite likelihood ratio (XP-CLR) methods for testing the multi-locus allele frequency differentiation between populations. We identified 299 and 485 positively selected genes using the Fst and XP-CLR methods, respectively. Further functional analyses showed that the ACTA1 gene is potentially involved in athletic performance in the Hanoverian breed, consistent with its role observed in human population. In addition, three other loci on chromosomes 1 and 20 were identified to be potentially involved in equine physical performance. The selected candidate genes identified in this study may be useful in current breeding efforts to develop improved breeds in regard to athletic performance.
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Affiliation(s)
- Hojjat Asadollahpour Nanaei
- Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman, PB 76169-133, Iran
- Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman, PB 76169-133, Iran
| | - Ahmad Ayatollahi Mehrgardi
- Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman, PB 76169-133, Iran
- Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman, PB 76169-133, Iran
| | - Ali Esmailizadeh
- Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman, PB 76169-133, Iran
- Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman, PB 76169-133, Iran
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14
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A novel PAX7 10-bp indel variant modulates promoter activity, gene expression and contributes to different phenotypes of Chinese cattle. Sci Rep 2018; 8:1724. [PMID: 29379079 PMCID: PMC5789009 DOI: 10.1038/s41598-018-20177-8] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2017] [Accepted: 01/10/2018] [Indexed: 11/09/2022] Open
Abstract
Paired box 7 (PAX7) gene regulates the conversion of muscle satellite cells into myogenic cells and participates in multi-step processes in myogenesis. Expression levels of PAX7 are decisive for its regulatory function. Previous reports revealed that PAX7 were responsible for the developmental traits of muscle. The relationship of the PAX7 promoter variants and livestock phenotypic traits has not been fully elucidated. We detected a novel 10-bp insertion/deletion (indel) polymorphism in the bovine PAX7 promoter and revealed that the indel altered the binding of the transcriptional factor ZNF219. Luciferase reporter assay showed that deletion-deletion (Del-Del) genotype of the PAX7 gene showed 2.79-fold higher promoter activity than the insertion-insertion (Ins-Ins) genotype (P < 0.05), and ZNF219 overexpression significantly diminished the luciferase activity in Ins-Ins groups. Moreover, the expression of PAX7 and its down-stream genes were detected in fetal skeletal muscle of cattle with different PAX7 genotypes, where the Del-Del genotype also displayed high expression levels. Statistical association analysis demonstrated that this indel had significant effects on early growth traits in cattle. These findings provide a complete overview of the function of the PAX7 10-bp variant, which may have potential as a genetic marker for marker-assisted selection in improving economically significant traits of cattle.
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15
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Analysis of the relationship between insulin-like growth factor 1 receptor gene polymorphisms in Montbeliarde cows and the birth weight of their calves. ACTA VET BRNO 2016. [DOI: 10.2754/avb201685010041] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Montbeliarde is a cattle breed of combined milk and meat performance type, which unlike the other breeds is characterized by several positive features, such as better health, high resistance to mastitis, calving ease and good weight gain. The study involved a population of 163 Montbeliarde cows. In view of the substantial role of the IGF-I/IGF-IR system in growth and development, the aim of this study was to show an association between insulin-like growth factor 1 receptor gene polymorphisms in Montbeliarde cows and birth weight of their offspring. Three single nucleotide polymorphisms within the IGF1R gene were analyzed using PCR-RFLP or ACRS-PCR methods. The frequencies of the most common genotypes were as follows: CC 0.90 (IGF1R/TaiI), GG 0.77 (IGF1R/MspI) and GG 0.58 (IGF1R/TaqI). A total of 14 combinations was compared, from which due to the low frequency (n < 10) only 4 were used for calculations. In the analysed herd, the mean body weight of calves regardless of the calving order was always the highest in animals with maternal CC / GG / AA combined genotype. This observation was confirmed statistically both for the individual genotypes as well as in the case of cows carrying such a combination at the same time (P < 0.01). Therefore, IGF1R may be considered as a promising candidate gene for the identification of molecular markers predicting meat quality in cattle.
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16
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Szewczuk M. Polymorphism of the Insulin-like growth factor 1 receptor gene (IGF1R/e10/MspI and IGF1R/e16/RsaI) in four dairy breeds and its association with milk traits. Livest Sci 2015. [DOI: 10.1016/j.livsci.2015.09.026] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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17
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Davies KT, Tsagkogeorga G, Bennett NC, Dávalos LM, Faulkes CG, Rossiter SJ. Molecular evolution of growth hormone and insulin-like growth factor 1 receptors in long-lived, small-bodied mammals. Gene 2014; 549:228-36. [DOI: 10.1016/j.gene.2014.07.061] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2014] [Revised: 07/16/2014] [Accepted: 07/23/2014] [Indexed: 10/25/2022]
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