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Adeola AC, Bello SF, Abdussamad AM, Mark AI, Sanke OJ, Onoja AB, Nneji LM, Abdullahi N, Olaogun SC, Rogo LD, Mangbon GF, Pedro SL, Hiinan MP, Mukhtar MM, Ibrahim J, Saidu H, Dawuda PM, Bala RK, Abdullahi HL, Salako AE, Kdidi S, Yahyaoui MH, Yin TT. Polymorphism of prion protein gene (PRNP) in Nigerian sheep. Prion 2023; 17:44-54. [PMID: 36892181 PMCID: PMC10012947 DOI: 10.1080/19336896.2023.2186767] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/10/2023] Open
Abstract
Polymorphism of the prion protein gene (PRNP) gene determines an animal's susceptibility to scrapie. Three polymorphisms at codons 136, 154, and 171 have been linked to classical scrapie susceptibility, although many variants of PRNP have been reported. However, no study has investigated scrapie susceptibility in Nigerian sheep from the drier agro-climate zones. In this study, we aimed to identify PRNP polymorphism in nucleotide sequences of 126 Nigerian sheep by comparing them with public available studies on scrapie-affected sheep. Further, we deployed Polyphen-2, PROVEAN, and AMYCO analyses to determine the structure changes produced by the non-synonymous SNPs. Nineteen (19) SNPs were found in Nigerian sheep with 14 being non-synonymous. Interestingly, one novel SNP (T718C) was identified. There was a significant difference (P < 0.05) in the allele frequencies of PRNP codon 154 between sheep in Italy and Nigeria. Based on the prediction by Polyphen-2, R154H was probably damaging while H171Q was benign. Contrarily, all SNPs were neutral via PROVEAN analysis while two haplotypes (HYKK and HDKK) had similar amyloid propensity of PRNP with resistance haplotype in Nigerian sheep. Our study provides valuable information that could be possibly adopted in programs targeted at breeding for scrapie resistance in sheep from tropical regions.
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Affiliation(s)
- Adeniyi C Adeola
- State Key Laboratory of Genetic Resources and Evolution & Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.,Sino-Africa Joint Research Center, Chinese Academy of Sciences, Kunming, China.,Centre for Biotechnology Research, Bayero University, Kano, Nigeria
| | - Semiu F Bello
- Department of Animal Genetics, Breeding and Reproduction, College of Animal Science, South China Agricultural University, Guangzhou, China
| | - Abdussamad M Abdussamad
- Centre for Biotechnology Research, Bayero University, Kano, Nigeria.,Department of Veterinary Physiology and Biochemistry, Faculty of Veterinary Medicine, Bayero University, Kano, Nigeria
| | - Akanbi I Mark
- Ministry of Agriculture and Rural Development, Secretariat, Ibadan, Nigeria
| | - Oscar J Sanke
- Taraba State Ministry of Agriculture and Natural Resources, Jalingo, Nigeria
| | - Anyebe B Onoja
- Department of Virology, College of Medicine, University of Ibadan, Ibadan, Nigeria
| | - Lotanna M Nneji
- Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ, USA
| | - Nasiru Abdullahi
- Department of Biochemistry, Faculty of Basic Medical Sciences, College of Health Sciences, Bayero University, Kano, Nigeria
| | - Sunday C Olaogun
- Department of Veterinary Medicine, Faculty of Veterinary Medicine, University of Ibadan, Ibadan, Nigeria
| | - Lawal D Rogo
- Department of Medical Laboratory Science, Faculty of Allied Health Sciences, College of Health Sciences, Bayero University, Kano, Nigeria
| | | | | | - Manasseh P Hiinan
- Small Ruminant Section, Solomon Kesinton Agro-Allied Limited Iperu-Remo, Ogun State, Nigeria
| | - Muhammad M Mukhtar
- Department of Biochemistry, Faculty of Basic Medical Sciences, College of Health Sciences, Bayero University, Kano, Nigeria
| | - Jebi Ibrahim
- Department of Veterinary Surgery and Theriogenology, College of Veterinary Medicine, University of Agriculture Makurdi, Makurdi, Nigeria
| | - Hayatu Saidu
- Department of Medical Laboratory Science, Faculty of Allied Health Sciences, College of Health Sciences, Bayero University, Kano, Nigeria
| | - Philip M Dawuda
- Department of Animal Science, Faculty of Agriculture, National University of Lesotho, Lesotho, Southern Africa
| | - Rukayya K Bala
- Centre for Biotechnology Research, Bayero University, Kano, Nigeria
| | - Hadiza L Abdullahi
- Department of Veterinary Physiology and Biochemistry, Faculty of Veterinary Medicine, Bayero University, Kano, Nigeria
| | - Adebowale E Salako
- Department of Animal Science, Faculty of Agriculture, University of Ibadan, Ibadan, Nigeria
| | - Samia Kdidi
- Livestock and Wildlife Laboratory, Institut des Régions Arides, Université de Gabes, Medenine, Tunisia
| | - Mohamed Habib Yahyaoui
- Livestock and Wildlife Laboratory, Institut des Régions Arides, Université de Gabes, Medenine, Tunisia
| | - Ting-Ting Yin
- State Key Laboratory of Genetic Resources and Evolution & Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China
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Wang Q, Song X, Bi Y, Zhu H, Wu X, Guo Z, Liu M, Pan C. Detection distribution of CNVs of SNX29 in three goat breeds and their associations with growth traits. Front Vet Sci 2023; 10:1132833. [PMID: 37706075 PMCID: PMC10495836 DOI: 10.3389/fvets.2023.1132833] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2022] [Accepted: 07/17/2023] [Indexed: 09/15/2023] Open
Abstract
As a member of the SNX family, the goat sorting nexin 29 (SNX29) is initially identified as a myogenesis gene. Therefore, this study aimed to examine the polymorphism in the SNX29 gene and its association with growth traits. In this study, we used an online platform to predict the structures of the SNX29 protein and used quantitative real-time PCR to detect potential copy number variation (CNV) in Shaanbei white cashmere (SBWC) goats (n = 541), Guizhou black (GB) goats (n = 48), and Nubian (NB) goats (n = 39). The results showed that goat SNX29 protein belonged to non-secretory protein. Then, five CNVs were detected, and their association with growth traits was analyzed. In SBWC goats, CNV1, CNV3, CNV4, and CNV5 were associated with chest width and body length (P < 0.05). Among them, the CNV1 individuals with gain and loss genotypes were superior to those individuals with a median genotype, but CNV4 and CNV5 of individuals with the median genotype were superior to those with the loss and gain genotypes. In addition, individuals with the gain genotype had superior growth traits in CNV3. In brief, this study suggests that the CNV of SNX29 can be used as a molecular marker in goat breeding.
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Affiliation(s)
- Qian Wang
- College of Animal Science and Technology, Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, Northwest A&F University, Yangling, Shaanxi, China
| | - Xiaoyue Song
- Shaanxi Provincial Engineering and Technology Research Center of Cashmere Goats, Yulin University, Yulin, Shaanxi, China
- Life Science Research Center, Yulin University, Yulin, Shaanxi, China
| | - Yi Bi
- College of Animal Science and Technology, Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, Northwest A&F University, Yangling, Shaanxi, China
| | - Haijing Zhu
- Shaanxi Provincial Engineering and Technology Research Center of Cashmere Goats, Yulin University, Yulin, Shaanxi, China
- Life Science Research Center, Yulin University, Yulin, Shaanxi, China
| | - Xianfeng Wu
- Institute of Animal Husbandry and Veterinary, Fujian Academy of Agricultural Sciences, Fuzhou, Fujian, China
| | - Zhengang Guo
- Animal Husbandry and Veterinary Science Institute of Bijie City, Bijie, Guizhou, China
| | - Mei Liu
- College of Animal Science and Technology, Hunan Agricultural University, Changsha, Hunan, China
| | - Chuanying Pan
- College of Animal Science and Technology, Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, Northwest A&F University, Yangling, Shaanxi, China
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Wang Q, Bi Y, Wang Z, Zhu H, Liu M, Wu X, Pan C. Goat SNX29: mRNA expression, InDel and CNV detection, and their associations with litter size. Front Vet Sci 2022; 9:981315. [PMID: 36032302 PMCID: PMC9399746 DOI: 10.3389/fvets.2022.981315] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Accepted: 07/20/2022] [Indexed: 11/17/2022] Open
Abstract
The sorting nexin 29 (SNX29) gene, a member of the SNX family, is associated with material transport and lipid metabolism. Previous studies have shown that lipid metabolism affects reproductive function in animals. Thus, we hypothesized there is a correlation between the SNX29 gene and reproductive trait. To date, studies on the relationship between the SNX29 gene and reproductive traits are limited. Therefore, the purpose of this study was to examine the polymorphism in the SNX29 gene and its correlation with litter size. Herein, the mRNA expression levels of SNX29 were assayed in various goat tissue. Surprisingly, we found that SNX29 was highly expressed in the corpus luteum, large and small follicles. This result led us to suggest that the SNX29 gene has a critical role in reproduction. We further detected potential polymorphisms in Shaanbei white cashmere (SBWC) goats, including insertion/deletion (InDel, n = 2,057) and copy number variation (CNV, n = 1,402), which were related to fertility. The 17 bp deletion (n = 1004) and the 20 bp deletion (n = 1,053) within the SNX29 gene were discovered to be significantly associated with litter size (P < 0.05), and individuals the ID genotype of P1-Del-17 bp and the DD genotype of P2-Del-20bp had larger litter size. Additionally, the four CNV loci had significant correlations with litter size (P < 0.01) in our detected population. In CNV5, individuals with the median genotype were superior compared to those with loss or gain genotype in term of litter size, and in other three CNVs showed better reproductive trait in the gain genotype. Briefly, these findings suggest that SNX29 could be used as a candidate gene for litter size in goat breeding through marker-assisted selection (MAS).
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Affiliation(s)
- Qian Wang
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Shaanxi, China
| | - Yi Bi
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Shaanxi, China
| | - Zhiying Wang
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Shaanxi, China
| | - Haijing Zhu
- Shaanxi Provincial Engineering and Technology Research Center of Cashmere Goats, Yulin University, Yulin, China
- Life Science Research Center, Yulin University, Yulin, China
| | - Mei Liu
- College of Animal Science and Technology, Hunan Agricultural University, Changsha, China
| | - Xianfeng Wu
- Institute of Animal Husbandry and Veterinary, Fujian Academy of Agricultural Sciences, Fuzhou, China
- *Correspondence: Chuanying Pan
| | - Chuanying Pan
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Shaanxi, China
- Xianfeng Wu
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Bi Y, Luo B, Zhang S, Li J, Yang Y, Lan X, Pan C. Investigation of Genetic Effects of Nucleotide Variants Within the Goat PRNT Gene on Growth Performance. Anim Biotechnol 2021; 34:321-326. [PMID: 34424814 DOI: 10.1080/10495398.2021.1964514] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Our previous study has firstly pointed that three nucleotide variants (g.-11C > T, g.117A > G, and g.149C > T) of the goat PRNT gene can significantly influence litter size. Given litter size is positively correlated with growth performance, we consider whether the PRNT gene also acts on the growth performance in goats. In this work, a correlation analysis among different litter size types and growth traits of Shaanbei white cashmere (SBWC) goats was performed, and results showed that a positive correlation did exist in our detected population (P < 0.01). Then, the association among different genotypes of three variations and goat growth performance was measured. Our results pointed to g.117A > G being significantly associated with the cannon circumference (P = 4.60E-05) while no significant effect was found between another two SNPs and growth traits after the Bonferroni's correction (P*n < 0.05). Together, this is the first report about the influence of the PRNT gene on the growth of goat and g.117A > G can be regarded as a possible DNA marker applying for MAS breeding.
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Affiliation(s)
- Yi Bi
- College of Animal Science and Technology, Northwest A&F University, Yanggling, China
| | - Bihao Luo
- College of Veterinary Medicine, Northwest A&F University, Yangling, China
| | - Shaoli Zhang
- College of Animal Science and Technology, Northwest A&F University, Yanggling, China
| | - Jie Li
- College of Animal Science and Technology, Northwest A&F University, Yanggling, China
| | - Yuta Yang
- College of Animal Science and Technology, Northwest A&F University, Yanggling, China
| | - Xianyong Lan
- College of Animal Science and Technology, Northwest A&F University, Yanggling, China
| | - Chuanying Pan
- College of Animal Science and Technology, Northwest A&F University, Yanggling, China
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Bi Y, Zhang S, Li J, He L, Kang Y, Chen H, Lan X, Pan C. The mRNA expression profile of the goat prion protein testis-specific (PRNT) gene and its associations with litter size. Theriogenology 2021; 165:69-75. [PMID: 33640588 DOI: 10.1016/j.theriogenology.2021.02.013] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2020] [Revised: 01/29/2021] [Accepted: 02/16/2021] [Indexed: 01/07/2023]
Abstract
The goat PRNT gene was initially identified as a testis-specific gene with a role in spermatogenesis. In this study, we used quantitative real-time PCR (qPCR) to first determine the mRNA expression profile of this gene in different goat tissues. Surprisingly, we found that PRNT was expressed not only in the testis but also in nine other tissues in goats. Moreover, PRNT was weakly expressed in the testis, while its expression was strongest in the ovary. These results, combined with those of other studies, led us to hypothesize that the goat PRNT gene has a role in both male and female reproduction. We further used direct DNA sequencing to detect potential SNPs within this gene in Shaanbei whit cashmere (SBWC) rams and ewes, and identified three SNPs within the PRNT gene, namely, c.-58C > T, c.71A > G (p.Alanine24Valine), and c.102C > T (synonymous). In rams, c.-58C > T and c.102C > T were strongly linked with each other (D' = 1.000, r2 = 0.504), whereas no significant association (P > 0.05) was found between the three SNPs and semen quality, which was consistent with the low expression of the PRNT gene in the testis. Interestingly, in ewes (n = 502), c.-58C > T and c.71A > G were also strongly linked with each other (D' = 0.973, r2 = 0.537). Additionally, the c.71A > G locus, especially the AA genotype, had a significant influence on litter size (P = 0.006), consistent with the high PRNT expression in the ovary. Combined, the results of the expression profiling and analysis of the association between the SNPs and reproductive traits showed that two strongly linked nucleotide sequence variants within PRNT were significantly associated with goat litter size. These findings provide potential DNA markers for use in the marker-assisted selection (MAS) of goats with high-fertility traits.
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Affiliation(s)
- Yi Bi
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Shaoli Zhang
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Jie Li
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Libang He
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Yuxin Kang
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Hong Chen
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Xianyong Lan
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Chuanying Pan
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China.
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Erdenee S, Akhatayeva Z, Pan C, Cai Y, Xu H, Chen H, Lan X. An insertion/deletion within the CREB1 gene identified using the RNA-sequencing is associated with sheep body morphometric traits. Gene 2021; 775:145444. [PMID: 33484760 DOI: 10.1016/j.gene.2021.145444] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2020] [Revised: 11/02/2020] [Accepted: 01/13/2021] [Indexed: 12/31/2022]
Abstract
In a previous study, the cyclic AMP response element-binding protein 1 (CREB1) gene, which is likely involved in the regulation of fat metabolism in sheep adipose tissue, was identified using RNA sequencing. CREB1 is a transcription factor that participates in the regulation of cell proliferation, differentiation, and survival as well as energy metabolism. Therefore, based on preliminary studies, this study aimed to reveal the correlation between the insertion/deletion (indel) polymorphism of the CREB1 gene and sheep growth traits. One insertion variation of the ovine CREB1 gene, C3-ins-26 bp, was investigated in 1847 Chinese and Mongolian sheep breeds. The minor allele frequencies in the CREB1 gene varied from 0.021 to 0.938. Further, statistical analyses indicated that the C3-ins-26 bp indel in the CREB1 gene was significantly related to various body measurements (body length, height, and index; chest width, depth, and width index; cannon circumference index; and height at the hip cross) in a Tan sheep population (p < 0.05). Collectively, these findings may provide important insights into marker-assisted selection of sheep.
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Affiliation(s)
- Sarantsetseg Erdenee
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Zhanerke Akhatayeva
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Chuanying Pan
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Yong Cai
- College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China; Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China.
| | - Hongwei Xu
- College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China; Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China.
| | - Hong Chen
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Xianyong Lan
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
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Identification of the prion-related protein gene (PRNT) sequences in various species of the Cervidae family. Mol Biol Rep 2020; 47:6155-6164. [PMID: 32737828 DOI: 10.1007/s11033-020-05697-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2020] [Accepted: 07/26/2020] [Indexed: 01/22/2023]
Abstract
Chronic wasting disease (CWD) is caused by abnormal deleterious prion protein (PrPSc), and transmissible spongiform encephalopathy occurs in the Cervidae family. In recent studies, the susceptibility of prion disease has been affected by polymorphisms of the prion gene family. However, the study of the prion-related protein gene (PRNT) is rare, and the DNA sequence of this gene was not fully reported in all Cervidae families. In the present study, we amplified and first identified PRNT DNA sequences in the Cervidae family, including red deer, elk, sika deer and Korean water deer, using polymerase chain reaction (PCR). We aligned nucleotide sequences of the PRNT gene and the amino acid sequences of prion-related protein (Prt) protein among several species. In addition, we performed phylogenetic analysis to measure the evolutionary relationships of the PRNT gene in the Cervidae family. Furthermore, we performed homology modeling of the Prt protein using SWISS-MODEL and compared the structure of Prt protein between sheep and the Cervidae family using the Swiss-PdbViewer program. We obtained much longer PRNT sequences of red deer compared to the PRNT gene sequence registered in GenBank. Korean water deer denoted more close evolutionary distances with goats and cattle than the Cervidae family. We found 6 Cervidae family-specific amino acids by the alignment of Prt amino acid sequences. There are significantly different distributions of hydrogen bonds and the atomic distance of the N-terminal tail and C-terminal tail between sheep and the Cervidae family. We also detected the mRNA expression of PRNT gene in 3 tissues investigated. To our knowledge, this report is the first genetic study of the PRNT gene in the Cervidae family.
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Li J, Xu H, Liu X, Xu H, Cai Y, Lan X. Insight into the Possible Formation Mechanism of the Intersex Phenotype of Lanzhou Fat-Tailed Sheep Using Whole-Genome Resequencing. Animals (Basel) 2020; 10:ani10060944. [PMID: 32486017 PMCID: PMC7341509 DOI: 10.3390/ani10060944] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2020] [Revised: 05/21/2020] [Accepted: 05/25/2020] [Indexed: 01/07/2023] Open
Abstract
Simple Summary Individuals with hermaphroditism are a serious hazard to animal husbandry and production due to their abnormal fertility. The molecular mechanism of sheep intersex formation was unclear. This study was the first to locate the homologous sequence of the goat polled intersex syndrome (PIS) region in sheep and found that the intersex traits of Lanzhou fat-tailed sheep were not caused by the lack of this region. By detecting the selective sweep regions, vital genes associated with androgen biosynthesis and the follicle stimulating hormone response entry were found, including steroid 5 alpha-reductase 2 (SRD5A2), and pro-apoptotic WT1 regulator (PAWR). Additionally, the copy number variations of the four regions on chr9, chr1, chr4, and chr16 may affect the expression of the gonadal development genes, zinc finger protein, FOG family member 2 (ZFPM2), LIM homeobox 8 (LHX8), inner mitochondrial membrane peptidase subunit 2 (IMMP2L) and slit guidance ligand 3 (SLIT3), respectively, and further affect the formation of intersex traits. Abstract Intersex, also known as hermaphroditism, is a serious hazard to animal husbandry and production. The mechanism of ovine intersex formation is not clear. Therefore, genome-wide resequencing on the only two intersex and two normal Lanzhou fat-tailed (LFT) sheep, an excellent but endangered Chinese indigenous sheep breed, was performed. Herein, the deletion of homologous sequences of the goat polled intersex syndrome (PIS) region (8787 bp, 247747059–247755846) on chromosome 1 of the LFT sheep was not the cause of the ovine intersex trait. By detecting the selective sweep regions, we found that the genes related to androgen biosynthesis and follicle stimulating hormone response items, such as steroid 5 alpha-reductase 2 (SRD5A2), steroid 5 alpha-reductase 3 (SRD5A3), and pro-apoptotic WT1 regulator (PAWR), may be involved in the formation of intersex traits. Furthermore, the copy number variations of the four regions, chr9: 71660801–71662800, chr1: 50776001–50778000, chr4: 58119201–58121600, and chr16: 778801–780800, may affect the expression of the zinc finger protein, FOG family member 2 (ZFPM2), LIM homeobox 8 (LHX8), inner mitochondrial membrane peptidase subunit 2 (IMMP2L) and slit guidance ligand 3 (SLIT3) genes, respectively, which contribute to the appearance of intersex traits. These results may supply a theoretical basis for the timely detection and elimination of intersex individuals in sheep, which could accelerate the healthy development of animal husbandry.
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Affiliation(s)
- Jie Li
- Animal Genome and Gene Function Laboratory, College of Animal Science and Technology, Northwest A&F University, Yangling 712100, China; (J.L.); (H.X.); (X.L.)
| | - Han Xu
- Animal Genome and Gene Function Laboratory, College of Animal Science and Technology, Northwest A&F University, Yangling 712100, China; (J.L.); (H.X.); (X.L.)
- School of Medicine, Sun Yat-sen University, Guangzhou 510275, China
| | - Xinfeng Liu
- Animal Genome and Gene Function Laboratory, College of Animal Science and Technology, Northwest A&F University, Yangling 712100, China; (J.L.); (H.X.); (X.L.)
| | - Hongwei Xu
- College of Life Science and Engineering, Northwest Minzu University, Lanzhou 730030, China
- Gansu Tech Innovation Center of Animal Cell, Biomedical Research Center, Northwest Minzu University, Lanzhou 730030, China
- Correspondence: (H.X.); (X.L.)
| | - Yong Cai
- Science Experimental Center, Northwest Minzu University, Lanzhou 730030, China;
- Key Laboratory of Biotechnology and Bioengineering of State Ethnic Affairs Commission, Biomedical Research Center, Northwest Minzu University, Lanzhou 730030, China
| | - Xianyong Lan
- Animal Genome and Gene Function Laboratory, College of Animal Science and Technology, Northwest A&F University, Yangling 712100, China; (J.L.); (H.X.); (X.L.)
- Correspondence: (H.X.); (X.L.)
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Mao C, Akhatayeva Z, Cheng H, Zhang G, Jiang F, Meng X, Yao Y, Elnour IE, Lan X, Song E. A novel 23 bp indel mutation in PRL gene is associated with growth traits in Luxi Blackhead sheep. Anim Biotechnol 2020; 32:740-747. [PMID: 32293991 DOI: 10.1080/10495398.2020.1753757] [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] [Indexed: 10/24/2022]
Abstract
Prolactin is a highly versatile pituitary hormone with multiple biological functions. PRL expression is regulated by POU1F1 and the prophet of POU1F1 (PROP1). The aim of this study was to investigate the indel variations in ovine PRL and the directly related (PROP1 and POU1F1) genes, and their associations with growth traits in Luxi Blackhead (LXBH) sheep. A monomorphism in PROP1 and POU1F1 genes, and one novel 23-bp insertion mutation in the PRL gene, were identified in LXBH sheep. The 23 bp insertion mutation within PRL gene was significantly associated with several body measurements (e.g., body weight, body height) in sheep of different ages (p < 0.05). Ram lambs (p = 0.036) of genotype insertion/insertion (II) had significantly higher body weights. Weaners (p = 0.018) of genotypes insertion/insertion (II) and insertion/deletion (ID) also had significantly higher body weights compared with male sheep of deletion/deletion (DD) genotype. Moreover, among ewe lambs, individuals of genotype insertion/insertion (II) had a higher paunch girth compared to those with other genotypes (p = 0.044). These findings indicate that a 23 bp indel variant of the ovine PRL gene is correlated with body measurements in LXBH sheep. The findings have potential utility for sheep breeding programs based on marker-assisted selection.
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Affiliation(s)
- Cui Mao
- Shandong Key Lab of Animal Disease Control and Breeding, Institute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
| | - Zhanerke Akhatayeva
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
| | - Haijian Cheng
- Shandong Key Lab of Animal Disease Control and Breeding, Institute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
| | - Guoping Zhang
- Shandong Key Lab of Animal Disease Control and Breeding, Institute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
| | - Fugui Jiang
- Shandong Key Lab of Animal Disease Control and Breeding, Institute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
| | - Xianfeng Meng
- Shandong Key Lab of Animal Disease Control and Breeding, Institute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
| | - Yuni Yao
- Shandong Key Lab of Animal Disease Control and Breeding, Institute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
| | - Ibrahim Elsaeid Elnour
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
| | - Xianyong Lan
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
| | - Enliang Song
- Shandong Key Lab of Animal Disease Control and Breeding, Institute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China.,College of Life Sciences, Shandong Normal University, Jinan, Shandong, China
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10
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Polymorphisms within the Boule Gene Detected by Tetra-Primer Amplification Refractory Mutation System PCR (T-ARMS-PCR) are Significantly Associated with Goat Litter Size. Animals (Basel) 2019; 9:ani9110910. [PMID: 31683986 PMCID: PMC6912451 DOI: 10.3390/ani9110910] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2019] [Revised: 10/14/2019] [Accepted: 10/23/2019] [Indexed: 12/16/2022] Open
Abstract
As a gene contributing to spermatogenesis, the Boule gene (also called Boll), whose mutations result in azoospermia and sterility of flies and mice, was conserved in reductional maturation divisions. However, in goats, the polymorphisms of Boule, especially with regard to their fundamental roles in female reproduction traits, are still unknown. Therefore, the aims of this study were to detect a potential mutation (rs661484476: g.7254T>C) located in intron 2 of the Boule gene by tetra-primer amplification refractory mutation system PCR (T-ARMS-PCR) and to explore its potential association with the litter size of Shaanbei White-Cashmere goats (SBWGs). In this study, g.7254T>C was firstly detected. The TT genotype was the dominant genotype in the single-lamb group, and T was also the dominant allele in all tested groups. Additionally, the detected locus displayed moderate polymorphism with polymorphism information content (PIC) values among all studied goats ranging from 0.303 to 0.344. Notably, according to the χ2 test, the distribution differences for the genotypic frequencies between the single- and multi-lamb groups was significant (p = 0.014). Furthermore, the polymorphisms of the goat Boule gene were significantly associated with the goat litter size in SBWGs (p < 0.05), which indicated that g.7254T>C could be a potential marker in the marker-assisted selection process for potential litter size in goats. These results also indicated that the Boule gene might exercise important functions in female goat reproduction, which provided new insight for female goat breeding and could accelerate the process of goat breeding.
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11
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Insertion/deletion (InDel) variations in sheep PLAG1 gene locating in growth-related major QTL are associated with adult body weight and morphometric traits. Small Rumin Res 2019. [DOI: 10.1016/j.smallrumres.2019.08.003] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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12
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Zhang S, Cao X, Li Y, Wang K, Yuan M, Lan X. Detection of polled intersex syndrome (PIS) and its effect on phenotypic traits in goats. Anim Biotechnol 2019; 31:561-565. [PMID: 31198087 DOI: 10.1080/10495398.2019.1625782] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
Polled intersex syndrome (PIS), a physiological defect associates polledness and intersexuality, will directly affect the reproduction and other phenotypic traits of goats, thus, it is a hazard to the development of the goat industry. Recent studies have revealed that goat PIS was caused by an 11.7-kb deletion located in chromosome 1q43, but its DNA detection method was little reported. Herein, a total of 503 goats from three goat breeds were used to successfully establish a simple, rapid, accurate and effective method for the detection of goat PIS mutation. Furthermore, based on this assay, the associations between the PIS mutation and growth traits were analyzed in Guanzhong dairy goats. These findings would provide the potential practical application for molecular breeding to accelerate the development of the goat industry.
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Affiliation(s)
- Shaoli Zhang
- Innovation Experimental College, Northwest A&F University, Yangling, Shaanxi, P. R. China.,Shaanxi Key Laboratory of Molecular Biology for Agriculture, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, P. R. China
| | - Xinyuan Cao
- Innovation Experimental College, Northwest A&F University, Yangling, Shaanxi, P. R. China
| | - Yu Li
- Shaanxi Key Laboratory of Molecular Biology for Agriculture, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, P. R. China
| | - Ke Wang
- Shaanxi Key Laboratory of Molecular Biology for Agriculture, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, P. R. China
| | - Ming Yuan
- Shaanxi Key Laboratory of Molecular Biology for Agriculture, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, P. R. China
| | - Xianyong Lan
- Shaanxi Key Laboratory of Molecular Biology for Agriculture, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, P. R. China
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13
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Xu H, Zhang X, Zang R, Cai Y, Cao X, Yang J, Li J, Lan X, Wu J. Genetic variations in the sheep SIRT7 gene and their correlation with body size traits. Arch Anim Breed 2019; 62:189-197. [PMID: 31807629 PMCID: PMC6852881 DOI: 10.5194/aab-62-189-2019] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2018] [Accepted: 03/19/2019] [Indexed: 11/11/2022] Open
Abstract
As a nicotinamide adenine dinucleotide (NAD)-dependent histone deacetylase
and ADP ribosyl transferase, the silent information regulator 7 (Sirtuin 7,
SIRT7) plays a crucial role in regulating the differentiation of adipocytes
and myoblasts, lipid metabolism, glucose metabolism, and cellular growth in
mammals. It has been hypothesized that SIRT7 affects growth traits in animals;
therefore, in this study, the potential insertion/deletion (indel) of genetic variations within
the ovine SIRT7 gene and their correlation with sheep growth traits
were explored. A total of 709 individuals from five Chinese
and Mongolian sheep breeds were analyzed. Two novel indel loci of the sheep
SIRT7 gene were detected and were named 5′ promoter
region-insertion-7 bp (5′ promoter region-7 bp) and 3′
UTR-insertion-17 bp (3′ UTR-17 bp), respectively. In all of the sheep breeds,
frequencies of the 5′ promoter region-7 bp mutation were low, whereas
mutations of 3′ UTR-17 bp were high in Tong sheep and Lanzhou fat-tail
sheep (LFTS). Furthermore, both indel polymorphisms had significant
associations with different growth characteristics (P<0.05). Among
these associations, the 3′ UTR-17 bp was highly correlated with rump width
in small-tail Han sheep (STHS, rams; P<0.01), and
individuals with the ID genotype had better chest depth values than those
with the II genotype. In this paper, two novel indels within the sheep
SIRT7 gene were identified, and genetic diversity and its
effects on body size traits were explored. These findings will potentially provide
useful DNA markers for the improvement of economic traits in sheep genetic breeding.
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Affiliation(s)
- Hongwei Xu
- College of Animal Science and Technology, Gansu Agricultural University, Lanzhou, Gansu, China.,Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China.,College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Xiaoyu Zhang
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
| | - Rongxin Zang
- Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China.,College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Yong Cai
- Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China.,College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Xin Cao
- Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China.,College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Jutian Yang
- Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China.,College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Jie Li
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
| | - Xianyong Lan
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
| | - Jianping Wu
- College of Animal Science and Technology, Gansu Agricultural University, Lanzhou, Gansu, China.,current address: College of Animal Science and Technology, Gansu Agricultural University, Lanzhou, Gansu, China
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14
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Erdenee S, Li J, Kang Z, Xu H, Zang R, Cao X, Yang J, Cai Y, Lan X. Sheep zinc finger proteins 395 (ZNF395): insertion/deletion variations, associations with growth traits, and mRNA expression. Anim Biotechnol 2019; 31:237-244. [DOI: 10.1080/10495398.2019.1585865] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Sarantsetseg Erdenee
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
| | - Jie Li
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
| | - Zihong Kang
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
| | - Hongwei Xu
- Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China
- College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Rongxin Zang
- Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China
- College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Xin Cao
- Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China
- College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Jutian Yang
- Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China
- College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Yong Cai
- Science Experimental Center, Northwest Minzu University, Lanzhou, Gansu, China
- College of Life Science and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
| | - Xianyong Lan
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
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