scholarly journals Mutations in NLRP5 and NLRP9 Are Associated with Litter Size in Small Tail Han Sheep

Animals ◽  
2020 ◽  
Vol 10 (4) ◽  
pp. 689 ◽  
Author(s):  
Zhuangbiao Zhang ◽  
Jishun Tang ◽  
Xiaoyun He ◽  
Ran Di ◽  
Mingxing Chu
Keyword(s):  
Genetic Analysis ◽  
Litter Size ◽  
Population Genetic ◽  
Nucleotide Polymorphisms ◽  
Population Genetic Analysis ◽  
Single Nucleotide ◽  
Sheep Breeds ◽  
Reproductive Genes ◽  
Pyrin Domain ◽  
Hardy Weinberg Equilibrium

Previous studies showed that the NLR family pyrin domain-containing 5 (NLRP5) and NLRP9 genes are two important reproductive genes; however, their effects on sheep litter size are unknown. Therefore, in this study, we first genotyped seven sheep breeds via the MassARRAY® SNP system at the loci g.60495375A > G, g.60495363G > A, and g.60499690C > A in NLRP5, and g.59030623T > C and g.59043397A > C in NLRP9. Our results revealed that each locus in most sheep breeds contained three genotypes. Then, we conducted population genetic analysis of single nucleotide polymorphisms in NLRP5 and NLRP9, and we found that the polymorphism information content value in all sheep breeds ranged from 0 to 0.36, and most sheep breeds were under Hardy–Weinberg equilibrium (p > 0.05). Furthermore, association analysis in Small Tail Han sheep indicated that two loci, g.60495363G > A in NLRP5 and g.59030623T > C in NLRP9, were highly associated with litter size. The mutation in g.60495363G > A may decrease interactions of NLRP5 with proteins, such as GDF9, whereas the mutation in g.59030623T > C may enhance the combining capacity of NLRP9 with these proteins; consequently, these mutations may influence the ovulation rate and even litter size. The findings of our study provide valuable genetic markers that can be used to improve the breeding of sheep and even other mammals.

scholarly journals Single Nucleotide Polymorphisms in SLC5A1, CCNA1, and ABCC1 and the Association with Litter Size in Small-Tail Han Sheep

Animals ◽  
2019 ◽  
Vol 9 (7) ◽  
pp. 432 ◽  
Author(s):  
Yongfu La ◽  
Qiuyue Liu ◽  
Liping Zhang ◽  
Mingxing Chu
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Litter Size ◽  
Population Genetic ◽  
Linear Regression Analysis ◽  
Great Influence ◽  
Reproductive Traits ◽  
Nucleotide Polymorphisms ◽  
Population Genetic Analysis ◽  
Single Nucleotide ◽  
Using Data

SLC5A1, CCNA1, and ABCC1 have been extensively studied as candidate genes because of their great influence on the reproductive traits of animals. However, little is known about the association between polymorphisms of the SLC5A1, CCNA1, and ABCC1 genes and litter size in Small-Tail Han sheep. In this study, the expression levels of SLC5A1, CCNA1, and ABCC1 in HPG (hypothalamic–pituitary–gonadal) axis tissues of polytocous and monotocous Small-Tail Han sheep were analyzed by qPCR. To better understand the effects of four single nucleotide polymorphisms (SNPs) comprising of g.70067210 T > C in SLC5A1, g.25350431 C > T and g.25360220 T > C in CCNA1, and g.14413132 C > T in ABCC1, a population genetic analysis was conducted using data obtained from genotyping in 728 sheep from seven breeds. The results indicated that all genes included in this study were differentially expressed in the pituitary and uterus of polytocous and monotocous Small-Tail Han sheep (p < 0.05). The associations of these four SNPs and the FecB mutation with litter size in 384 Small-Tail Han sheep were analyzed, therefore, and it was found that both g.70067210T > C and the FecB mutation were significantly associated with litter size (p < 0.05). The linear regression analysis of the association of multiple markers (FecB and g.70067210 T > C in SCL5A1) with litter size indicated that homozygous ewes carrying the BB/TT genotype had larger litter size than any ewes with any other genotype. In conclusion, the SLC5A1 SNPs significantly affect litter size in sheep and are useful as genetic marker for litter size.

scholarly journals Detection of single nucleotide polymorphisms at major prolificacy genes in the Mehraban sheep and association with litter size

2018 ◽  
Vol 18 (3) ◽  
pp. 685-698 ◽  
Author(s):  
Reza Talebi ◽  
Ahmad Ahmadi ◽  
Fazlollah Afraz ◽  
Julien Sarry ◽  
Florent Woloszyn ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Litter Size ◽  
Potential Role ◽  
Chromosome 6 ◽  
The Novel ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Hardy Weinberg Equilibrium ◽  
Gdf9 Gene

Abstract The present study aimed to investigate the presence of polymorphisms at four known genes controlling ovine prolificacy i.e. BMP15, GDF9, BMPR1B and B4GALNT2 in a sample of 115 Iranian Mehraban ewes and their association with litter size (LS) and lambs’ birth weight (BW) traits. Using Sanger sequencing of exons and polymorphism specific genotyping, ten SNPs (Single Nucleotide Polymorphisms) were observed in only two genes, GDF9 and BMPR1B. Seven SNPs were found in the GDF9 gene on the chromosome 5. Among them, six were already described in the coding sequence, and a new one (g.41840985C>T) was found in the 3’UTR. In the BMPR1B gene on the chromosome 6, three novel SNPs were detected in the exon 7 (g.29382184G>A; g.29382337G>A and g.29382340G>A). Allelic frequencies were established for six SNPs among the ten identified and they were in Hardy-Weinberg equilibrium. A significant association was found between the novel SNPs found in the exon 7 of BMPR1B and LS. Present results indicate the potential role of the BMPR1B locus in controlling prolificacy of Mehraban sheep and provide genetic markers for further exploitation in selection to improve reproductive efficiency.

scholarly journals Single‐Nucleotide Polymorphism–Based Population Genetic Analysis ofMycobacterium tuberculosisStrains from 4 Geographic Sites

2006 ◽  
Vol 193 (1) ◽  
pp. 121-128 ◽  
Author(s):  
Michaela M. Gutacker ◽  
Barun Mathema ◽  
Hanna Soini ◽  
Elena Shashkina ◽  
Barry N. Kreiswirth ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Genetic Analysis ◽  
Population Genetic ◽  
Nucleotide Polymorphism ◽  
Population Genetic Analysis ◽  
Single Nucleotide

scholarly journals Comparative Performance of Single Nucleotide Polymorphism and Microsatellite Markers for Population Genetic Analysis

2009 ◽  
Vol 100 (5) ◽  
pp. 556-564 ◽  
Author(s):  
Brad S. Coates ◽  
Douglas V. Sumerford ◽  
Nicholas J. Miller ◽  
Kyung S. Kim ◽  
Thomas W. Sappington ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Genetic Analysis ◽  
Microsatellite Markers ◽  
Population Genetic ◽  
Nucleotide Polymorphism ◽  
Population Genetic Analysis ◽  
Comparative Performance ◽  
Single Nucleotide

scholarly journals Development and characterization of 57 SNP markers in Misgurnus anguillicaudatus

2021 ◽  
Author(s):  
Guiyun Huang ◽  
Fengying Gao ◽  
Zhigang Liu ◽  
Jianmeng Cao ◽  
Gang Chen ◽  
...  
Keyword(s):  
Snp Markers ◽  
Freshwater Species ◽  
Nucleotide Polymorphisms ◽  
Misgurnus Anguillicaudatus ◽  
Population Genetic Analysis ◽  
Single Nucleotide ◽  
Natural Resource Conservation ◽  
Hardy Weinberg Equilibrium ◽  
Selection Of

Abstract The dojo loach Misgurnus anguillicaudatus is an endemic freshwater species to Asia. The effective conservation and molecular-aided selection of M. anguillicaudatus have been limited without sufficient molecular markers. In this study, 112 novel single nucleotide polymorphisms (SNPs) were screened based on 2b-RAD sequencing database, and 57 SNP markers were developed and characterized by genotyping 40 individuals using SNaPshot method. The observed heterozygosity (Ho) ranged from 0.025 to 0.675, while the expected heterozygosity (He) varied from 0.025 to 0.500. The minor allele frequency (MAF) ranged from 0.013 to 0.500. Among these SNPs, 18 loci were found to deviate significantly from the Hardy–Weinberg equilibrium after Bonferroni correction (P < 0.05). The first set of SNP markers developed from M. anguillicaudatus will provide valuable information in further population genetic analysis and natural resource conservation.

scholarly journals Identification of single nucleotide polymorphisms in GDF9 gene associated with litter size in Garut sheep

2019 ◽  
Vol 24 (1) ◽  
pp. 51 ◽  
Author(s):  
Resti Yuliana Rahmawati ◽  
Sumadi Sumadi ◽  
Tety Hartatik
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Litter Size ◽  
Direct Sequencing ◽  
Pcr Amplification ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Growth Differentiation Factor 9 ◽  
Hardy Weinberg Equilibrium ◽  
Reference Sequences ◽  
Gdf9 Gene

The growth differentiation factor 9 (GDF9) gene has been regarded as having major impacts on ovulation rate and litter size in sheep. The aim of this study was to identify the single nucleotide polymorphisms (SNPs) of the GDF9 gene and their association with litter size in Garut sheep. For this purpose, a total of 60 ewes of Garut sheep were included in this study. Based on the sheep GDF9 reference sequences (Genbank Acc. No. AF078545.2), one pair of primers (5’-CTGCTGTTTAACCTGGATCGTG-3 5’-GGAGAGCCATACCGATGTCC-3 as forward and reverse, respectively) was used for PCR amplification. The results revealed that four SNPs (g.54C>T, g.60G>A, g.304G>A, and g.333G>A) were found in Garut sheep by direct sequencing. For SNP g.54C>T, the sheep exhibited the highest frequency of allele C and genotype CC. On the other hand, SNPs g.60G>A, g.304G>A, and g.333G>A showed a higher frequency of allele G than allele A, and the GG genotype was predominant in the population. SNP g.333G>A had a significant effect on litter size (p < 0.05), and ewes with the GG genotype had a higher litter size than those with the GA genotype. Genotype distributions for all identified SNPs were in agreement with Hardy-Weinberg equilibrium. We highlight that SNP g.333G>A may be useful as a genetic marker for litter size in Garut sheep.

scholarly journals Molecular Cloning of the B4GALNT2 Gene and Its Single Nucleotide Polymorphisms Association with Litter Size in Small Tail Han Sheep

Animals ◽  
2018 ◽  
Vol 8 (10) ◽  
pp. 160 ◽  
Author(s):  
Xiaofei Guo ◽  
Xiangyu Wang ◽  
Benmeng Liang ◽  
Ran Di ◽  
Qiuyue Liu ◽  
...  
Keyword(s):  
Litter Size ◽  
Granule Cells ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Transcription Start Sites ◽  
Sheep Breeds ◽  
Significant Difference ◽  
Tan Sheep ◽  
Rapid Amplification

A new fecundity gene named the FecL (mutation), which regulates the ovulation rate, was discovered in French Lacaune sheep. The B4GALNT2 (beta-1, 4-N-acetyl-galactosaminyl transferase 2) gene was considered as the potential FecL mutation gene. This study explores whether the effect of the FecL mutation exists in other sheep breeds, and the features of the B4GALNT2 gene in terms of the molecular structure and its expression profile. Using Sanger sequencing, we found that high and low fecundity breeds from among 11 measured sheep breeds all had no variation in the three specific mutation sites, which were linked with the FecL mutation. However, two mutations of g.36946470C > T and g.36933082C > T in the exon of B4GALNT2 had a significant effect on litter size in the first parity for Small Tail Han (STH) Sheep (p < 0.05). Two transcription start sites (TSS) of B4GALNT2 in its 5′-flanking region were discovered in ovine granule cells in vitro, through the RACE (Rapid amplification of cDNA ends) method. Except for in the kidney and oviduct, no significant difference in expression levels had been found between STH sheep and Tan sheep breeds. The B4GALNT2 gene, as a candidate for FecL, may have a relationship with the differences in litter size in STH sheep. B4GALNT2 is mainly expressed in the ovine ovary, which also suggests that B4GALNT2 plays an important role in sheep reproduction.

scholarly journals Study of LGB gene polymorphisms of small ruminants reared in Eastern Europe

2018 ◽  
Vol 63 (No. 4) ◽  
pp. 152-159 ◽  
Author(s):  
Sz. Kusza ◽  
D.E. Ilie ◽  
M. Sauer ◽  
K. Nagy ◽  
T.S. Atanasiu ◽  
...  
Keyword(s):  
Eastern Europe ◽  
Milk Production ◽  
Small Ruminants ◽  
Nucleotide Polymorphisms ◽  
Production Traits ◽  
Single Nucleotide ◽  
Sheep Breeds ◽  
Genotype Frequencies ◽  
Hardy Weinberg Equilibrium ◽  
Breeding Schemes

The objectives of the current research were: (i) to determine the allele and genotype frequencies of the LGB gene in the sheep and goat breeds reared in Eastern Europe; (ii) to implement a comparative study in order to evaluate the milk production potential and efficiency of the main sheep and goat dairy breeds reared in Romania; (iii) to test the genetic basis and feasibility of introducing the molecular-marker assisted selection for this trait into future breeding schemes designed for small ruminants. Totally 731 purebred unrelated sheep (Turcana: 111, Racka: 98, Tsigai: 79, Karakul of Botosani: 60, Transylvanian Merino: 77) and goats (Carpatina: 82, Banat’s White: 73, Saanen: 74, French Alpine: 77) were sampled and genotyped for the earlier detected alleles. The frequencies of A (0.44–0.53) and B (0.42–0.51) alleles of LGB gene were generally equal, while the C allele incidence was significantly lower for all sheep breeds studied. A relatively low or missing incidence of the C allele and no BC genotype were detected in the studied sheep breeds. All studied sheep breeds were in Hardy–Weinberg equilibrium. Gene homozygosity was lower than gene heterozygosity, with the effective allele numbers ranging from 2.00 (Transylvanian Merino) to 2.23 (Tsigai). Two alleles (A and B) and two genotypes (AA and AB) were detected in the four goat breeds studied. Allele A was the most frequent allele found in all breeds (0.57–0.68), while AB genotype had the highest frequency. Gene homozygosity was higher than gene heterozygosity, while the effective allele numbers varied between 1.76 (Banat’s White) and 1.96 (Carpatina). The frequency of alleles and genotypes was similar to that reported in other Eastern sheep and goat breeds, however polymorphism has not been studied yet among these breeds in such a high number in Romania. An association study between single nucleotide polymorphisms and milk production traits should follow.

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