Single Nucleotide Polymorphism (SNP) 316 on Calpain Gene in Aceh Cattle

Genetic polymorphisms of μ-calpain, a calcium-dependent protease specifically expressed in muscle and related to meat tenderness, have been investigated in cattle worldwide, but not well documented in Indonesian beef cattle. This study was done to evaluate the frequency of SNP 316 in the μ-calpain gene in Aceh cattle, a local Indonesian beef cattle plays important role in the fulfillment of red meat for peoples in Aceh and its neighboring areas. For this purpose, genomic DNA was isolated from 29 sirloin meats samples collected from cull, female aceh cattle slaughtered at the Slaughter House of Banda Aceh. The cattle were purposively selected based on physical characteristics and hair colors referred to Indonesian law. For the SNP genotyping, PCR-RFLP methods were set up. The results showed all three genotypes namely CC, CG, and GG were found in Aceh cattle. The allele and genotype frequencies of SNP CAPN316 in the CAPN gene were: C – 0.14 and G – 0.86; CC – 3.4%, CG – 20.7% and GG – 75.9%. The observed and expected frequencies of CAPN SNP 316 in the cattle population examined were GG 22.0 and 21.6, CG 6.0 and 6.9, and CC 1.0 and 0.6.

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Alternative genotyping method for the single nucleotide polymorphism A2959G (AF159246) of the bovine CAST gene

Pesquisa Agropecuária Brasileira ◽

10.1590/s0100-204x2008000500014 ◽

2008 ◽

Vol 43 (5) ◽

pp. 657-659 ◽

Cited By ~ 3

Author(s):

Rogério Abdallah Curi ◽

Luis Artur Loyola Chardulo ◽

Antônio Carlos Silveira ◽

Henrique Nunes de Oliveira

Keyword(s):

Single Nucleotide Polymorphism ◽

Bos Taurus ◽

Direct Sequencing ◽

Bos Indicus ◽

Basic Structure ◽

Meat Tenderness ◽

Nucleotide Polymorphism ◽

Single Nucleotide ◽

Pcr Rflp ◽

Cast Gene

The objective of this work was to genotype the single nucleotide polymorphism (SNP) A2959G (AF159246) of bovine CAST gene by PCR-RFLP technique, and to report its use for the first time. For this, 147 Bos indicus and Bos taurus x Bos indicus animals were genotyped. The accuracy of the method was confirmed through the direct sequencing of PCR products of nine individuals. The lowest frequency of the meat tenderness favorable allele (A) in Bos indicus was confirmed. The use of PCR-RFLP for the genotyping of the bovine CAST gene SNP was shown to be robust and inexpensive, which will greatly facilitate its analysis by laboratories with basic structure.

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A comprehensive experiment for molecular biology: Determination of single nucleotide polymorphism in human REV3 gene using PCR-RFLP

Biochemistry and Molecular Biology Education ◽

10.1002/bmb.21037 ◽

2017 ◽

Vol 45 (4) ◽

pp. 299-304 ◽

Cited By ~ 2

Author(s):

Xu Zhang ◽

Meng Shao ◽

Lu Gao ◽

Yuanyuan Zhao ◽

Zixuan Sun ◽

...

Keyword(s):

Single Nucleotide Polymorphism ◽

Molecular Biology ◽

Nucleotide Polymorphism ◽

Single Nucleotide ◽

Pcr Rflp

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The effect of a leptin single nucleotide polymorphism on quality grade, yield grade, and carcass weight of beef cattle

Journal of Animal Science ◽

10.2527/2005.834927x ◽

2005 ◽

Vol 83 (4) ◽

pp. 927-932 ◽

Cited By ~ 43

Author(s):

P. J. Kononoff ◽

H. M. Deobald ◽

E. L. Stewart ◽

A. D. Laycock ◽

F. L. S. Marquess

Keyword(s):

Single Nucleotide Polymorphism ◽

Beef Cattle ◽

Carcass Weight ◽

Nucleotide Polymorphism ◽

Single Nucleotide ◽

Quality Grade ◽

Grade Yield

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Identifikasi Keragaman Gen DGAT1 serta Asosiasinya terhadap Karakteristik Karkas dan Sifat Perlemakan Domba

Jurnal Ilmu dan Teknologi Peternakan Tropis ◽

10.33772/jitro.v6i2.7141 ◽

2019 ◽

Vol 6 (2) ◽

pp. 259

Author(s):

Asep Gunawan ◽

Ratna Sholatia Harahap ◽

Kasita Listyarini ◽

Cece Sumantri

Keyword(s):

Polymerase Chain Reaction ◽

Single Nucleotide Polymorphism ◽

Fragment Length Polymorphism ◽

Nucleotide Polymorphism ◽

Chain Reaction ◽

Single Nucleotide ◽

Dgat1 Gene ◽

Pcr Rflp ◽

Polymerase Chain ◽

Restriction Fragment Length

ABSTRAK Karakteristik karkas dan sifat perlemakan pada daging domba dikontrol oleh banyak gen salah satunya gen DGAT1 (Diacylglycerol Acyltransferasel 1). Penelitian ini bertujuan mengidentifikasi SNP (Single Nucleotide Polymorphism) gen DGAT1 pada titik mutasi g.8539 C>T dan asosiasinya terhadap karakteristik karkas dan sifat perlemakan pada domba Indonesia. Total sampel domba yang digunakan sebanyak 150 buah terdiri dari 35 sampel domba compass agrinak (DCA), 36 sampel domba barbados cross (DBC), 41 sampel domba komposit garut (DKG), 20 sampel domba ekor gemuk (DEG), dan 18 sampel domba ekor tipis (DET). Karakteristik karkas dan sifat perlemakan diukur dari domba jantan berumur 10-12 bulan. Identifikasi keragaman DGAT1|ALuI dianalisis dengan metode PCR-RFLP (Polymerase Chain Reaction-Restriction Fragment Length Polymorphism). Hasil keragaman gen DGAT1 bersifat polimorfik dalam DET dan DEG, sedangkan DCA, DBC, dan DKG bersifat monomorfik. Dua genotipe disebut CC dan CT ditemukan dalam DET dan DEG. Titik mutasi gen DGAT1 berasosiasi (P<0.05) dengan karakteristik karkas, yaitu bobot dan panjang karkas. Selain itu, keragaman gen DGAT1 juga berasosiasi signifikan (P<0.05) dengan asam lemak jenuh, yaitu asam stearat (C18:0) dan asam arakidat (C20:0) dan asam lemak tak jenuh tunggal, yaitu asam oleat (C18:1n9c). Gen DGAT1 memiliki kontribusi dalam karakteristik karkas dan komposisi asam lemak pada domba.Kata Kunci: domba, gen DGAT1, karakteristik karkas, PCR-RFLP, sifat perlemakan ABSTRACT Characteristic of carcass and fatness traits of sheep is regulated by many genes such as DGAT1 (Diacylglycerol Acyltransferasel 1) gene. The research was aimed to investigate SNP (Single Nucleotide Polymorphism) of DGAT1 and its association with characteristic of carcass and fatness traits in Indonesian sheep. A total sample of sheeps used 150 rams of 10–12 months consisted 35 samples of compas agrinak sheep (CAS), 36 of barbados cross (BCS), 41 of garut composite (GCS), 20 of javanese fat tailed (JFT), and 18 of javanese thin tailed (JTT). Identification variant of DGAT1|ALuI were performed by PCR-RFLP (Polymerase Chain Reaction-Restriction Fragment Length Polymorphism). The results of polymorphism of DGAT1 were found in JTT and JFT. However, SNP of DGAT1 in CAS, BCS and GCS were monomorfic. Two genotype namely CC and CT were found in JTT and JFT populations. A SNP of the DGAT1 was associated (P<0.05) with characteristic of carcass, including weight and length of carcass. The variant of DGAT1 was associated too with saturated fatty acids (SFA) including stearic acid (C18:0) and arachidic acid (C20:0), and mono unsaturated fatty acid (MUFA) including oleic acid (C18:1n9c). The DGAT1 gene was contribute to characteristic carcass and fatty acid composition in sheep.Keywords: DGAT1 gene, characteristic carcass, fatness traits, PCR-RFLP, sheep

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Possible Association of Single Nucleotide Polymorphism in Titin Gene with Growth-Related Trait in Japanese Black Beef Cattle

Journal of Animal and Veterinary Advances ◽

10.3923/javaa.2011.2603.2606 ◽

2011 ◽

Vol 10 (19) ◽

pp. 2603-2606 ◽

Cited By ~ 2

Author(s):

Takahisa Yamada ◽

Seiki Sasaki ◽

Shin Sukegawa ◽

Youichi Takahagi ◽

Mitsuo Morita ◽

...

Keyword(s):

Single Nucleotide Polymorphism ◽

Beef Cattle ◽

Nucleotide Polymorphism ◽

Single Nucleotide ◽

Related Trait

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Association of a single-nucleotide polymorphism inmyosin-binding protein C,slow-type(MYBPC1) gene with marbling in Japanese Black beef cattle

Animal Genetics ◽

10.1111/age.12172 ◽

2014 ◽

Vol 45 (4) ◽

pp. 611-612 ◽

Cited By ~ 5

Author(s):

Bin Tong ◽

Seiki Sasaki ◽

Youji Muramatsu ◽

Takeshi Ohta ◽

Hiroyuki Kose ◽

...

Keyword(s):

Single Nucleotide Polymorphism ◽

Beef Cattle ◽

Protein C ◽

Binding Protein ◽

Nucleotide Polymorphism ◽

Single Nucleotide ◽

Slow Type

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Association Study between BGLAP Gene HindIII Polymorphism and Type 2 Diabetes Mellitus Development in Ukrainian Population

Journal of Diabetes Research ◽

10.1155/2019/9302636 ◽

2019 ◽

Vol 2019 ◽

pp. 1-7

Author(s):

Yaroslav D. Chumachenko ◽

Viktoriia Yu. Harbuzova ◽

Alexander V. Ataman

Keyword(s):

Diabetes Mellitus ◽

Type 2 Diabetes ◽

Single Nucleotide Polymorphism ◽

Type 2 Diabetes Mellitus ◽

Nucleotide Polymorphism ◽

Single Nucleotide ◽

Pcr Rflp ◽

Hindiii Polymorphism ◽

Polymerase Chain

Type 2 diabetes mellitus (T2DM) belongs to the diseases with hereditary predisposition, so both environmental and genetic factors contribute to its development. Recent studies have demonstrated that the skeleton realizes systemic regulation of energy metabolism through the secretion of osteocalcin (OCN). Thus, the association analysis between HindIII single nucleotide polymorphism of OCN gene (BGLAP) promoter region and T2DM development in Ukrainian population was carried out. 153 individuals diagnosed with T2DM and 311 control individuals were enrolled in the study. The genotyping was performed using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) method. The lack of association between BGLAP HindIII single nucleotide polymorphism (SNP) and T2DM development among Ukrainians was found. Further studies with extended groups of comparison are needed to confirm the obtained results.

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E2F1 genetic variants and risk of cervical cancer in Indian women

The International Journal of Biological Markers ◽

10.1177/1724600818768459 ◽

2018 ◽

Vol 33 (4) ◽

pp. 389-394 ◽

Cited By ~ 3

Author(s):

Sanjay Singh ◽

Manish Gupta ◽

Rajeev Kumar Seam ◽

Harish Changotra

Keyword(s):

Cervical Cancer ◽

Cancer Risk ◽

Nucleotide Polymorphisms ◽

Single Nucleotide ◽

Indian Women ◽

Altered Expression ◽

Cervical Cancer Risk ◽

Genotype Frequencies ◽

Pcr Rflp

Introduction: Altered expression of many E2F family members have been reported in various human cancers. In this study, we investigated the role of non-synonymous single nucleotide polymorphisms (rs3213172 C/T, rs3213173 C/T, and rs3213176 G/A) of the gene E2F1 with cervical cancer. Methods: A total of 181 samples including 90 cervical cancer patients and 91 healthy controls were genotyped. The genotype frequencies of these polymorphisms in collected samples were determined by either PCR-RFLP or PCR-ARFLP methods. SHEsis software was used to analyze the haplotypes. Results: Statistically significant differences in the alleles and the genotypes frequencies were observed in rs3213172 (C/T) and rs3213173 (C/T) polymorphisms. The rs3213172 (C/T) polymorphism was a risk factor for cervical cancer in dominant model (odds ratio (OR) 1.96; 95% confidence interval (CI) 1.07, 3.60; P = 0.02) and heterozygous model (OR 1.90; 95% CI 1.01, 3.57; P = 0.04). The rs3213173 (C/T) polymorphism increased the risk of cervical cancer in the homozygous model (OR 2.71; 95% CI 1.11, 6.58; P = 0.02). The rs3213176 (G/A) polymorphism was not associated with cervical cancer risk in any of the genotypic models. In the haplotypes analysis, three haplotypes (CTG, TCG, and TTA) were associated with the cervical cancer risk. Conclusions: These findings revealed that rs3213172 (C/T) and rs3213173 (C/T) polymorphisms and haplotypes (CTG, TCG, and TTA) of the E2F1 gene might play role in the susceptibility of cervical cancer. This is the first report showing an association of these polymorphisms with the cervical cancer risk.

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BTNL2 gene polymorphism and sarcoid uveitis

British Journal of Ophthalmology ◽

10.1136/bjophthalmol-2018-312949 ◽

2019 ◽

pp. bjophthalmol-2018-312949 ◽

Cited By ~ 3

Author(s):

Mayeul Chaperon ◽

Yves Pacheco ◽

Delphine Maucort-Boulch ◽

Jean Iwaz ◽

Laurent Perard ◽

...

Keyword(s):

Single Nucleotide Polymorphism ◽

Gene Polymorphism ◽

Nucleotide Polymorphism ◽

Predisposing Factor ◽

Single Nucleotide ◽

Genotype Frequencies ◽

Subgroup Ii ◽

Significant Difference ◽

Caucasian Women ◽

Patient Subgroups

BackgroundUveitis is a frequent and early feature of sarcoidosis. As BTNL2 (butyrophilin-like 2) gene polymorphism was found linked with the susceptibility to sarcoidosis, we investigated whether a specific genotype of BTNL2 gene G16071A (or rs2076530) single-nucleotide polymorphism (SNP) would be associated with the risk of sarcoid uveitis in all patient subgroups.MethodsThe study compared the genotype frequencies of SNP G16071A of 135 patients with sarcoid uveitis (Sa+Uv+) with those of 196 patients with sarcoidosis without uveitis (Sa+Uv−), 81 patients with uveitis without sarcoidosis (Sa−Uv+), and 271 controls with no sarcoidosis nor uveitis (Sa−Uv−). Three hypothetical subgroups of patients with sarcoid uveitis (Sa+Uv+ cases) were considered: (1) subgroup I: patients aged <45 years of both sexes and all ethnic origins; (2) subgroup II: Caucasian women aged >45 years; and (3) subgroup III: all other patients.ResultsA statistically significant difference in genotype frequencies was found between the groups Sa+Uv− and Sa−Uv− (p=3.2×10−6) and between the groups Sa+Uv+ and Sa+Uv− (p=7.1×10−3). There was no difference between the three subgroups of Sa+Uv+ patients. There was a statistically significant difference in genotype frequencies between Sa+Uv− and Sa+Uv+ subgroup II (p=0.005) but no difference between Sa+Uv− and Sa+Uv+ subgroup I.ConclusionNo association was found between G16071A and the susceptibility to sarcoid uveitis. BTNL2 gene G16071A SNP seems to be a predisposing factor for sarcoidosis except in Caucasian postmenopausal women with sarcoid uveitis in whom the GG genotype prevails. These and future results will help in understanding differences between particular subgroups of patients with sarcoid uveitis.

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