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Ardicli S, Dincel D, Samli H, Senturk N, Karalar B, Unlu S, Soyudal B, Kubad E, Balci F. Association of polymorphisms in lipid and energy metabolism-related genes with fattening performance in Simmental cattle. Anim Biotechnol 2023; 34:3428-3440. [PMID: 36459440 DOI: 10.1080/10495398.2022.2152557] [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: 12/04/2022]
Abstract
Lipid and energy metabolism are major constituents of mammal growth and thus fattening performance of cattle. This study was designed to evaluate the effects of polymorphisms in lipid and energy metabolism-related genes including oxidized low-density lipoprotein receptor 1 (OLR1), lactoferrin (LTF), stearoyl-CoA desaturase (SCD), beta-lactoglobulin (LGB), thyroglobulin (TG), annexin A9 (ANXA9), myogenic factor 5 (MYF5), protein kinase AMP-activated non-catalytic subunit gamma 3 (PRKAG3), and pituitary-specific transcriptional factor 1 (PIT1), on fattening performance in Simmental cattle. A total of 72 purebred Simmental bulls with a similar initial age and weight were fattened on the same farm for 10 months. Association analysis was performed using linear mixed models. The OLR1 marker was significantly associated with the final weight (FW), hot carcass weight (HCW), chilled carcass weight (CCW), dressing percentage (DP), and total weight gain (TWG). SCD affected the FW, TWG, and average daily live weight gain (ADWG). The present results clearly demonstrated the significant impact of the TG marker on fattening performance. It was highly significantly associated with the FW, HCW, CCW, and TWG. The SCD × TG and the OLR1 × TG interactions had remarkable effects on the traits analyzed. The GACC and CCCC haplotypes of the SCD × TG and OLR1 × TG, respectively, were found to be powerful markers for fattening performance in Simmentals. Novel associations in this study may be useful for further genetic evaluations to improve beef cattle breeding.
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Affiliation(s)
- Sena Ardicli
- Department of Genetics, Faculty of Veterinary Medicine, Bursa Uludag University, Bursa, Turkey
| | - Deniz Dincel
- Department of Genetics, Faculty of Veterinary Medicine, Bursa Uludag University, Bursa, Turkey
| | - Hale Samli
- Department of Genetics, Faculty of Veterinary Medicine, Bursa Uludag University, Bursa, Turkey
| | - Nursen Senturk
- Department of Molecular Biology and Genetics, Faculty of Science, Istanbul University, Istanbul, Turkey
| | - Beyza Karalar
- Department of Molecular Biology and Genetics, Faculty of Arts and Science, Bursa Uludag University, Bursa, Turkey
| | - Sıla Unlu
- Department of Molecular Biology and Genetics, Faculty of Arts and Science, Yıldız Technical University, Istanbul, Turkey
| | | | - Evrim Kubad
- Department of Animal Nutrition and Nutritional Disease, Faculty of Veterinary Medicine, Bursa Uludag University, Bursa, Turkey
| | - Faruk Balci
- Department of Genetics, Faculty of Veterinary Medicine, Bursa Uludag University, Bursa, Turkey
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Lestari D, Murtini S, Ulupi N, Gunawan A, Sumantri C. Novel MHC BLB2 gene polymorphism and its association with IgY concentration and Newcastle disease antibody titer in IPB-D2 chickens. Arch Anim Breed 2023; 66:275-283. [PMID: 37782567 PMCID: PMC10539726 DOI: 10.5194/aab-66-275-2023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Accepted: 08/11/2023] [Indexed: 10/04/2023] Open
Abstract
This study aimed to identify the polymorphism of the B Locus Beta 2 (BLB2) gene and its association with immunoglobulin Y (IgY) concentration and Newcastle disease (ND) antibody titer; we analyzed BLB2 gene expression in different categories of ND antibody titers in IPB-D2 chickens. The total sample used was 100 IPB-D2 chickens. Blood samples were collected at 21 weeks old for an ELISA (enzyme-linked immunoassay) test, an HI (hemagglutination inhibition) test, and genotyping. The method for BLB2 polymorphism was Sanger sequencing. Analysis of BLB2 gene expression was performed using the cecal tonsil tissue of IPB-D2 chickens. Polymorphism data were analyzed using SNPstats and DNAsp (DNA Sequence Polymorphism) software. The association of the single-nucleotide polymorphisms (SNPs) with IgY concentration and ND antibody titer was analyzed using SAS software (version 9.2). The genotype mean values were compared by means of a T test. The relative mRNA expression analysis was performed using a quantitative real-time polymerase chain reaction (qRT-PCR). The results showed that 13 SNPs were found in exon 2 and exon 3 in the BLB2 gene. As many as 4 out of the 13 SNPs were associated with IgY concentration. As many as 9 out the 13 SNPs may have changed amino acids. The Δ Ct value showed that the expression of the BLB2 gene in IPB-D2 chickens with high ND antibody titers is higher than IPB-D2 chickens with low ND antibody titers. In conclusion, the AA genotype of g.458 T > A was associated with high IgY concentrations, and the BLB2 gene presented with a high expression in IPB-D2 chickens with high ND antibody titers.
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Affiliation(s)
- Dwi Lestari
- Graduate School of Animal Production and Technology, Faculty of Animal Science, IPB University, Bogor, 16680, Indonesia
| | - Sri Murtini
- Department of Animal Disease and Veterinary Public Health, Faculty of Veterinary Medicine, IPB University, Bogor, 16680, Indonesia
| | - Niken Ulupi
- Department of Animal Production and Technology, Faculty of Animal Science, IPB University, Bogor, 16680, Indonesia
| | - Asep Gunawan
- Department of Animal Production and Technology, Faculty of Animal Science, IPB University, Bogor, 16680, Indonesia
| | - Cece Sumantri
- Department of Animal Production and Technology, Faculty of Animal Science, IPB University, Bogor, 16680, Indonesia
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Abioja M, Logunleko M, Majekodunmi B, Adekunle E, Shittu O, Odeyemi A, Nwosu E, Oke O, Iyasere O, Abiona J, Williams T, James I, Smith O, Daramola J. Roles of Candidate Genes in the Adaptation of Goats to Heat Stress: A Review. Small Rumin Res 2022. [DOI: 10.1016/j.smallrumres.2022.106878] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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Igoshin AV, Romashov GA, Chernyaeva EN, Elatkin NP, Yudin NS, Larkin DM. Comparative analysis of allele frequencies for DNA polymorphisms associated with disease and economically important traits in the genomes of Russian and foreign cattle breeds. Vavilovskii Zhurnal Genet Selektsii 2022; 26:298-307. [PMID: 35774360 PMCID: PMC9167823 DOI: 10.18699/vjgb-22-28] [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: 11/30/2021] [Revised: 12/20/2021] [Accepted: 12/30/2021] [Indexed: 11/19/2022] Open
Abstract
The genetic makeup of a breed including its genetic differences from other breeds determines its appearance and characteristics, including economically important traits and resistance to pathologies. To date, many loci controlling significant phenotypes have been identified, which is successfully used in the world practice of marker-assisted selection to improve breed properties. The aim of this study was a comparative analysis of frequencies for known causative nucleotide substitutions, insertions and deletions associated with disease and economically important traits in Russian and foreign cattle breeds. As a result, we identified frequencies of these DNA polymorphisms in the populations of Russian cattle breeds, compared them with those of foreign populations of the same breed, as well as other foreign breeds. Our results indicate similarities in frequencies for most of such alleles within breeds (populations of Russian and foreign breeding), as well as the relationship between the causative allele prevalence and the presence of phenotypic traits under the effect. We also found an excess of some undesirable alleles in the Russian cattle populations, which should be paid attention to when designing breeding programs. We found that the alleles increasing fertility in the Hereford breed have a higher frequency in the Russian Hereford population compared to the foreign counterpart. Interestingly, unlike for the European breeds, for Asian Turano-Mongolian Wagyu and Yakut cattle, there was a less clear link between phenotypic traits and frequencies of known causative alleles. Our work points to specific genetic variants that could be used to improve and/or maintain the performance of certain cattle breeds bred in the Russian Federation.
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Affiliation(s)
- A. V. Igoshin
- Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences
| | - G. A. Romashov
- Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences
| | | | | | - N. S. Yudin
- Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences
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Irving K, Wellenreuther M, Ritchie PA. Description of the growth hormone gene of the Australasian snapper, Chrysophrys auratus, and associated intra- and interspecific genetic variation. JOURNAL OF FISH BIOLOGY 2021; 99:1060-1070. [PMID: 34036582 DOI: 10.1111/jfb.14810] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2021] [Revised: 04/23/2021] [Accepted: 05/23/2021] [Indexed: 06/12/2023]
Abstract
The growth hormone (GH) gene of the marine teleost, the Australasian snapper (Chrysophrys auratus), was identified and characterized from the reference genome showing it was approximately 5577 bp in length and consisted of six exons and five introns. Large polymorphic repeat regions were found in the first and third introns, and putative transcription factor binding sites were identified. Phylogenetic analysis of the GH genes of perciform fish showed largely conserved coding regions and highly variable noncoding regions among species. Despite some exon sequence variation and an amino acid deletion identified between C. auratus and its sister species Chrysophrys/Pagrus major, the amino acid sequences and putative secondary structures were largely conserved across the Sparidae. A population-level assessment of 99 samples caught at five separate coastal locations in New Zealand revealed six variable alleles at the intron 1 site of the C. auratus GH gene. A population genetic analysis suggested that C. auratus from the five sample locations were largely panmictic, with no evidence for departure from the Hardy-Weinberg equilibrium, and have a high level of heterozygosity. Overall these results suggest that the GH gene is largely conserved across the coding regions, but some variability could be detected.
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Affiliation(s)
- Kate Irving
- School of Biological Sciences, Victoria University of Wellington, Wellington, New Zealand
| | - Maren Wellenreuther
- The New Zealand Institute for Plant and Food Research Limited, Nelson, New Zealand
- School of Biological Sciences, University of Auckland, Auckland, New Zealand
| | - Peter A Ritchie
- School of Biological Sciences, Victoria University of Wellington, Wellington, New Zealand
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El-Komy SM, Saleh AA, Abd El-Aziz RM, El-Magd MA. Association of GH polymorphisms with growth traits in buffaloes. Domest Anim Endocrinol 2021; 74:106541. [PMID: 32916521 DOI: 10.1016/j.domaniend.2020.106541] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/07/2020] [Revised: 07/28/2020] [Accepted: 08/11/2020] [Indexed: 10/23/2022]
Abstract
Members of the somatotrophic axis, especially GH and IGF1, are essential for growth. The association between GH polymorphisms and growth traits was numerously studied in cattle; however, no data are available for such association studies in buffalo. Therefore, this study was conducted to screen for polymorphisms in the GH gene and to study their putative association with growth traits in 200 Egyptian buffaloes. Polymerase chain reaction single-strand conformation polymorphism and sequencing were applied to look for polymorphisms in 3 loci spanning all exons and introns of buffalo GH. The C (MspI+) >T (MspI-) SNP in intron3, which is well known in cattle, was not detected in the examined buffaloes. However, 2 missense mutations were detected in exon5: one previously detected p.Leu153Val SNP, with very low frequencies for the mutant (Val) allele and one novel p.Asn174His SNP. At weaning age, the p.Leu153Val SNP was significantly associated with weaning body weight and gain with the positive effect of the wild allele (Leu) and higher GH serum, mRNA, and protein levels in animals with Leu/Asn and Leu/His haplotypes. At yearling age, the 2 SNPs associated with yearling weight and gain with positive effect for the mutant (Val and His) alleles with increased GH, and IGF1 serum, mRNA, and protein and GHR mRNA and protein levels in animals with Val/Asn haplotype. Therefore, the selection of Egyptian buffaloes with the Val/Asn haplotype could improve the growth traits of Egyptian buffaloes at yearling age which is the target age for perfect growing.
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Affiliation(s)
- S M El-Komy
- Department of Animal Production, Faculty of Agriculture, Tanta University, Tanta, Egypt
| | - A A Saleh
- Department of Animal Wealth Development, Veterinary Genetics & Genetic Engineering, Faculty of Veterinary Medicine, Zagazig University, Zagazig, Egypt
| | - R M Abd El-Aziz
- Department of Physiology, Faculty of Veterinary Medicine, Zagazig University, Zagazig, Egypt
| | - M A El-Magd
- Department of Anatomy & Embryology, Faculty of Veterinary Medicine, Kafrelsheikh University, Kafrelsheikh, Egypt.
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Goat Genomic Resources: The Search for Genes Associated with Its Economic Traits. Int J Genomics 2020; 2020:5940205. [PMID: 32904540 PMCID: PMC7456479 DOI: 10.1155/2020/5940205] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2020] [Revised: 06/30/2020] [Accepted: 07/24/2020] [Indexed: 11/25/2022] Open
Abstract
Goat plays a crucial role in human livelihoods, being a major source of meat, milk, fiber, and hides, particularly under adverse climatic conditions. The goat genomics related to the candidate gene approach is now being used to recognize molecular mechanisms that have different expressions of growth, reproductive, milk, wool, and disease resistance. The appropriate literature on this topic has been reviewed in this article. Several genetic characterization attempts of different goats have reported the existence of genotypic and morphological variations between different goat populations. As a result, different whole-genome sequences along with annotated gene sequences, gene function, and other genomic information of different goats are available in different databases. The main objective of this review is to search the genes associated with economic traits in goats. More than 271 candidate genes have been discovered in goats. Candidate genes influence the physiological pathway, metabolism, and expression of phenotypes. These genes have different functions on economically important traits. Some genes have pleiotropic effect for expression of phenotypic traits. Hence, recognizing candidate genes and their mutations that cause variations in gene expression and phenotype of an economic trait can help breeders look for genetic markers for specific economic traits. The availability of reference whole-genome assembly of goats, annotated genes, and transcriptomics makes comparative genomics a useful tool for systemic genetic upgradation. Identification and characterization of trait-associated sequence variations and gene will provide powerful means to give positive influences for future goat breeding program.
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Pal A, Pal A, Chakravarty AK. Mutations in growth hormone gene affect stability of protein structure leading to reduced growth, reproduction, and milk production in crossbred cattle-an insight. Domest Anim Endocrinol 2020; 71:106405. [PMID: 32032890 DOI: 10.1016/j.domaniend.2019.106405] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/11/2019] [Revised: 10/06/2019] [Accepted: 10/10/2019] [Indexed: 01/27/2023]
Abstract
The GH has a multifaceted role in growth, reproduction, and milk production. Nonsynonymous mutations identified as L153V were observed from GH1 (L) to GH2 (V) with higher genotypic frequency for GH1 being 0.87. GH2 (V) allele was identified as a rare allele and the population followed Hardy-Weinberg equilibrium. LL homozygote variant had significantly better growth, reproduction, and expected milk production at different ages in crossbred (CB) males. Reports are scanty explaining the molecular mechanism of how individuals with LV genotype were phenotypically inferior to that of wild-type LL. In the present study, it was explored that GH peptide with LV heterozygotes of GH gene, were observed to have reduced structural stability thermodynamically and thus functionally leads to reduced economic traits in CB animals. The fact was first time reported and confirmed through genomic analysis, bioinformatics, and later confirmed through immunohistochemistry. Differential expression analysis of the GH gene with respect to other genes in the hypothalamus-pituitary growth axis of CB cattle was also studied to have a complete insight of the GH gene.
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Affiliation(s)
- A Pal
- Department of Livestock Farm Complex, West Bengal University of Animal and Fishery Sciences, Kolkata-37, West Bengal, India.
| | - A Pal
- Department of Computer Science, Indian Institute of Technology, Kharagpur, Paschim Medinipur, West Bengal, India
| | - A K Chakravarty
- Department of Animal Genetics and Breeding, National Dairy Research Institute, Karnal, Haryana, India
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Bayıl Oğuzkan S, Bozkurt AS. A Study on the Effect of Prolactin Gene Variants on Milk Production Traits of Holstein Cattle. RUSS J GENET+ 2019. [DOI: 10.1134/s1022795419040082] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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10
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Ardicli S, Samli H, Vatansever B, Soyudal B, Dincel D, Balci F. Comprehensive assessment of candidate genes associated with fattening performance in Holstein-Friesian bulls. Arch Anim Breed 2019; 62:9-32. [PMID: 31807610 PMCID: PMC6852860 DOI: 10.5194/aab-62-9-2019] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2018] [Accepted: 01/10/2019] [Indexed: 01/13/2023] Open
Abstract
The objective of this study was to determine the association of single nucleotide polymorphisms (SNPs) in selected candidate genes with fattening performance traits in a commercial cattle herd. Fifteen SNPs in 12 candidate genes (LEP, FABP4, DGAT1, TG, IGF1, IGF1R, MYF5, LGB, CAPN1, CAST, GHR, and OLR1) were evaluated in 296 purebred Holstein-Friesian bulls using PCR-RFLP (polymerase chain reaction - restriction fragment length polymorphism). Associations between each segregating SNP and genetic merit for fattening performance were quantified using linear mixed models. Traits included in the study were fattening period, final weight, dry matter intake, feed conversion rate, and average daily weight gain. Apart from the general determination of the above-mentioned traits, each trait was evaluated based on the fattening periods between five selected target body weights (W1 = 100 kg, W2 = 200 kg, W3 = 300 kg, W4 = 400 kg, W5 = 450 kg). All markers with the exception of CAPN1 530, IGF1R, TG, and DGAT1 were associated with at least one of the traits. Furthermore, novel associations were observed for LEP × GHR, IGF1 × LEP, FABP4 3691 × FABP4 2834, and FAP4 3533 × LEP interactions. The results of this study confirm some previously reported associations. Moreover, novel associations have been identified, which may be incorporated into breeding programs to improve fattening performance.
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Affiliation(s)
- Sena Ardicli
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Hale Samli
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Buse Vatansever
- Department of Biology, Institute of Science, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Bahadir Soyudal
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Deniz Dincel
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
| | - Faruk Balci
- Laboratory of Genetics, Department of Genetics, Faculty of Veterinary Medicine, Uludag University, 16059 Nilufer, Bursa, Turkey
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Maskur R, Arman C. Association of a Novel Single Nucleotide Polymorphism in Growth Hormone Receptor Gene with Production Traits in Bali Cattle. ITALIAN JOURNAL OF ANIMAL SCIENCE 2016. [DOI: 10.4081/ijas.2014.3461] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Tsai HY, Hamilton A, Guy DR, Houston RD. Single nucleotide polymorphisms in the insulin-like growth factor 1 (IGF1) gene are associated with growth-related traits in farmed Atlantic salmon. Anim Genet 2014; 45:709-15. [PMID: 25090910 PMCID: PMC4171758 DOI: 10.1111/age.12202] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/28/2014] [Indexed: 11/28/2022]
Abstract
Understanding the genetic basis of variation in traits related to growth and fillet quality in Atlantic salmon is of importance to the aquaculture industry. Several growth-related QTL have been identified via the application of genetic markers. The IGF1 gene is considered a highly conserved and crucial growth-regulating gene in salmonid species. However, the association between polymorphisms in the IGF1 gene and growth-related traits in Atlantic salmon is unknown. Therefore, in this study, regions of the Atlantic salmon IGF1 gene were sequenced, aligned and compared across individuals. Three SNPs were identified in the putative promoter (SNP1, g.5763G>T; GenBank no. AGKD01012745), intron 1 (SNP2, g.7292C>T; GenBank no. AGKD01012745) and intron 3 (SNP3, g.4671A>C; GenBank no. AGKD01133398) regions respectively. These SNPs were genotyped in a population of 4800 commercial Atlantic salmon with data on several weight and fillet traits measured at harvest (at approximately 3 years of age). In a mixed model, association analysis of individual SNPs, SNP1 and SNP3 were both significantly associated with several weight traits (P < 0.05). The estimated additive effect on overall harvest weight was approximately 35 and 110 g for SNPs 1 and 3 respectively. A haplotype analysis confirmed the association between genetic variation in the IGF1 gene with overall body weight (P < 0.05) and fillet component traits (P < 0.05). Our findings suggest the identified nucleotide polymorphisms of the IGF1 gene may either affect farmed Atlantic salmon growth directly or be in population-wide linkage disequilibrium with causal variation, highlighting their possible utility as candidates for marker-assisted selection in the aquaculture industry.
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Affiliation(s)
- H Y Tsai
- The Roslin Institute and Royal (Dick) School of Veterinary Studies, The University of Edinburgh, Midlothian, EH25 9PS, UK
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Cardoso DF, de Souza FRP, de Camargo GMF, Fonseca PDDS, Fonseca LFS, Braz CU, Boligon AA, Mercadante MEZ, de Albuquerque LG, Tonhati H. Polymorphism analysis in genes of the somatotropic axis in Nellore cattle selected for growth. Gene 2014; 545:215-9. [DOI: 10.1016/j.gene.2014.05.033] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2014] [Revised: 05/05/2014] [Accepted: 05/13/2014] [Indexed: 11/26/2022]
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Zhang D, Shao Y, Jiang S, Li J, Xu X. Nibea coibor growth hormone gene: its phylogenetic significance, microsatellite variation and expression analysis. Gen Comp Endocrinol 2009; 163:233-41. [PMID: 19361510 DOI: 10.1016/j.ygcen.2009.03.030] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/31/2008] [Revised: 02/02/2009] [Accepted: 03/30/2009] [Indexed: 11/24/2022]
Abstract
The growth hormone (GH) gene has been characterized for a number of fishes and used to establish phylogenetic relationships and as a candidate gene for studies of genetic variation in connection with growth traits. In this study, we report the genomic structure of Nibea coibor GH (designated as ncGH) including its 5'-flanking region, being cloned by homology-cloning and chromosome walking methods. The ncGH gene spans approximately 3.0 kb and consists of six exons and five introns, as found for all cloned teleost GH genes with the exception of carps and catfish. The 5'-flanking region contains consensus sequences for a TATA box, a CRE, a pit-1alpha, a TRE, two HNF-3, a ERE and a GRE. Five microsatellites are identified in the ncGH gene and three of them are polymorphic marker. The open reading frame (ORF) of ncGH is 615 bp in length encoding a polypeptide of 204 amino acids with an estimated molecular mass of 23.04 kDa and theoretical isoelectric point of 7.79. The precursor of ncGH consists of a 17 amino-acid signal peptide and a 187 amino-acid mature peptide. The four Cys residues are located at conserved positions (Cys(69), Cys(177), Cys(194) and Cys(202)), and One possible site for N-glycosylation (Asn-X-Ser/Thr motif) is present at Asn(201). The coding region sequence of ncGH is used to align with the sequences of 18 other species from Percoidei and one species from Anabantoidei using Clustal X. A matrix of 612 bp was used to construct the phylogenetic trees using neighbor-joining and maximum parsimony methods. The phylogenetic trees by two methods are identical in most of the clades with high bootstrap support. Every family all forms independent monophyly on the phylogenetic trees, in the family, the different species also forms the monophyly according to the different genera. The results are also identical to those from morphological data, and demonstrated that the GH gene is very suitable for phylogenetic relationship analysis of Percoidei. To validate the predicted exon/intron boundaries, ncGH cDNA is cloned using RT-PCR, and tissue distributions are investigated using semi-quantitative RT-PCR method. The results indicate that the predicted exon/intron is correct, the ncGH mRNA are mainly expressed in pituitary, and weakly expressed in ovary, brain, liver, gill, intestine, muscle and hear, but not expressed in spleen and kidney.
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Affiliation(s)
- Dianchang Zhang
- Division of Aquaculture and Biotechnology, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Science, Guangzhou 510300, PR China
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A critical analysis of production-associated DNA polymorphisms in the genes of cattle, goat, sheep, and pig. Mamm Genome 2008; 19:591-617. [PMID: 18836775 DOI: 10.1007/s00335-008-9141-x] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2008] [Accepted: 08/12/2008] [Indexed: 10/21/2022]
Abstract
Increasing productivity is one of the main objectives in animal production. Traditional breeding methods have led to increased gains in some traits but gains are not easily attainable in traits with low heritabilities. Exploiting the genetic variations underlying desired phenotypes is the goal of today's animal producers. Such positive genetic variants must, however, be known before possible application. Consequently, candidate genes of traits of interest have been searched for possible relationships with such traits or to explain reported quantitative trait loci (QTL) for such traits. DNA variants or polymorphisms have been identified in many such genes and their relationships with production traits determined. However, only a few genes have been evaluated, given the wealth of information on reported QTL for production traits, and in most cases genes are only partially investigated. This review presents available information on DNA variants for production traits and discusses steps that are required for effective utilization of this information for successful marker-assisted selection programs.
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Curi RA, Palmieri DA, Suguisawa L, Oliveira HND, Silveira AC, Lopes CR. Growth and carcass traits associated with GH1/Alu I and POU1F1/Hinf I gene polymorphisms in Zebu and crossbred beef cattle. Genet Mol Biol 2006. [DOI: 10.1590/s1415-47572006000100012] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Affiliation(s)
- Rogério A. Curi
- Universidade Estadual Paulista Júlio de Mesquita Filho, Brasil
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Biase FH, Garnero ADV, Bezerra LA, Rosa AJ, Lôbo RB, Martelli L. Analysis of restriction fragment length polymorphism in the kappa-casein gene related to weight expected progeny difference in Nellore cattle. Genet Mol Biol 2005. [DOI: 10.1590/s1415-47572005000100014] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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MALAU-ADULI AEO, NIIBAYASHI T, KOJIMA T, OSHIMA K, MIZOGUCHI Y, KOMATSU M. Mapping the quantitative trait loci (QTL) for body shape and conformation measurements on BTA1 in Japanese Black cattle. Anim Sci J 2005. [DOI: 10.1111/j.1740-0929.2005.00233.x] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Tambasco-Talhari D, Alencar MMD, Paz CCPD, Cruz GMD, Rodrigues ADA, Packer IU, Coutinho LL, Regitano LCDA. Molecular marker heterozygosities and genetic distances as correlates of production traits in F1 bovine crosses. Genet Mol Biol 2005. [DOI: 10.1590/s1415-47572005000200007] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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Curi RA, Oliveira HND, Gimenes MA, Silveira AC, Lopes CR. Effects of CSN3 and LGB gene polymorphisms on production traits in beef cattle. Genet Mol Biol 2005. [DOI: 10.1590/s1415-47572005000200015] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Affiliation(s)
- Rogério A. Curi
- Universidade Estadual Paulista 'Júlio de Mesquita Filho', Brazil
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Pereira AP, Alencar MMD, Oliveira HND, Regitano LCDA. Association of GH and IGF-1 polymorphisms with growth traits in a synthetic beef cattle breed. Genet Mol Biol 2005. [DOI: 10.1590/s1415-47572005000200009] [Citation(s) in RCA: 32] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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