全基因组关联分析在德国牧羊犬髋关节发育不良研究中的应用现状
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摘要
犬髋关节发育不良(canine hip dysplasia,CHD)是犬常见的骨科疾病,传统放射学诊断对降低CHD发病率的作用有限,而基因诊断技术则可以有效促进CHD的育种改良。全基因组关联分析(genome wide association study,GWAS)是一种全基因组范围内的遗传标记的检测技术,对复杂性状功能基因的鉴定十分有效,已成为挖掘畜禽复杂疾病和性状遗传的重要方法。随着犬全基因组测序的完成以及犬不同密度SNP芯片的商业化,GWAS已经成为CHD致病基因筛选的一个重要手段。本文综述了GWAS的定义与影响因素,CHD在国外的育种现状及GWAS在德国牧羊犬中的研究进展。
Canine hip dysplasia( CHD) is one of the most prevalent developmental orthopedic diseases in dogs worldwide. Unfortunately,the effect of eradiation programs against this disease based on radiographic diagnosis is low. Integrating the use of diagnostic genetic tools into the current phenotype-based approach might be beneficial. Genome wide association study( GWAS) is a marker-assisted selection method with the whole genome data. It is efficient in diagnosing complex traits,and has become an important method in exploring into animal complex disease and inheritance of characters. As the achievement in dog genome sequencing and commercialization of the SNP chip,the strategy of genomic selection has become an important method for screening the major gene. In this review,we briefly summarize the definition,influence factors of GWAS,current situation of breeding of CHD in other countries and the use of GWAS in research on CHD in German shepherd dogs.
Canine hip dysplasia( CHD) is one of the most prevalent developmental orthopedic diseases in dogs worldwide. Unfortunately,the effect of eradiation programs against this disease based on radiographic diagnosis is low. Integrating the use of diagnostic genetic tools into the current phenotype-based approach might be beneficial. Genome wide association study( GWAS) is a marker-assisted selection method with the whole genome data. It is efficient in diagnosing complex traits,and has become an important method in exploring into animal complex disease and inheritance of characters. As the achievement in dog genome sequencing and commercialization of the SNP chip,the strategy of genomic selection has become an important method for screening the major gene. In this review,we briefly summarize the definition,influence factors of GWAS,current situation of breeding of CHD in other countries and the use of GWAS in research on CHD in German shepherd dogs.
引文
[1] Janutta V,Hamann H,Distl O. Genetic and phenotypic trends in canine hip dysplasia in the German population of German shepherd dogs[J]. Berl Munch Tierarztl,2008,121(34):102.
[2] BartoloméN,Segarra S,Artieda M,et al. A genetic predictive model for canine hip dysplasia:integration of genome wide association study(GWAS)and candidate gene approaches[J]. PLoS One,2015,10(4):e0122558.
[3] Oberbauer A M,Keller G G,Famula T R. Long-term genetic selection reduced prevalence of hip and elbow dysplasia in 60 dog breeds[J]. PLoS One,2017. 12(2):e0172918.
[4] Lindbladtoh K,Wade C M,Mikkelsen T S,et al. Genome sequence,comparative analysis and haplotype structure of the domestic dog[J]. Nature,2005,438(7069):803.
[5]潘东东,李正帮,张维,等.全基因组关联研究综述[J].应用概率统计,2014,30(1):84-103.
[6] Janutta V,Hamann H,Distl O. Complex segregation analysis of canine hip dysplasia in German shepherd dogs[J]. J Hered,2006,97(1):13-20.
[7] Guo G,Zhou Z,Wang Y,et al. Canine hip dysplasia is predictable by genotyping[J]. Osteoarthritis Cartilage,2011,19(4):420-429.
[8] Soo M,Worth A. Canine hip dysplasia:phenotypic scoring and the role of estimated breeding value analysis.[J]. New Zeal Vet J,2015,63(2):69-78.
[9] Stock K F,Klein S,Tellhelm B,et al. Genetic analyses of elbow and hip dysplasia in the German shepherd dog[J]. J Anim Breed Genet,2015,128(3):219-229.
[10] Leppnen M,Mki K,Juga J,et al. Factors affecting hip dysplasia in German shepherd dogs in Finland:efficacy of the current improvement programme[J]. J Small Anim Pract,2000,41(1):19.
[11]赵勤涛,李川武,张建华,等.德国牧羊犬髋关节发育不良的预防[J].黑龙江畜牧兽医,2017(20):225-227.
[12]赵勤涛,张建华,龚剑峰,等.犬髋关节发育不良的手术治疗进展[J].畜牧与兽医,2016,48(7):119-123.
[13] Todhunter R J,Mateescu R,Lust G,et al. Quantitative trait loci for hip dysplasia in a crossbreed canine pedigree[D]. Mamm Genome,2005,16(9):720.
[14] Sánchez-Molano E,Woolliams J A,Pong-Wong R,et al. Quantitative trait loci mapping for canine hip dysplasia and its related traits in UK Labrador Retrievers[J]. Bmc Genomics,2014,15(1):833.
[15] Verhoeven G,Fortrie R,Ryssen B V,et al. Worldwide screening for canine hip dysplasia:where are we now?[J]. Vet Surg,2012,41(1):10-19.
[16] Stock K F,Distl O. Simulation study on the effects of excluding offspring information for genetic evaluation versus using genomic markers for selection in dog breeding[J]. J Anim Breed Genet,2010,127(1):42.
[17] Marschall Y,Distl O. Mapping quantitative trait loci for canine hip dysplasia in German Shepherd dogs[J]. Mamm Genome,2007,18(12):861-870.
[18] Chase K,Lawler D F,Carrier D R,et al. Genetic regulation of osteoarthritis:A QTL regulating cranial and caudal acetabular osteophyte formation in the hip joint of the dog(Canis familiaris)[J]. Am J Med Genet A,2005,135A(3):334-335.
[19] Fels L,Marschall Y,Philipp U,et al. Multiple loci associated with canine hip dysplasia(CHD)in German shepherd dogs[J]. Mamm Genome,2014,25(56):262-269.
[20]周正奎.全基因组关联分析和全基因组预测法解析犬髋关节疾病[D].杨凌:西北农林科技大学,2011.
[21] Manz E,Tellhelm B,Krawczak M. Prospective evaluation of a patented DNA test for canine hip dysplasia(CHD)[J]. PLoS One,2017,12(8):e0182093.
[2] BartoloméN,Segarra S,Artieda M,et al. A genetic predictive model for canine hip dysplasia:integration of genome wide association study(GWAS)and candidate gene approaches[J]. PLoS One,2015,10(4):e0122558.
[3] Oberbauer A M,Keller G G,Famula T R. Long-term genetic selection reduced prevalence of hip and elbow dysplasia in 60 dog breeds[J]. PLoS One,2017. 12(2):e0172918.
[4] Lindbladtoh K,Wade C M,Mikkelsen T S,et al. Genome sequence,comparative analysis and haplotype structure of the domestic dog[J]. Nature,2005,438(7069):803.
[5]潘东东,李正帮,张维,等.全基因组关联研究综述[J].应用概率统计,2014,30(1):84-103.
[6] Janutta V,Hamann H,Distl O. Complex segregation analysis of canine hip dysplasia in German shepherd dogs[J]. J Hered,2006,97(1):13-20.
[7] Guo G,Zhou Z,Wang Y,et al. Canine hip dysplasia is predictable by genotyping[J]. Osteoarthritis Cartilage,2011,19(4):420-429.
[8] Soo M,Worth A. Canine hip dysplasia:phenotypic scoring and the role of estimated breeding value analysis.[J]. New Zeal Vet J,2015,63(2):69-78.
[9] Stock K F,Klein S,Tellhelm B,et al. Genetic analyses of elbow and hip dysplasia in the German shepherd dog[J]. J Anim Breed Genet,2015,128(3):219-229.
[10] Leppnen M,Mki K,Juga J,et al. Factors affecting hip dysplasia in German shepherd dogs in Finland:efficacy of the current improvement programme[J]. J Small Anim Pract,2000,41(1):19.
[11]赵勤涛,李川武,张建华,等.德国牧羊犬髋关节发育不良的预防[J].黑龙江畜牧兽医,2017(20):225-227.
[12]赵勤涛,张建华,龚剑峰,等.犬髋关节发育不良的手术治疗进展[J].畜牧与兽医,2016,48(7):119-123.
[13] Todhunter R J,Mateescu R,Lust G,et al. Quantitative trait loci for hip dysplasia in a crossbreed canine pedigree[D]. Mamm Genome,2005,16(9):720.
[14] Sánchez-Molano E,Woolliams J A,Pong-Wong R,et al. Quantitative trait loci mapping for canine hip dysplasia and its related traits in UK Labrador Retrievers[J]. Bmc Genomics,2014,15(1):833.
[15] Verhoeven G,Fortrie R,Ryssen B V,et al. Worldwide screening for canine hip dysplasia:where are we now?[J]. Vet Surg,2012,41(1):10-19.
[16] Stock K F,Distl O. Simulation study on the effects of excluding offspring information for genetic evaluation versus using genomic markers for selection in dog breeding[J]. J Anim Breed Genet,2010,127(1):42.
[17] Marschall Y,Distl O. Mapping quantitative trait loci for canine hip dysplasia in German Shepherd dogs[J]. Mamm Genome,2007,18(12):861-870.
[18] Chase K,Lawler D F,Carrier D R,et al. Genetic regulation of osteoarthritis:A QTL regulating cranial and caudal acetabular osteophyte formation in the hip joint of the dog(Canis familiaris)[J]. Am J Med Genet A,2005,135A(3):334-335.
[19] Fels L,Marschall Y,Philipp U,et al. Multiple loci associated with canine hip dysplasia(CHD)in German shepherd dogs[J]. Mamm Genome,2014,25(56):262-269.
[20]周正奎.全基因组关联分析和全基因组预测法解析犬髋关节疾病[D].杨凌:西北农林科技大学,2011.
[21] Manz E,Tellhelm B,Krawczak M. Prospective evaluation of a patented DNA test for canine hip dysplasia(CHD)[J]. PLoS One,2017,12(8):e0182093.
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