鸡体质量性状基因的全基因组关联研究

Abstract

Abstract:

The aim of this study was to use genome-wide association analysis to explore the candidate genes and molecular markers associated with various economic traits. The GWAS of the body weight at d1,d28,d56,d80,d100 of Beijing-You chicken using the Illumina 60K SNP Beadchip was performed. The results showed that there were 9 SNPs reaching 5% Bonferroni genome-wide significance, which were significantly associated with body weight at d28 and d100, including LYRM1, LDB2 and other genes near these SNPs; There were 96 SNPs reaching the significance of “suggestive linkage”, which were potentially associated with each indexes detected. The result revealed that these genes and SNPs laid a foundation for the development of techniques of marker assisted selection.

CLC Number:

S831.2

WU Dan, LIU Ran-ran, ZHAO Gui-ping, ZHENG Mai-qing, ZHANG Lei, HU Yao-dong, WEN Jie. Genome-wide Association Study of Genes Affecting Body Weight in Chicken[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, doi: .

0
/ / Recommend

Add to citation manager EndNote|Reference Manager|ProCite|BibTeX|RefWorks

URL: https://www.xmsyxb.com/EN/

https://www.xmsyxb.com/EN/Y2012/V43/I12/1887

References

［1］ZHOU H, DEEBN, CLOVER C M E, et al. Genome-wide linkage analysis to identify chromosomal regions affecting phenotypic traits in the chicken.I.growth and average daily gain1 ［J］.Poult Sci,2006,85(10):1700-1711.

［2］SIWEK M, CORNELISSEN S J B, BUITENHUIS A J, et al. Quantitative trait loci for body weight in layers differ from quantitative trait loci specific for antibody responses to sheep red blood cells ［J］.Poult Sci,2004,83(6):853-859.

［3］TANG S, OU J, SUN D, et al. A novel 62-bp indel mutation in the promoter region of transforming growth factor-beta 2 (TGFB2) gene is associated with body weight in chickens ［J］.Anim Genet,2010,42(1):108-112.

［4］HAN R L, LAN X Y, ZHANG L Z, et al. A novel single-nucleotide polymorphism of the visfatin gene and its associations with performance traits in the chicken ［J］.J Appl Genet, 2010, 51(1):59-65.

［5］张跟喜,丁馥香,是燕萍,等. 肌肉生长抑制素基因(MSTN)外显子1的多态性及其与边鸡生长性状的关联分析［J］.农业生物技术学报,2011,19(1):122-127.

［6］TANG S Q, SUN D X, OU J T, et al. Evaluation of the IGFs (IGF1 and IGF2) genes as candidates for growth, body measurement, carcass, and reproduction traits in Beijing You and Silkie chickens ［J］.Anim Biotechnol, 2010,21:104-113.

［7］FANG M X, NIE Q H, LUO C L, et al. Associations of GHSR gene polymorphisms with chicken growth and carcass traits ［J］.Mol Biol Rep,2010,37:423-428.

［8］侯启瑞,王金玉,王慧华,等.京海黄鸡LYZ基因外显子的遗传多态性及其与体重的关联分析［J］.中国畜牧兽医,2010,37(7):124-127.

［9］卢昕.对猪部分免疫性状的QTL定位及全基因组关联分析［D］.北京:中国农业大学,2006.

［10］HIRSCHHORN J N, DALY M J. Genome-wide association studies for common diseases and complex traits ［J］.Nat Rev,2005,6:95-108.

［11］GU X R, FENG C G, MA L, et al. Genome-wide association study of body weight in chicken F₂ resource population［J］. PLoS One,2011,6(7):e21872.

［12］PURCELL S, NEALE B, TODD-BROWN K, et al. PLINK: a tool set for whole-genome association and population-based linkage analyses ［J］.Am J Hum Genet,2007,81:559-575.

［13］NICODEMUS K K, LIU W, CHASE G A, et al. Comparison of type I error for multiple test corrections in large single-nucleotide polymorphism studies using principal components versus haplotype blocking algorithms ［J］.BMC Genet,2005,6(Suppl. 1):S78.

［14］ZHAO J H. Gap: Genetic analysis package ［J］. J Statistical Software, 2007, 23(8):18.

［15］PRICE A L, ZAITLEN N A, REICH D, et al. New approaches to population stratification in genome-wide association studies ［J］.Nat Rev Genet,2010,11(7):459-463.

［16］WANG Y J, LI J, KWOK A H Y, et al. A novel prolactin-like protein (PRL-L) gene in chickens and zebrafish: Cloning and characterization of its tissue expression ［J］. Gen Comp Endocrinol,2010,166:200-210.

［17］YORK R D, YAO H, DILLON T, et al. Rap1 mediates sustained MAP kinase activation induced by nerve growth factor ［J］.Nature,1998,392:622-626.

［18］LI Y P, HANDBERG K J, JUUL-MADSEN H R, et al. Transcriptional profiles of chicken embryo cell cultures following infection with infectious bursal disease virus ［J］.Arch Virol,2007,152:463-478.

［19］WAHLBERG P, CARLBORG , FOGLIO M, et al. Genetic analysis of an F₂ intercross between two chicken lines divergently selected for body-weight ［J］.BMC Genomics,2009,10:248-260.

［20］ZHU C, LIU Y Q, CHEN F K, et al. LYRM1, a gene that promotes proliferation and inhibits apoptosis during heart development ［J］.Molecules,2010,15:6974-6982.

［21］SAWAI S, KATO K, WAKAMATSU Y, et al. Organization and expression of the chicken N-myc gene ［J］.Mol Cell Biol,1990,10(5):2017.

［22］BERNSTEIN H G, BAUMANN B, DANOS P,et al. Regional and cellular distribution of neural visinin-like protein immunoreactivities (VILIP-1 and VILIP-3) in human brain ［J］.J Neurocytol,1999,28:655-662.

［23］SORANZO N, RIVADENEIRA F, HORSLEY U C, et al. Meta-analysis of genome-wide scans for human adult stature identifies novel loci and associations with measures of skeletal frame size ［J］.PLoS Genet,2009,5(4):e1000445.

［24］SOVIO U, BENNETT A J, MILLWOOD I Y, et al. Genetic determinants of height growth assessed longitudinally from infancy to adulthood in the northern finland birth cohort 1966 ［J］. PLoS Genet,2009,5(3):e1000409.

［25］OSTENDORFF H P, TURSUN B, CORNILS K, et al. Dynamic expression of LIM cofactors in the developing mouse neural tube ［J］. Dev Dynamics, 2006, 235(3):786-791.

［26］JAVERZAT S, FRANCO M, HERBERT J, et al. Correlating global gene regulation to angiogenesis in the developing chick extraembryonic vascular system ［J］.PLoS One,2009,4(11):e7856.

［27］LESTER D H, FARQUHARSON C, PATON I R, et al. A novel integral membrane protein is differentially expressed in the chick growth plate and maps to chromosome 1 ［J］. Anim Genet,1999,30:300-303.

［28］赵秀华,王金玉,张跟喜,等.鸡IGFBP-2基因的多态性及其与生长、繁殖性状的关系［J］.中国兽医学报,2011,38(10):1500-1504.

［29］TIWARI A, WALKER S M K, RAMACHANDRAN R. Cloning and characterization of chicken fat mass and obesity associated (Fto) gene: fasting affects Fto expression ［J］.Elsevier,2011,42(1):1-10.

［30］LI L Q, LEE J Y, GROSS J, et al. A requirement for Lim domain binding protein 1 in erythropoiesis ［J］. J Exp Med, 2010,207(12): 2543-2550.

［31］FORNAGE M, PAPANICOLAOU G, LEWIS C E, et al. Common INSIG2 polymorphisms are associated with age-related changes in body size and high-density lipoprotein cholesterol from young adulthood to middle age ［J］.Metabolism,2010,59(8):1084-1091.

[1]	TANG Xinxin, ZHENG Jumei, LUO Na, YING Fan, ZHU Dan, LI Sen, LIU Dawei, AN Bingxing, WEN Jie, ZHAO Guiping, LI Hegang. Genetic Mechanism of Broiler Leg Disease Based on Genome-Wide Association Analysis [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(1): 99-109.
[2]	XU Xiaojing, DONG Ruiling, WEI Limin, ZHAO Shaomeng, ZHAO Guiping, ZHANG Minhong, FENG Jinghai. Study on Growth Model of Wenchang Chickens [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(12): 4952-4961.
[3]	QI Lina, LU Xuelin, YANG Kaixuan, ZHOU Jin, LI Xianyu, LIU Ke, ZHANG Wengang, GU Xin, ZHANG Weijian. Analysis of Genetic Diversity and Genetic Structure of New Pudong Chicken Based on SNP Chips [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(12): 4962-4971.
[4]	WANG Yanxing, ZHANG Yushi, JI Haigang, LIU Yang, NIU Yufang, HAN Ruili, LIU Xiaojun, TIAN Yadong, KANG Xiangtao, LI Zhuanjian. Establishment and Analysis of the Chicken Skeletal Satellite Cell Line [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(12): 4972-4981.
[5]	FAN Chenyu, SHAN Yanju, ZHANG Ming, JI Gaige, JU Xiaojun, TU Yunjie, HE Xi, SHU Jingting, LIU Yifan, ZHANG Haihan. Genome-wide Association Study of Body Weight and Meat Quality Traits in Lihua Mahuang Chickens [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(12): 4982-4992.
[6]	CHEN Cheng, QIAO Xibo, SUN Yi, KANG Li, JIANG Yunliang. Study on the Polymorphism and Genetic Effect of the -868 Locus of FSHR Gene on Egg Laying Traits in Langya Chickens [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(11): 4560-4568.
[7]	JIN Sihua, JIA Fumin, HE Peili, JIA Yuqing, SHUI Fei, LIU Xuling, LIU Xing, WANG Xin, XU Man, GENG Zhaoyu. Effect of IHH Gene Overexpression on Proliferation and Differentiation of Chicken Primary Chondrocytes [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(11): 4569-4576.
[8]	CHEN Xuejiao, LIU Huijie, ZANG Lei, FENG Jing, PENG Da, ZHANG Hao. Transcriptome Data from Chicken Embryo Heart Tissue Identified Key Genes for Altitude Hypoxia Adaptation in Xueyu White Chickens [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(10): 4154-4163.
[9]	ZHANG Yinliang, YUE Qiaoxian, HUANG Chenxuan, CHEN Hui, WANG Dehe, ZHOU Rongyan. Construction of Tibia Transcript Profile of Laying Hens at the Early and Late Laying Stages and Analysis of Genes Related to Bone Metabolism [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(10): 4164-4173.
[10]	ZHENG Gang, LIAN Ling. Research Progress of Key Regulatory Gene DMRT1 in Chicken Sex Determination and Differentiation [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(8): 3152-3163.
[11]	BAI Lu, WANG Mengjie, MA Xiaochun, HE Zhengxiao, TAN Xiaodong, LIU Jie, ZHAO Guiping, WEN Jie, LIU Ranran. A Method for Quickly Mining the Characteristic SNP Markers Set of Chicken [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(8): 3252-3261.
[12]	CHEN Chun, KANG Zhaofeng, WEI Yue, LI Guanhong, WU Yanping, XIE Jinfang. Correlation of Wnt3a Gene Polymorphism with Skin Follicle Traits in Chongren Partridge Chicken [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(7): 2810-2823.
[13]	LIU Hang, WANG Huanhuan, GE Ying, ZHANG Lei, ZHANG Weiwu, WEI Yinghui, LI Qinghai, FAN Jinghui, ZHANG Xuedong. Screening of Candidate Genes of Skin Color of Black-Bone Chicken Based on Transcriptome and Proteome [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(6): 2320-2329.
[14]	WANG Hui, XU Mengyuan, LIU Lingkang, ZHENG Xibang, LI Gonghe, WU Wende. PhiC31 Integrase Triggers Site-specific Cassette Exchange in Chicken Fibroblast Cells through Electroporation [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(6): 2330-2342.
[15]	WANG Zheng, GUO Wenjie, CHENG Jin, YUAN Yitong, LUO Rong, XUE Yi, ZHANG Lihuan, ZHU Zhiwei, LI Huifeng. Association Study of Polymorphism in the Regulatory Region of Nutrient Transport-related Genes and Feed Conversion Ratio in Yellow-feather Broiler [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(6): 2343-2352.

Genome-wide Association Study of Genes Affecting Body Weight in Chicken

PDF (PC)

Knowledge

Abstract

Cite this article

share this article

References

Related Articles 15

Recommended Articles

Metrics

Comments