Multi-breed genome-wide association studies across countries for electronically recorded behavior traits in local dual-purpose cows

被引:10
|
作者
Yin, Tong [1 ]
Jaeger, Maria [1 ]
Scheper, Carsten [1 ]
Grodkowski, Gregorz [2 ]
Sakowski, Tomasz [2 ]
Klopcic, Marija [3 ]
Bapst, Beat [4 ]
Koenig, Sven [1 ]
机构
[1] Justus Liebig Univ Giessen, Inst Anim Breeding & Genet, Giessen, Germany
[2] Polish Acad Sci, Inst Genet & Anim Breeding, Jastrzebiec, Poland
[3] Univ Ljubljana, Biotech Fac, Dept Anim Sci, Domzale, Slovenia
[4] Qualitas AG, Genet Evaluat Ctr, Zug, Switzerland
来源
PLOS ONE | 2019年 / 14卷 / 10期
关键词
LINKAGE DISEQUILIBRIUM; GENETIC CORRELATIONS; BODY CONDITION; FEED-INTAKE; DAIRY-COWS; CATTLE; HERITABILITY; EXPRESSION; SELECTION; HEALTH;
D O I
10.1371/journal.pone.0221973
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Basic bovine behavior is a crucial parameter influencing cattle domestication. In addition, behavior has an impact on cattle productivity, welfare and adaptation. The aim of the present study was to infer quantitative genetic and genomic mechanisms contributing to natural dual-purpose cow behavior in grazing systems. In this regard, we genotyped five dual-purpose breeds for a dense SNP marker panel from four different European countries. All cows from the across-country study were equipped with the same electronic recording devices. In this regard, we analyzed 97,049 longitudinal sensor behavior observations from 319 local dual-purpose cows for rumination, feeding, basic activity, high active, not active and ear temperature. According to the specific sensor behaviors and following a welfare protocol, we computed two different welfare indices. For genomic breed characterizations and multi-breed genome-wide association studies, sensor traits and test-day production records were merged with 35,826 SNP markers per cow. For the estimation of variance components, we used the pedigree relationship matrix and a combined similarity matrix that simultaneously included both pedigree and genotypes. Heritabilities for feeding, high active and not active were in a moderate range from 0.16 to 0.20. Estimates were very similar from both relationship matrix-modeling approaches and had quite small standard errors. Heritabilities for the remaining sensor traits (feeding, basic activity, ear temperature) and welfare indices were lower than 0.09. Five significant SNPs on chromosomes 11, 17, 27 and 29 were associated with rumination, and two different SNPs significantly influenced the sensor traits "not active" (chromosome 13) and "feeding" (chromosome 23). Gene annotation analyses inferred 22 potential candidate genes with a false discovery rate lower than 20%, mostly associated with rumination (13 genes) and feeding (8 genes). Mendelian randomization based on genomic variants (i.e., the instrumental variables) was used to infer causal inference between an exposure and an outcome. Significant regression coefficients among behavior traits indicate that all specific behavioral mechanisms contribute to similar physiological processes. The regression coefficients of rumination and feeding on milk yield were 0.10 kg/% and 0.12 kg/%, respectively, indicating their positive influence on dual-purpose cow productivity. Genomically, an improved welfare behavior of grazing cattle, i.e., a higher score for welfare indices, was significantly associated with increased fat and protein percentages.
引用
收藏
页数:23
相关论文
共 46 条
  • [21] A Multi-Breed Genome-Wide Association Analysis for Canine Hypothyroidism Identifies a Shared Major Risk Locus on CFA12
    Bianchi, Matteo
    Dahlgren, Stina
    Massey, Jonathan
    Dietschi, Elisabeth
    Kierczak, Marcin
    Lund-Ziener, Martine
    Sundberg, Katarina
    Thoresen, Stein Istre
    Kampe, Olle
    Andersson, Goran
    Ollier, William E. R.
    Hedhammar, Ake
    Leeb, Tosso
    Lindblad-Toh, Kerstin
    Kennedy, Lorna J.
    Lingaas, Frode
    Pielberg, Gerli Rosengren
    PLOS ONE, 2015, 10 (08):
  • [22] Single and longitudinal genome-wide association studies for dairy traits available in goats with three recorded lactations
    Luigi-Sierra, Maria Gracia
    Martinez, Amparo
    Macri, Martina
    Delgado, Juan Vicente
    Castello, Anna
    Alvarez, Javier Fernandez
    Such, Xavier
    Jordana, Jordi
    Amills, Marcel
    ANIMAL GENETICS, 2024, 55 (02) : 257 - 264
  • [23] Multi-Locus Genome-Wide Association Studies for 14 Main Agronomic Traits in Barley
    Hu, Xin
    Zuo, Jianfang
    Wang, Jibin
    Liu, Lipan
    Sun, Genlou
    Li, Chengdao
    Ren, Xifeng
    Sun, Dongfa
    FRONTIERS IN PLANT SCIENCE, 2018, 9
  • [24] Multi-locus genome-wide association studies for five yield-related traits in rice
    Zhong, Hua
    Liu, Shuai
    Sun, Tong
    Kong, Weilong
    Deng, Xiaoxiao
    Peng, Zhaohua
    Li, Yangsheng
    BMC PLANT BIOLOGY, 2021, 21 (01)
  • [25] Multi-model genome-wide association studies of leaf anatomical traits and vein architecture in rice
    Narawatthana, Supatthra
    Phansenee, Yotwarit
    Thammasamisorn, Bang-On
    Vejchasarn, Phanchita
    FRONTIERS IN PLANT SCIENCE, 2023, 14
  • [26] Multi-locus genome-wide association studies for five yield-related traits in rice
    Hua Zhong
    Shuai Liu
    Tong Sun
    Weilong Kong
    Xiaoxiao Deng
    Zhaohua Peng
    Yangsheng Li
    BMC Plant Biology, 21
  • [27] Meta-analysis of genome-wide association studies and gene networks analysis for milk production traits in Holstein cows
    Bakhshalizadeh, Somayeh
    Zerehdaran, Saeed
    Javadmanesh, Ali
    LIVESTOCK SCIENCE, 2021, 250
  • [28] Genomic Prediction and Genome-Wide Association Studies for Productivity, Conformation and Heat Tolerance Traits in Tropical Smallholder Dairy Cows
    Bang, Nguyen N.
    Hayes, Ben J.
    Lyons, Russell E.
    Randhawa, Imtiaz A. S.
    Gaughan, John B.
    Trach, Nguyen X.
    Mcneill, David M.
    JOURNAL OF ANIMAL BREEDING AND GENETICS, 2024,
  • [29] Breed of origin analysis in genome-wide association studies: enhancing SNP-based insights into production traits in a commercial Brangus population
    Zayas, Gabriel A.
    Rodriguez, Eduardo
    Hernandez, Aakilah
    Rezende, Fernanda M.
    Mateescu, Raluca G.
    BMC GENOMICS, 2024, 25 (01):
  • [30] Single and multi-trait genome-wide association studies identify genomic regions associated with phenological traits in cowpea
    Andrade, Mario Henrique Murad Leite
    Ferreira, Rebecca Caroline Ulbricht
    Fernandes Filho, Claudio Carlos
    Sipowicz, Pablo
    Rios, Esteban Fernando
    CROP SCIENCE, 2023, 63 (06) : 3443 - 3456