Genomic associations with somatic cell score in first-lactation Holstein cows

S Wijga, JWM Bastiaansen, E Wall, E Strandberg, Y De Haas, L Giblin, H Bovenhuis

    Research output: Contribution to journalArticle

    16 Citations (Scopus)

    Abstract

    This genome-wide association study aimed to identify loci associated with lactation-average somatic cell score (LASCS) and the standard deviation of test-day somatic cell score (SCS-SD). It is one of the first studies to combine detailed phenotypic and genotypic cow data from research dairy herds located in different countries. The combined data set contained up to 52 individual test-days per lactation and thereby aimed to capture temporary increases in somatic cell score associated with infection. Phenotypic data for analysis consisted of 46,882 test-day records on 1,484 cows, and genotypic data consisted of 37,590 single nucleotide polymorphisms (SNP). Using an animal model, the associations between each individual SNP and the phenotypic data were estimated. To account for the risk of false positives, a false discovery rate threshold of 0.20 was set. The analyses showed that LASCS was significantly associated with a SNP on Bos taurus autosome (BTA) 4 and a SNP on BTA18. Likewise, SCS-SD was associated with this SNP on BTA18. In addition, SCS-SD significantly associated with a SNP on BTA6. Relatively few associations were found, suggesting that LASCS and SCS-SD are controlled by multiple loci distributed across the genome, each with a relatively small effect. Increased knowledge on genetic regulation of LASCS and SCS-SD may aid in identification of genes that play a role in mastitis resistance. Such knowledge helps us understand the genetic mechanisms leading to mastitis and in discovery of targets for mastitis therapeutics.
    Original languageEnglish
    Pages (from-to)899 - 908
    Number of pages10
    JournalJournal of Dairy Science
    Publication statusFirst published - 2012

    Fingerprint

    somatic cells
    single nucleotide polymorphism
    Holstein
    lactation
    genomics
    cows
    mastitis
    loci
    autosomes
    testing
    dairy herds
    data analysis
    animal models
    therapeutics
    genome
    cattle
    infection
    genes

    Bibliographical note

    1023260

    Keywords

    • Dairy cow
    • Genome wide
    • Mastitis
    • Single nucleotide polymorphism

    Cite this

    Wijga, S., Bastiaansen, JWM., Wall, E., Strandberg, E., De Haas, Y., Giblin, L., & Bovenhuis, H. (2012). Genomic associations with somatic cell score in first-lactation Holstein cows. Journal of Dairy Science, 899 - 908.
    Wijga, S ; Bastiaansen, JWM ; Wall, E ; Strandberg, E ; De Haas, Y ; Giblin, L ; Bovenhuis, H. / Genomic associations with somatic cell score in first-lactation Holstein cows. In: Journal of Dairy Science. 2012 ; pp. 899 - 908.
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    Wijga, S, Bastiaansen, JWM, Wall, E, Strandberg, E, De Haas, Y, Giblin, L & Bovenhuis, H 2012, 'Genomic associations with somatic cell score in first-lactation Holstein cows', Journal of Dairy Science, pp. 899 - 908.

    Genomic associations with somatic cell score in first-lactation Holstein cows. / Wijga, S; Bastiaansen, JWM; Wall, E; Strandberg, E; De Haas, Y; Giblin, L; Bovenhuis, H.

    In: Journal of Dairy Science, 2012, p. 899 - 908.

    Research output: Contribution to journalArticle

    TY - JOUR

    T1 - Genomic associations with somatic cell score in first-lactation Holstein cows

    AU - Wijga, S

    AU - Bastiaansen, JWM

    AU - Wall, E

    AU - Strandberg, E

    AU - De Haas, Y

    AU - Giblin, L

    AU - Bovenhuis, H

    N1 - 1023260

    PY - 2012

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    N2 - This genome-wide association study aimed to identify loci associated with lactation-average somatic cell score (LASCS) and the standard deviation of test-day somatic cell score (SCS-SD). It is one of the first studies to combine detailed phenotypic and genotypic cow data from research dairy herds located in different countries. The combined data set contained up to 52 individual test-days per lactation and thereby aimed to capture temporary increases in somatic cell score associated with infection. Phenotypic data for analysis consisted of 46,882 test-day records on 1,484 cows, and genotypic data consisted of 37,590 single nucleotide polymorphisms (SNP). Using an animal model, the associations between each individual SNP and the phenotypic data were estimated. To account for the risk of false positives, a false discovery rate threshold of 0.20 was set. The analyses showed that LASCS was significantly associated with a SNP on Bos taurus autosome (BTA) 4 and a SNP on BTA18. Likewise, SCS-SD was associated with this SNP on BTA18. In addition, SCS-SD significantly associated with a SNP on BTA6. Relatively few associations were found, suggesting that LASCS and SCS-SD are controlled by multiple loci distributed across the genome, each with a relatively small effect. Increased knowledge on genetic regulation of LASCS and SCS-SD may aid in identification of genes that play a role in mastitis resistance. Such knowledge helps us understand the genetic mechanisms leading to mastitis and in discovery of targets for mastitis therapeutics.

    AB - This genome-wide association study aimed to identify loci associated with lactation-average somatic cell score (LASCS) and the standard deviation of test-day somatic cell score (SCS-SD). It is one of the first studies to combine detailed phenotypic and genotypic cow data from research dairy herds located in different countries. The combined data set contained up to 52 individual test-days per lactation and thereby aimed to capture temporary increases in somatic cell score associated with infection. Phenotypic data for analysis consisted of 46,882 test-day records on 1,484 cows, and genotypic data consisted of 37,590 single nucleotide polymorphisms (SNP). Using an animal model, the associations between each individual SNP and the phenotypic data were estimated. To account for the risk of false positives, a false discovery rate threshold of 0.20 was set. The analyses showed that LASCS was significantly associated with a SNP on Bos taurus autosome (BTA) 4 and a SNP on BTA18. Likewise, SCS-SD was associated with this SNP on BTA18. In addition, SCS-SD significantly associated with a SNP on BTA6. Relatively few associations were found, suggesting that LASCS and SCS-SD are controlled by multiple loci distributed across the genome, each with a relatively small effect. Increased knowledge on genetic regulation of LASCS and SCS-SD may aid in identification of genes that play a role in mastitis resistance. Such knowledge helps us understand the genetic mechanisms leading to mastitis and in discovery of targets for mastitis therapeutics.

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    Wijga S, Bastiaansen JWM, Wall E, Strandberg E, De Haas Y, Giblin L et al. Genomic associations with somatic cell score in first-lactation Holstein cows. Journal of Dairy Science. 2012;899 - 908.