Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep

Antonios Kominakis; Aggeliki Saridaki; George Antonakos

doi:doi:10.11648/j.ijgg.20190704.13

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Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep

Antonios Kominakis, Aggeliki Saridaki, George Antonakos

Published in International Journal of Genetics and Genomics (Volume 7, Issue 4)

Received: 18 July 2019 Accepted: 11 September 2019 Published: 21 October 2019

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Abstract

Aim of the present study was to identify genomic regions and candidate genes impacting on somatic cell count in the Frizarta dairy sheep. A total number of 482 Frizarta ewes genotyped with the medium density SNP array with available records on milk somatic cell count were used. Associations between genomic markers and the trait under study were detected by application of a multi-locus mixed model treating markers as fixed additive effects. Positional candidate genes identified within 1Mb flanking distances from significant markers were in silico prioritized based on their functional similarity to a training gene list including 1,120 genes associated with the term ‘immunity’. Association analysis pinpointed 4 chromosome-wide significant SNPs dispersed on four autosomes (OAR2, OAR18, OAR19 and OAR22). A total number of 37 positional candidate genes were identified within the searched genomic distances while 13 candidate genes were highly prioritized. Seven highly prioritized genes (NFIB, GFRA1, PSIP1, ARHGAP5, HECTD1, EMX2, STRN3) along with genes FREM1 and GPR33 had evidenced involvement in immune-related processes. Current results extent previous findings by providing novel candidate genes for the somatic cell count phenotype in dairy sheep.

Published in	International Journal of Genetics and Genomics (Volume 7, Issue 4)
DOI	10.11648/j.ijgg.20190704.13
Page(s)	103-109
Creative Commons	This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.
Copyright	Copyright © The Author(s), 2019. Published by Science Publishing Group

Keywords

Somatic Cell Count, Mastitis, Dairy Sheep, GWAS, Prioritization Analysis

References

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APA Style

Antonios Kominakis, Aggeliki Saridaki, George Antonakos. (2019). Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep. International Journal of Genetics and Genomics, 7(4), 103-109. https://doi.org/10.11648/j.ijgg.20190704.13

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ACS Style

Antonios Kominakis; Aggeliki Saridaki; George Antonakos. Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep. Int. J. Genet. Genomics 2019, 7(4), 103-109. doi: 10.11648/j.ijgg.20190704.13

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AMA Style

Antonios Kominakis, Aggeliki Saridaki, George Antonakos. Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep. Int J Genet Genomics. 2019;7(4):103-109. doi: 10.11648/j.ijgg.20190704.13

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@article{10.11648/j.ijgg.20190704.13,
  author = {Antonios Kominakis and Aggeliki Saridaki and George Antonakos},
  title = {Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep},
  journal = {International Journal of Genetics and Genomics},
  volume = {7},
  number = {4},
  pages = {103-109},
  doi = {10.11648/j.ijgg.20190704.13},
  url = {https://doi.org/10.11648/j.ijgg.20190704.13},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijgg.20190704.13},
  abstract = {Aim of the present study was to identify genomic regions and candidate genes impacting on somatic cell count in the Frizarta dairy sheep. A total number of 482 Frizarta ewes genotyped with the medium density SNP array with available records on milk somatic cell count were used. Associations between genomic markers and the trait under study were detected by application of a multi-locus mixed model treating markers as fixed additive effects. Positional candidate genes identified within 1Mb flanking distances from significant markers were in silico prioritized based on their functional similarity to a training gene list including 1,120 genes associated with the term ‘immunity’. Association analysis pinpointed 4 chromosome-wide significant SNPs dispersed on four autosomes (OAR2, OAR18, OAR19 and OAR22). A total number of 37 positional candidate genes were identified within the searched genomic distances while 13 candidate genes were highly prioritized. Seven highly prioritized genes (NFIB, GFRA1, PSIP1, ARHGAP5, HECTD1, EMX2, STRN3) along with genes FREM1 and GPR33 had evidenced involvement in immune-related processes. Current results extent previous findings by providing novel candidate genes for the somatic cell count phenotype in dairy sheep.},
 year = {2019}
}

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TY  - JOUR
T1  - Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep
AU  - Antonios Kominakis
AU  - Aggeliki Saridaki
AU  - George Antonakos
Y1  - 2019/10/21
PY  - 2019
N1  - https://doi.org/10.11648/j.ijgg.20190704.13
DO  - 10.11648/j.ijgg.20190704.13
T2  - International Journal of Genetics and Genomics
JF  - International Journal of Genetics and Genomics
JO  - International Journal of Genetics and Genomics
SP  - 103
EP  - 109
PB  - Science Publishing Group
SN  - 2376-7359
UR  - https://doi.org/10.11648/j.ijgg.20190704.13
AB  - Aim of the present study was to identify genomic regions and candidate genes impacting on somatic cell count in the Frizarta dairy sheep. A total number of 482 Frizarta ewes genotyped with the medium density SNP array with available records on milk somatic cell count were used. Associations between genomic markers and the trait under study were detected by application of a multi-locus mixed model treating markers as fixed additive effects. Positional candidate genes identified within 1Mb flanking distances from significant markers were in silico prioritized based on their functional similarity to a training gene list including 1,120 genes associated with the term ‘immunity’. Association analysis pinpointed 4 chromosome-wide significant SNPs dispersed on four autosomes (OAR2, OAR18, OAR19 and OAR22). A total number of 37 positional candidate genes were identified within the searched genomic distances while 13 candidate genes were highly prioritized. Seven highly prioritized genes (NFIB, GFRA1, PSIP1, ARHGAP5, HECTD1, EMX2, STRN3) along with genes FREM1 and GPR33 had evidenced involvement in immune-related processes. Current results extent previous findings by providing novel candidate genes for the somatic cell count phenotype in dairy sheep.
VL  - 7
IS  - 4
ER  -

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Author Information

Antonios Kominakis

Department of Animal Science, Agricultural University of Athens, Athens, Greece
Aggeliki Saridaki

School of Environmental Engineering, Technical University of Crete, University Campus, Chania, Greece
George Antonakos

Agricultural and Livestock Union of Western Greece, Lepenou, Greece

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Plain Text BibTeX RIS

APA Style

Antonios Kominakis, Aggeliki Saridaki, George Antonakos. (2019). Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep. International Journal of Genetics and Genomics, 7(4), 103-109. https://doi.org/10.11648/j.ijgg.20190704.13

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ACS Style

Antonios Kominakis; Aggeliki Saridaki; George Antonakos. Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep. Int. J. Genet. Genomics 2019, 7(4), 103-109. doi: 10.11648/j.ijgg.20190704.13

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AMA Style

Antonios Kominakis, Aggeliki Saridaki, George Antonakos. Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep. Int J Genet Genomics. 2019;7(4):103-109. doi: 10.11648/j.ijgg.20190704.13

Copy | Download

@article{10.11648/j.ijgg.20190704.13,
  author = {Antonios Kominakis and Aggeliki Saridaki and George Antonakos},
  title = {Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep},
  journal = {International Journal of Genetics and Genomics},
  volume = {7},
  number = {4},
  pages = {103-109},
  doi = {10.11648/j.ijgg.20190704.13},
  url = {https://doi.org/10.11648/j.ijgg.20190704.13},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijgg.20190704.13},
  abstract = {Aim of the present study was to identify genomic regions and candidate genes impacting on somatic cell count in the Frizarta dairy sheep. A total number of 482 Frizarta ewes genotyped with the medium density SNP array with available records on milk somatic cell count were used. Associations between genomic markers and the trait under study were detected by application of a multi-locus mixed model treating markers as fixed additive effects. Positional candidate genes identified within 1Mb flanking distances from significant markers were in silico prioritized based on their functional similarity to a training gene list including 1,120 genes associated with the term ‘immunity’. Association analysis pinpointed 4 chromosome-wide significant SNPs dispersed on four autosomes (OAR2, OAR18, OAR19 and OAR22). A total number of 37 positional candidate genes were identified within the searched genomic distances while 13 candidate genes were highly prioritized. Seven highly prioritized genes (NFIB, GFRA1, PSIP1, ARHGAP5, HECTD1, EMX2, STRN3) along with genes FREM1 and GPR33 had evidenced involvement in immune-related processes. Current results extent previous findings by providing novel candidate genes for the somatic cell count phenotype in dairy sheep.},
 year = {2019}
}

Copy | Download

TY  - JOUR
T1  - Novel Candidate Genes for Somatic Cell Count in Frizarta Dairy Sheep
AU  - Antonios Kominakis
AU  - Aggeliki Saridaki
AU  - George Antonakos
Y1  - 2019/10/21
PY  - 2019
N1  - https://doi.org/10.11648/j.ijgg.20190704.13
DO  - 10.11648/j.ijgg.20190704.13
T2  - International Journal of Genetics and Genomics
JF  - International Journal of Genetics and Genomics
JO  - International Journal of Genetics and Genomics
SP  - 103
EP  - 109
PB  - Science Publishing Group
SN  - 2376-7359
UR  - https://doi.org/10.11648/j.ijgg.20190704.13
AB  - Aim of the present study was to identify genomic regions and candidate genes impacting on somatic cell count in the Frizarta dairy sheep. A total number of 482 Frizarta ewes genotyped with the medium density SNP array with available records on milk somatic cell count were used. Associations between genomic markers and the trait under study were detected by application of a multi-locus mixed model treating markers as fixed additive effects. Positional candidate genes identified within 1Mb flanking distances from significant markers were in silico prioritized based on their functional similarity to a training gene list including 1,120 genes associated with the term ‘immunity’. Association analysis pinpointed 4 chromosome-wide significant SNPs dispersed on four autosomes (OAR2, OAR18, OAR19 and OAR22). A total number of 37 positional candidate genes were identified within the searched genomic distances while 13 candidate genes were highly prioritized. Seven highly prioritized genes (NFIB, GFRA1, PSIP1, ARHGAP5, HECTD1, EMX2, STRN3) along with genes FREM1 and GPR33 had evidenced involvement in immune-related processes. Current results extent previous findings by providing novel candidate genes for the somatic cell count phenotype in dairy sheep.
VL  - 7
IS  - 4
ER  -

Copy | Download