Gene set enrichment analysis using genome-wide association study to identify genes and biological pathways associated with twinning in Baluchi sheep

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Esmaeili fard S.M.; HAFEZIAN S.H.; GHOLIZADEH M.; Abdolahi Arpanahi R.

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Journal: Animal Production Research Year:2019 | Volume:8 | Issue:2 Page(s): 63-80

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Title

Gene set enrichment analysis using genome-wide association study to identify genes and biological pathways associated with twinning in Baluchi sheep

Author(s)

Esmaeili fard S.M. | HAFEZIAN S.H. | GHOLIZADEH M. | Abdolahi Arpanahi R. | Issue Writer Certificate

Keywords

TwinningQ1

Baluchi sheepQ2

SNPQ1

GSEA-SNPQ1

GWASQ1

Abstract

Baluchi sheep is one of the indigenous sheep breeds originating from the eastern part of Iran and it is adapted to the severe weather conditions. The economic efficiency of sheep breeding is clearly related to the reproduction efficiency of the ewes. In this study, Twinning trait was studied as an important reproductive trait. To identify the genes associated with Twinning trait, genome-wide association was done using 91 Baluchi ewes genotyped with 50k Illumina SNP chips. For this purpose, the extended repeatability model was used. In the next step, a gene set enrichment analysis was implemented to identify the biological pathways associated with the Twinning. Six SNP markers on chromosomes 1, 3, 10, 15 and 25 located in CTH, ANKRD13C, SRSF11, PTGER3, LDHB, LRRC40, and KCNMA1 genes were identified. According to pathway analysis, 25 pathways were associated with the Twinning trait. Among those pathways, the defense response biological pathway has an important role in the ovulation. Interferons and interleukins are the main cytokine proteins in this pathway. These cytokines create a process such as inflammation that causes oocytes release from the follicle into the oviduct for transport and fertilization. Cell adhesion and intercellular bridge pathways were other significant pathways. Cell junction pathway via the CX43 protein can affect the transfer of GDF9 effects to granulosa cells. To the best of our knowledge, this is the first study that reports indirect effects of GDF9 on Twinning trait in Iranian sheep.

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APA: Copy

Esmaeili fard, S.M., HAFEZIAN, S.H., GHOLIZADEH, M., & Abdolahi Arpanahi, R.. (2019). Gene set enrichment analysis using genome-wide association study to identify genes and biological pathways associated with twinning in Baluchi sheep. ANIMAL PRODUCTION RESEARCH, 8(2 ), 63-80. SID. https://sid.ir/paper/396373/en

Vancouver: Copy

Esmaeili fard S.M., HAFEZIAN S.H., GHOLIZADEH M., Abdolahi Arpanahi R.. Gene set enrichment analysis using genome-wide association study to identify genes and biological pathways associated with twinning in Baluchi sheep. ANIMAL PRODUCTION RESEARCH[Internet]. 2019;8(2 ):63-80. Available from: https://sid.ir/paper/396373/en

IEEE: Copy

S.M. Esmaeili fard, S.H. HAFEZIAN, M. GHOLIZADEH, and R. Abdolahi Arpanahi, “Gene set enrichment analysis using genome-wide association study to identify genes and biological pathways associated with twinning in Baluchi sheep,” ANIMAL PRODUCTION RESEARCH, vol. 8, no. 2 , pp. 63–80, 2019, [Online]. Available: https://sid.ir/paper/396373/en

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