Identification of effective signaling pathways in cow's milk production using micro-RNA data

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Eskandarynasab S.; BAHREINI BEHZADI M.R.; ROUDBARI Z.

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Journal Paper

Paper Information

Journal: JOURNAL OF RUMINANT RESEARCH Year:2021 | Volume:9 | Issue:1 Page(s): 1-16

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Information Journal Paper

Title

Identification of effective signaling pathways in cow's milk production using micro-RNA data

Author(s)

Eskandarynasab S. | BAHREINI BEHZADI M.R. | ROUDBARI Z. | Issue Writer Certificate

Keywords

Bioinformatics

Biological pathway

Mammary gland

Target gene

Abstract

Background and objectives: Information from RNAs helps to understand the biological aspects of physiological pathways because they are the link between genotype and phenotype. MicroRNAs are molecules with 22 nucleotides in length and a single strand which can specifically affect the function and expression of genes, hence many studies have been done on the role of these molecules in various biological processes, such as milk production. The milk production trait is one of the most important traits in the dairy cattle industry. This trait is polygenic trait in farm animals and controlled by a large number of genes and each gene may be involved in various Biological pathways and mutually any Biological pathway can include a large number of genes. These relationships form a complex network which indicates the association of a large number of Biological pathways with a lot of genes. Signal molecules that can act as morphogens control the pattern of the gene network of tissue structure throughout the lifespan of the growing embryo stage to the adult organism. The morphogens depend on the amount of secretion and the destination of secretion source can produce different cellular responses. Therefore, the present study aimed to investigate Target genes of differentially expressed microRNAs in bovine mammary tissue to identify a number of Biological pathways involved in the milk production process. Materials and methods: In order to identify and investigate the Biological pathways involved in milk production, microRNA sequenced data were used which were extracted from ArrayExpress database with E-GEOD-61227 access number. In the present study, all stages of standardization of data, differences between the expression of microRNA, and significance determination were performed by GEO2R software. The criteria for the selection of microRNA in this study were corrected P-value<0. 05 and 1< Log fc <-1. Next, Bioinformatics tools were used to find the Target gene for each microRNA. The microRNAs with different expressions derived from the analysis in the previous step were introduced to TargetScan software for finding Target genes. After identifying Target genes for each microRNA, DAVID server was used for the investigation of biological data and functional analysis. Results: The results of this study showed that there are 23 microRNAs with different expressions that affect many genes. These genes are involved in the signaling pathways of TGF-β , WNT, MAPK, mTOR, PI3k-Akt, insulin, estrogen, and prolactin. Most of these signaling pathways are involved in cell growth and proliferation, Mammary gland development, and epithelial cell activity. Since these identified pathways are associated with milk production, the genes identified in these signaling pathways can be used to improve milk production traits. Conclusion: MAPK1, MAPK8, FASLG and PTEN genes are activated in most Biological pathways and they are associated with various genes, accordingly, these genes are the major genes in the process of milk production.

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APA: Copy

Eskandarynasab, S., BAHREINI BEHZADI, M.R., & ROUDBARI, Z.. (2021). Identification of effective signaling pathways in cow's milk production using micro-RNA data. JOURNAL OF RUMINANT RESEARCH, 9(1 ), 1-16. SID. https://sid.ir/paper/954892/en

Vancouver: Copy

Eskandarynasab S., BAHREINI BEHZADI M.R., ROUDBARI Z.. Identification of effective signaling pathways in cow's milk production using micro-RNA data. JOURNAL OF RUMINANT RESEARCH[Internet]. 2021;9(1 ):1-16. Available from: https://sid.ir/paper/954892/en

IEEE: Copy

S. Eskandarynasab, M.R. BAHREINI BEHZADI, and Z. ROUDBARI, “Identification of effective signaling pathways in cow's milk production using micro-RNA data,” JOURNAL OF RUMINANT RESEARCH, vol. 9, no. 1 , pp. 1–16, 2021, [Online]. Available: https://sid.ir/paper/954892/en

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