Study of genes affecting the production of wool fibers in sheep based on ontology analysis
ObjectiveThe importance of wool has led to extensive research on its structure and genetic since decades ago. Identifying genes affecting economic traits is one of the most important goals of breeding in sheep. The genetic and functional potential of genes can be used to obtain animal products with...
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| Format: | Article |
| Language: | fas |
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Shahid Bahonar University of Kerman
2023-09-01
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| Series: | مجله بیوتکنولوژی کشاورزی |
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| Online Access: | https://jab.uk.ac.ir/article_3877_a0473c49947bb7a2f340a58dfb10ea78.pdf |
| _version_ | 1797389020642148352 |
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| author | Arsalan Barazandeh |
| author_facet | Arsalan Barazandeh |
| author_sort | Arsalan Barazandeh |
| collection | DOAJ |
| description | ObjectiveThe importance of wool has led to extensive research on its structure and genetic since decades ago. Identifying genes affecting economic traits is one of the most important goals of breeding in sheep. The genetic and functional potential of genes can be used to obtain animal products with the best quality and quantity. For the analysis of large data, sequencing software is cost-effective, which has greatly helped to understand the mechanisms and genetic background of various phenotypic traits in sheep. Identifying different characteristics of candidate genes and types of genotypes related to important phenotypic traits is essential in animal breeding. Therefore, the aim of the present study is to identify the genes affecting the production of wool fibers in sheep based on the functional analysis of those genes.Materials and methodsIn order to identify genes affecting wool fibers in sheep, the data used in this research were downloaded from the GEO database with access number GSE85844. In the current study, the criterion for selecting genes is the expression difference in the range 0.3 < LogFC <-0.3 and P-value at the 5% level. After identifying and specifying the genes with significant difference (increased and decreased expression), DAVID database was used to analyze the ontology of genes. In order to investigate the interaction and relationship between the genes, the STRING database was used and the Cytoscape software package was utilized to analyze the created network. Results1008 genes with different and significant expression were identified (p<0.05). Genes with Log FC <-0.3, have low expression and their number was 431, and genes with Log FC > 0.3 have high expression and their number is 577. The ontology results for CHRD, PLOD1, BMP4 and ITGA5 genes showed that these genes are effective in the pathways related to hair morphogenesis and construction, hair follicle regeneration and development and density of skin.Conclusionsselecting to improve the quality of wool produced in sheep by using these findings will accelerate the genetic progress of related breeding programs. |
| first_indexed | 2024-03-08T22:49:46Z |
| format | Article |
| id | doaj.art-86d9c4a4cfa7462281037de1524aae79 |
| institution | Directory Open Access Journal |
| issn | 2228-6705 2228-6500 |
| language | fas |
| last_indexed | 2024-03-08T22:49:46Z |
| publishDate | 2023-09-01 |
| publisher | Shahid Bahonar University of Kerman |
| record_format | Article |
| series | مجله بیوتکنولوژی کشاورزی |
| spelling | doaj.art-86d9c4a4cfa7462281037de1524aae792023-12-16T17:42:30ZfasShahid Bahonar University of Kermanمجله بیوتکنولوژی کشاورزی2228-67052228-65002023-09-01153254010.22103/jab.2023.20603.14433877Study of genes affecting the production of wool fibers in sheep based on ontology analysisArsalan Barazandeh0Associate Professor, Department of Animal Science, Faculty of Agriculture, University of Jiroft, Jiroft, IranObjectiveThe importance of wool has led to extensive research on its structure and genetic since decades ago. Identifying genes affecting economic traits is one of the most important goals of breeding in sheep. The genetic and functional potential of genes can be used to obtain animal products with the best quality and quantity. For the analysis of large data, sequencing software is cost-effective, which has greatly helped to understand the mechanisms and genetic background of various phenotypic traits in sheep. Identifying different characteristics of candidate genes and types of genotypes related to important phenotypic traits is essential in animal breeding. Therefore, the aim of the present study is to identify the genes affecting the production of wool fibers in sheep based on the functional analysis of those genes.Materials and methodsIn order to identify genes affecting wool fibers in sheep, the data used in this research were downloaded from the GEO database with access number GSE85844. In the current study, the criterion for selecting genes is the expression difference in the range 0.3 < LogFC <-0.3 and P-value at the 5% level. After identifying and specifying the genes with significant difference (increased and decreased expression), DAVID database was used to analyze the ontology of genes. In order to investigate the interaction and relationship between the genes, the STRING database was used and the Cytoscape software package was utilized to analyze the created network. Results1008 genes with different and significant expression were identified (p<0.05). Genes with Log FC <-0.3, have low expression and their number was 431, and genes with Log FC > 0.3 have high expression and their number is 577. The ontology results for CHRD, PLOD1, BMP4 and ITGA5 genes showed that these genes are effective in the pathways related to hair morphogenesis and construction, hair follicle regeneration and development and density of skin.Conclusionsselecting to improve the quality of wool produced in sheep by using these findings will accelerate the genetic progress of related breeding programs.https://jab.uk.ac.ir/article_3877_a0473c49947bb7a2f340a58dfb10ea78.pdfwoolnetwork analysisgene expressionontology |
| spellingShingle | Arsalan Barazandeh Study of genes affecting the production of wool fibers in sheep based on ontology analysis مجله بیوتکنولوژی کشاورزی wool network analysis gene expression ontology |
| title | Study of genes affecting the production of wool fibers in sheep based on ontology analysis |
| title_full | Study of genes affecting the production of wool fibers in sheep based on ontology analysis |
| title_fullStr | Study of genes affecting the production of wool fibers in sheep based on ontology analysis |
| title_full_unstemmed | Study of genes affecting the production of wool fibers in sheep based on ontology analysis |
| title_short | Study of genes affecting the production of wool fibers in sheep based on ontology analysis |
| title_sort | study of genes affecting the production of wool fibers in sheep based on ontology analysis |
| topic | wool network analysis gene expression ontology |
| url | https://jab.uk.ac.ir/article_3877_a0473c49947bb7a2f340a58dfb10ea78.pdf |
| work_keys_str_mv | AT arsalanbarazandeh studyofgenesaffectingtheproductionofwoolfibersinsheepbasedonontologyanalysis |