Evolution, characterization and expression analysis of Sox gene family in rainbow trout (Oncorhynchus mykiss)
The Sox transcription factor family plays an important role in various biological processes such as animal sex determination and multiple organ development. We used online databases to analyze the gene structure, chemical characteristics, and evolutionary relationship of Sox family genes through bio...
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| Format: | Article |
| Language: | English |
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Czech Academy of Agricultural Sciences
2022-04-01
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| Series: | Czech Journal of Animal Science |
| Subjects: | |
| Online Access: | https://cjas.agriculturejournals.cz/artkey/cjs-202204-0004_evolution-characterization-and-expression-analysis-of-sox-gene-family-in-rainbow-trout-oncorhynchus-mykiss.php |
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| author | Fang Ma Yali Zou Ruilin Ma Xin Chen Lanfang Ma |
| author_facet | Fang Ma Yali Zou Ruilin Ma Xin Chen Lanfang Ma |
| author_sort | Fang Ma |
| collection | DOAJ |
| description | The Sox transcription factor family plays an important role in various biological processes such as animal sex determination and multiple organ development. We used online databases to analyze the gene structure, chemical characteristics, and evolutionary relationship of Sox family genes through bioinformatics, and we studied the expression profiles and regulatory mechanisms of Sox family genes. A total of 29 rainbow trout Sox genes were identified. The phylogenetic analysis found that Sox genes of rainbow trout were clustered in seven subfamilies (B1, B2, C, D, E, F and H), and the gene structure of each subfamily was relatively conserved. Furthermore, Sox1, Sox4, Sox6, Sox8, Sox9, Sox11, Sox17, Sox18, and Sox19 developed into two copies, which might be the result of teleost fish-specific genome replication. Multiple HMG box domain alignments indicated that the motifs for all Sox sequences are conserved. Gene expression studies reveal that Sox expression is tissue-specific and that multiple Sox genes are involved in rainbow trout gonad and central nervous system development. Our study provides valuable information on the evolution of teleosts, and will also help to further research the functional characteristics of Sox genes. |
| first_indexed | 2024-04-10T08:24:16Z |
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| id | doaj.art-b4b2e32f1a4542a9bc2ac567a67fc2e3 |
| institution | Directory Open Access Journal |
| issn | 1212-1819 1805-9309 |
| language | English |
| last_indexed | 2024-04-10T08:24:16Z |
| publishDate | 2022-04-01 |
| publisher | Czech Academy of Agricultural Sciences |
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| series | Czech Journal of Animal Science |
| spelling | doaj.art-b4b2e32f1a4542a9bc2ac567a67fc2e32023-02-23T03:33:56ZengCzech Academy of Agricultural SciencesCzech Journal of Animal Science1212-18191805-93092022-04-0167415716610.17221/4/2022-CJAScjs-202204-0004Evolution, characterization and expression analysis of Sox gene family in rainbow trout (Oncorhynchus mykiss)Fang MaYali Zou0Ruilin Ma1Xin Chen2Lanfang Ma3Key Laboratory of Resource Utilization of Agricultural Solid Waste in Gansu Province, Tianshui Normal University, Tianshui, P.R. ChinaKey Laboratory of Resource Utilization of Agricultural Solid Waste in Gansu Province, Tianshui Normal University, Tianshui, P.R. ChinaKey Laboratory of Resource Utilization of Agricultural Solid Waste in Gansu Province, Tianshui Normal University, Tianshui, P.R. ChinaKey Laboratory of Resource Utilization of Agricultural Solid Waste in Gansu Province, Tianshui Normal University, Tianshui, P.R. ChinaThe Sox transcription factor family plays an important role in various biological processes such as animal sex determination and multiple organ development. We used online databases to analyze the gene structure, chemical characteristics, and evolutionary relationship of Sox family genes through bioinformatics, and we studied the expression profiles and regulatory mechanisms of Sox family genes. A total of 29 rainbow trout Sox genes were identified. The phylogenetic analysis found that Sox genes of rainbow trout were clustered in seven subfamilies (B1, B2, C, D, E, F and H), and the gene structure of each subfamily was relatively conserved. Furthermore, Sox1, Sox4, Sox6, Sox8, Sox9, Sox11, Sox17, Sox18, and Sox19 developed into two copies, which might be the result of teleost fish-specific genome replication. Multiple HMG box domain alignments indicated that the motifs for all Sox sequences are conserved. Gene expression studies reveal that Sox expression is tissue-specific and that multiple Sox genes are involved in rainbow trout gonad and central nervous system development. Our study provides valuable information on the evolution of teleosts, and will also help to further research the functional characteristics of Sox genes.https://cjas.agriculturejournals.cz/artkey/cjs-202204-0004_evolution-characterization-and-expression-analysis-of-sox-gene-family-in-rainbow-trout-oncorhynchus-mykiss.phpbioinformaticsgene structuregenome duplicationgene expression |
| spellingShingle | Fang Ma Yali Zou Ruilin Ma Xin Chen Lanfang Ma Evolution, characterization and expression analysis of Sox gene family in rainbow trout (Oncorhynchus mykiss) Czech Journal of Animal Science bioinformatics gene structure genome duplication gene expression |
| title | Evolution, characterization and expression analysis of Sox gene family in rainbow trout (Oncorhynchus mykiss) |
| title_full | Evolution, characterization and expression analysis of Sox gene family in rainbow trout (Oncorhynchus mykiss) |
| title_fullStr | Evolution, characterization and expression analysis of Sox gene family in rainbow trout (Oncorhynchus mykiss) |
| title_full_unstemmed | Evolution, characterization and expression analysis of Sox gene family in rainbow trout (Oncorhynchus mykiss) |
| title_short | Evolution, characterization and expression analysis of Sox gene family in rainbow trout (Oncorhynchus mykiss) |
| title_sort | evolution characterization and expression analysis of sox gene family in rainbow trout oncorhynchus mykiss |
| topic | bioinformatics gene structure genome duplication gene expression |
| url | https://cjas.agriculturejournals.cz/artkey/cjs-202204-0004_evolution-characterization-and-expression-analysis-of-sox-gene-family-in-rainbow-trout-oncorhynchus-mykiss.php |
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