Transcriptome Data Revealed the circRNA–miRNA–mRNA Regulatory Network during the Proliferation and Differentiation of Myoblasts in Shitou Goose
CircRNA, a recently characterized non-coding RNA (ncRNA) variant, functions as a molecular sponge, exerting regulatory control by binding to microRNA (miRNA) and modulating the expression of downstream proteins, either promoting or inhibiting their expression. Among poultry species, geese hold signi...
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| Format: | Article |
| Language: | English |
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MDPI AG
2024-02-01
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| Series: | Animals |
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| Online Access: | https://www.mdpi.com/2076-2615/14/4/576 |
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| author | Rongqin Huang Jiahui Chen Xu Dong Xiquan Zhang Wen Luo |
| author_facet | Rongqin Huang Jiahui Chen Xu Dong Xiquan Zhang Wen Luo |
| author_sort | Rongqin Huang |
| collection | DOAJ |
| description | CircRNA, a recently characterized non-coding RNA (ncRNA) variant, functions as a molecular sponge, exerting regulatory control by binding to microRNA (miRNA) and modulating the expression of downstream proteins, either promoting or inhibiting their expression. Among poultry species, geese hold significant importance, prized by consumers for their delectable taste and rich nutritional content. Despite the prominence of geese, research on the growth and development of goose muscle, particularly the regulatory role of circRNAs in goose muscle formation, remains insufficiently explored. In this study, we constructed comprehensive expression profiles of circRNAs and messenger RNAs (mRNAs) within the myoblasts and myotubes of Shitou geese. We identified a total of 96 differentially expressed circRNAs (DEcircRNAs) and 880 differentially expressed mRNAs (DEmRNAs). Notably, the parental genes of DEcircRNAs and DEmRNAs exhibited enrichment in the Wnt signaling pathway, highlighting its potential impact on the proliferation and differentiation of goose myoblasts. Employing RNAhybrid and miRDB, we identified circRNA-miRNA pairs and mRNA-miRNA pairs that may play a role in regulating myogenic differentiation or muscle growth. Subsequently, utilizing Cytoscape, we constructed a circRNA–miRNA–mRNA interaction network aimed at unraveling the intricate regulatory mechanisms involved in goose muscle growth and development, which comprises 93 circRNAs, 351 miRNAs, and 305 mRNAs. Moreover, the identification of 10 hub genes (<i>ACTB</i>, <i>ACTN1</i>, <i>BDNF</i>, <i>PDGFRA</i>, <i>MYL1</i>, <i>EFNA5</i>, <i>MYSM1</i>, <i>THBS1</i>, <i>ITGA8</i>, and <i>ELN</i>) potentially linked to myogenesis, along with the exploration of their circRNA–miRNA–hub gene regulatory axis, was also conducted. These competitive endogenous RNA (ceRNA) regulatory networks elucidate the molecular regulatory mechanisms associated with muscle growth in Shitou geese, providing deeper insights into the reciprocal regulation of circRNA, miRNA, and mRNA in the context of goose muscle formation. |
| first_indexed | 2024-03-07T22:45:20Z |
| format | Article |
| id | doaj.art-341135504401478b9d387f8546782232 |
| institution | Directory Open Access Journal |
| issn | 2076-2615 |
| language | English |
| last_indexed | 2024-03-07T22:45:20Z |
| publishDate | 2024-02-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Animals |
| spelling | doaj.art-341135504401478b9d387f85467822322024-02-23T15:04:43ZengMDPI AGAnimals2076-26152024-02-0114457610.3390/ani14040576Transcriptome Data Revealed the circRNA–miRNA–mRNA Regulatory Network during the Proliferation and Differentiation of Myoblasts in Shitou GooseRongqin Huang0Jiahui Chen1Xu Dong2Xiquan Zhang3Wen Luo4College of Animal Science, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science, South China Agricultural University, Guangzhou 510642, ChinaCircRNA, a recently characterized non-coding RNA (ncRNA) variant, functions as a molecular sponge, exerting regulatory control by binding to microRNA (miRNA) and modulating the expression of downstream proteins, either promoting or inhibiting their expression. Among poultry species, geese hold significant importance, prized by consumers for their delectable taste and rich nutritional content. Despite the prominence of geese, research on the growth and development of goose muscle, particularly the regulatory role of circRNAs in goose muscle formation, remains insufficiently explored. In this study, we constructed comprehensive expression profiles of circRNAs and messenger RNAs (mRNAs) within the myoblasts and myotubes of Shitou geese. We identified a total of 96 differentially expressed circRNAs (DEcircRNAs) and 880 differentially expressed mRNAs (DEmRNAs). Notably, the parental genes of DEcircRNAs and DEmRNAs exhibited enrichment in the Wnt signaling pathway, highlighting its potential impact on the proliferation and differentiation of goose myoblasts. Employing RNAhybrid and miRDB, we identified circRNA-miRNA pairs and mRNA-miRNA pairs that may play a role in regulating myogenic differentiation or muscle growth. Subsequently, utilizing Cytoscape, we constructed a circRNA–miRNA–mRNA interaction network aimed at unraveling the intricate regulatory mechanisms involved in goose muscle growth and development, which comprises 93 circRNAs, 351 miRNAs, and 305 mRNAs. Moreover, the identification of 10 hub genes (<i>ACTB</i>, <i>ACTN1</i>, <i>BDNF</i>, <i>PDGFRA</i>, <i>MYL1</i>, <i>EFNA5</i>, <i>MYSM1</i>, <i>THBS1</i>, <i>ITGA8</i>, and <i>ELN</i>) potentially linked to myogenesis, along with the exploration of their circRNA–miRNA–hub gene regulatory axis, was also conducted. These competitive endogenous RNA (ceRNA) regulatory networks elucidate the molecular regulatory mechanisms associated with muscle growth in Shitou geese, providing deeper insights into the reciprocal regulation of circRNA, miRNA, and mRNA in the context of goose muscle formation.https://www.mdpi.com/2076-2615/14/4/576Shitou goosemyogenesisceRNAcircRNA |
| spellingShingle | Rongqin Huang Jiahui Chen Xu Dong Xiquan Zhang Wen Luo Transcriptome Data Revealed the circRNA–miRNA–mRNA Regulatory Network during the Proliferation and Differentiation of Myoblasts in Shitou Goose Animals Shitou goose myogenesis ceRNA circRNA |
| title | Transcriptome Data Revealed the circRNA–miRNA–mRNA Regulatory Network during the Proliferation and Differentiation of Myoblasts in Shitou Goose |
| title_full | Transcriptome Data Revealed the circRNA–miRNA–mRNA Regulatory Network during the Proliferation and Differentiation of Myoblasts in Shitou Goose |
| title_fullStr | Transcriptome Data Revealed the circRNA–miRNA–mRNA Regulatory Network during the Proliferation and Differentiation of Myoblasts in Shitou Goose |
| title_full_unstemmed | Transcriptome Data Revealed the circRNA–miRNA–mRNA Regulatory Network during the Proliferation and Differentiation of Myoblasts in Shitou Goose |
| title_short | Transcriptome Data Revealed the circRNA–miRNA–mRNA Regulatory Network during the Proliferation and Differentiation of Myoblasts in Shitou Goose |
| title_sort | transcriptome data revealed the circrna mirna mrna regulatory network during the proliferation and differentiation of myoblasts in shitou goose |
| topic | Shitou goose myogenesis ceRNA circRNA |
| url | https://www.mdpi.com/2076-2615/14/4/576 |
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