Transcriptome-wide study revealed m6A and miRNA regulation of embryonic breast muscle development in Wenchang chickens
N6-Methyladenosine (m6A) modification has been shown to play important role in skeletal muscle development. Wenchang chickens are commonly used as a high-quality animal model in researching meat quality. However, there have been no previous reports regarding the profile of m6A and its function in th...
| Main Authors: | , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2022-07-01
|
| Series: | Frontiers in Veterinary Science |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fvets.2022.934728/full |
| _version_ | 1828369899966169088 |
|---|---|
| author | Lihong Gu Qicheng Jiang Youyi Chen Xinli Zheng Hailong Zhou Tieshan Xu |
| author_facet | Lihong Gu Qicheng Jiang Youyi Chen Xinli Zheng Hailong Zhou Tieshan Xu |
| author_sort | Lihong Gu |
| collection | DOAJ |
| description | N6-Methyladenosine (m6A) modification has been shown to play important role in skeletal muscle development. Wenchang chickens are commonly used as a high-quality animal model in researching meat quality. However, there have been no previous reports regarding the profile of m6A and its function in the embryonic breast muscle development of Wenchang chickens. In this paper, we identified different developmental stages of breast muscle in Wenchang chickens and performed m6A sequencing and miRNA sequencing in the breast muscle of embryos. Embryo breast muscles were weighed and stained with hematoxylin–eosin after hatching. We found that myofibers grew fast on the 10th day after hatching (E10) and seldom proliferated beyond the 19th day after hatching (E19). A total of 6,774 differentially methylated genes (DMGs) were identified between E10 and E19. For RNA-seq data, we found 5,586 differentially expressed genes (DEGs). After overlapping DEGs and DMGs, we recorded 651 shared genes (DEMGs). Subsequently, we performed miRNA-seq analysis and obtained 495 differentially expressed miRNAs (DEMs). Then, we overlapped DEMGs and the target genes of DEMs and obtained 72 overlapped genes (called miRNA-m6A-genes in this study). GO and KEGG results showed DEMGs enriched in many muscle development-related pathways. Furthermore, we chose WNT7B, a key regulator of skeletal muscle development, to perform IGV visualization analysis and found that the m6A levels on the WNT7B gene between E10 and E19 were significantly different. In conclusion, we found that miRNAs, in conjunction with m6A modification, played a key role in the embryonic breast muscle development of Wenchang chickens. The results of this paper offer a theoretical basis for the study of m6A function in muscle development and fat deposition of Wenchang chickens. |
| first_indexed | 2024-04-14T06:30:43Z |
| format | Article |
| id | doaj.art-6aaa59c12dd740c488e133bf671f0ed6 |
| institution | Directory Open Access Journal |
| issn | 2297-1769 |
| language | English |
| last_indexed | 2024-04-14T06:30:43Z |
| publishDate | 2022-07-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Veterinary Science |
| spelling | doaj.art-6aaa59c12dd740c488e133bf671f0ed62022-12-22T02:07:37ZengFrontiers Media S.A.Frontiers in Veterinary Science2297-17692022-07-01910.3389/fvets.2022.934728934728Transcriptome-wide study revealed m6A and miRNA regulation of embryonic breast muscle development in Wenchang chickensLihong Gu0Qicheng Jiang1Youyi Chen2Xinli Zheng3Hailong Zhou4Tieshan Xu5Institute of Animal Science and Veterinary Medicine, Hainan Academy of Agricultural Sciences, Haikou, ChinaSchool of Life Science, Hainan University, Haikou, ChinaWuzhishan Animal Science and Veterinary Medicine and Fishery Service Center, Wuzhishan Agricultural and Rural Bureau, Wuzhishan, ChinaInstitute of Animal Science and Veterinary Medicine, Hainan Academy of Agricultural Sciences, Haikou, ChinaSchool of Life Science, Hainan University, Haikou, ChinaTropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, ChinaN6-Methyladenosine (m6A) modification has been shown to play important role in skeletal muscle development. Wenchang chickens are commonly used as a high-quality animal model in researching meat quality. However, there have been no previous reports regarding the profile of m6A and its function in the embryonic breast muscle development of Wenchang chickens. In this paper, we identified different developmental stages of breast muscle in Wenchang chickens and performed m6A sequencing and miRNA sequencing in the breast muscle of embryos. Embryo breast muscles were weighed and stained with hematoxylin–eosin after hatching. We found that myofibers grew fast on the 10th day after hatching (E10) and seldom proliferated beyond the 19th day after hatching (E19). A total of 6,774 differentially methylated genes (DMGs) were identified between E10 and E19. For RNA-seq data, we found 5,586 differentially expressed genes (DEGs). After overlapping DEGs and DMGs, we recorded 651 shared genes (DEMGs). Subsequently, we performed miRNA-seq analysis and obtained 495 differentially expressed miRNAs (DEMs). Then, we overlapped DEMGs and the target genes of DEMs and obtained 72 overlapped genes (called miRNA-m6A-genes in this study). GO and KEGG results showed DEMGs enriched in many muscle development-related pathways. Furthermore, we chose WNT7B, a key regulator of skeletal muscle development, to perform IGV visualization analysis and found that the m6A levels on the WNT7B gene between E10 and E19 were significantly different. In conclusion, we found that miRNAs, in conjunction with m6A modification, played a key role in the embryonic breast muscle development of Wenchang chickens. The results of this paper offer a theoretical basis for the study of m6A function in muscle development and fat deposition of Wenchang chickens.https://www.frontiersin.org/articles/10.3389/fvets.2022.934728/fullm6AWenchang chickensmiRNAbreast musclemuscle developmentfat deposition |
| spellingShingle | Lihong Gu Qicheng Jiang Youyi Chen Xinli Zheng Hailong Zhou Tieshan Xu Transcriptome-wide study revealed m6A and miRNA regulation of embryonic breast muscle development in Wenchang chickens Frontiers in Veterinary Science m6A Wenchang chickens miRNA breast muscle muscle development fat deposition |
| title | Transcriptome-wide study revealed m6A and miRNA regulation of embryonic breast muscle development in Wenchang chickens |
| title_full | Transcriptome-wide study revealed m6A and miRNA regulation of embryonic breast muscle development in Wenchang chickens |
| title_fullStr | Transcriptome-wide study revealed m6A and miRNA regulation of embryonic breast muscle development in Wenchang chickens |
| title_full_unstemmed | Transcriptome-wide study revealed m6A and miRNA regulation of embryonic breast muscle development in Wenchang chickens |
| title_short | Transcriptome-wide study revealed m6A and miRNA regulation of embryonic breast muscle development in Wenchang chickens |
| title_sort | transcriptome wide study revealed m6a and mirna regulation of embryonic breast muscle development in wenchang chickens |
| topic | m6A Wenchang chickens miRNA breast muscle muscle development fat deposition |
| url | https://www.frontiersin.org/articles/10.3389/fvets.2022.934728/full |
| work_keys_str_mv | AT lihonggu transcriptomewidestudyrevealedm6aandmirnaregulationofembryonicbreastmuscledevelopmentinwenchangchickens AT qichengjiang transcriptomewidestudyrevealedm6aandmirnaregulationofembryonicbreastmuscledevelopmentinwenchangchickens AT youyichen transcriptomewidestudyrevealedm6aandmirnaregulationofembryonicbreastmuscledevelopmentinwenchangchickens AT xinlizheng transcriptomewidestudyrevealedm6aandmirnaregulationofembryonicbreastmuscledevelopmentinwenchangchickens AT hailongzhou transcriptomewidestudyrevealedm6aandmirnaregulationofembryonicbreastmuscledevelopmentinwenchangchickens AT tieshanxu transcriptomewidestudyrevealedm6aandmirnaregulationofembryonicbreastmuscledevelopmentinwenchangchickens |