Genome wide expression analysis of circular RNAs in mammary epithelial cells of cattle revealed difference in milk synthesis
Milk is an excellent source of nutrients for humans. Therefore, in order to enhance the quality and production of milk in cattle, it is interesting to examine the underlying mechanisms. A number of new investigations and research have found that, circRNA; a specific class of non-coding RNAs, is link...
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PeerJ Inc.
2022-03-01
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| author | Syed Mudasir Ahmad Basharat Bhat Zainab Manzoor Mashooq Ahmad Dar Qamar Taban Eveline M. Ibeagha-Awemu Nadeem Shabir Mohd Isfaqul Hussain Riaz A. Shah Nazir A. Ganai |
| author_facet | Syed Mudasir Ahmad Basharat Bhat Zainab Manzoor Mashooq Ahmad Dar Qamar Taban Eveline M. Ibeagha-Awemu Nadeem Shabir Mohd Isfaqul Hussain Riaz A. Shah Nazir A. Ganai |
| author_sort | Syed Mudasir Ahmad |
| collection | DOAJ |
| description | Milk is an excellent source of nutrients for humans. Therefore, in order to enhance the quality and production of milk in cattle, it is interesting to examine the underlying mechanisms. A number of new investigations and research have found that, circRNA; a specific class of non-coding RNAs, is linked with the development of mammary gland and lactation. In the present study, genome wide identification and expression of the circRNAs in mammary epithelial cells of two distinct cattle breeds viz Jersey and Kashmiri at peak lactation was conducted. We reported 1554 and 1286 circRNA in Jersey and Kashmiri cattle, respectively, with 21 circRNAs being differentially expressed in the two breeds. The developmental genes of the established differentially expressed circRNAs were found to be largely enriched in antioxidant activity, progesterone, estradiol, lipid, growth hormone, and drug response. Certain pathways like MAPK, IP3K and immune response pathways were found significantly enriched in KEGG analysis. These results add to our understanding of the controlling mechanisms connected with the lactation process, as well as the function of circRNAs in bovine milk synthesis. Additionally, the comparative analysis of differentially expressed circRNAs showed significant conservation across different species. |
| first_indexed | 2024-03-09T06:44:40Z |
| format | Article |
| id | doaj.art-b4ef4e37ed0a47dc9a48f73e7dd983f3 |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T06:44:40Z |
| publishDate | 2022-03-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ |
| spelling | doaj.art-b4ef4e37ed0a47dc9a48f73e7dd983f32023-12-03T10:40:52ZengPeerJ Inc.PeerJ2167-83592022-03-0110e1302910.7717/peerj.13029Genome wide expression analysis of circular RNAs in mammary epithelial cells of cattle revealed difference in milk synthesisSyed Mudasir Ahmad0Basharat Bhat1Zainab Manzoor2Mashooq Ahmad Dar3Qamar Taban4Eveline M. Ibeagha-Awemu5Nadeem Shabir6Mohd Isfaqul Hussain7Riaz A. Shah8Nazir A. Ganai9Division of Animal Biotechnology, Faculty of Veterinary Sciences, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, Srinagar, Jammu and Kashmir, IndiaDivision of Animal Biotechnology, Faculty of Veterinary Sciences, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, Srinagar, Jammu and Kashmir, IndiaDepartment of Clinical Biochemistry, University of Kashmir, Srinagar, Jammu and Kashmir, IndiaDivision of Animal Biotechnology, Faculty of Veterinary Sciences, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, Srinagar, Jammu and Kashmir, IndiaDivision of Animal Biotechnology, Faculty of Veterinary Sciences, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, Srinagar, Jammu and Kashmir, IndiaSherbrooke Research and Development Centre, Agriculture and Agri-Food Canada, Sherbrooke, CanadaDivision of Animal Biotechnology, Faculty of Veterinary Sciences, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, Srinagar, Jammu and Kashmir, IndiaDivision of Veterinary Microbiology, SKUAST-Kashmir, Srinagar, Jammu and Kashmir, IndiaDivision of Animal Biotechnology, Faculty of Veterinary Sciences, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, Srinagar, Jammu and Kashmir, IndiaDivision of Animal Biotechnology, Faculty of Veterinary Sciences, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, India, Srinagar, Jammu and Kashmir, IndiaMilk is an excellent source of nutrients for humans. Therefore, in order to enhance the quality and production of milk in cattle, it is interesting to examine the underlying mechanisms. A number of new investigations and research have found that, circRNA; a specific class of non-coding RNAs, is linked with the development of mammary gland and lactation. In the present study, genome wide identification and expression of the circRNAs in mammary epithelial cells of two distinct cattle breeds viz Jersey and Kashmiri at peak lactation was conducted. We reported 1554 and 1286 circRNA in Jersey and Kashmiri cattle, respectively, with 21 circRNAs being differentially expressed in the two breeds. The developmental genes of the established differentially expressed circRNAs were found to be largely enriched in antioxidant activity, progesterone, estradiol, lipid, growth hormone, and drug response. Certain pathways like MAPK, IP3K and immune response pathways were found significantly enriched in KEGG analysis. These results add to our understanding of the controlling mechanisms connected with the lactation process, as well as the function of circRNAs in bovine milk synthesis. Additionally, the comparative analysis of differentially expressed circRNAs showed significant conservation across different species.https://peerj.com/articles/13029.pdfCircRNAMammary glandBovineRNA-SeqIdentificationDifferential expression |
| spellingShingle | Syed Mudasir Ahmad Basharat Bhat Zainab Manzoor Mashooq Ahmad Dar Qamar Taban Eveline M. Ibeagha-Awemu Nadeem Shabir Mohd Isfaqul Hussain Riaz A. Shah Nazir A. Ganai Genome wide expression analysis of circular RNAs in mammary epithelial cells of cattle revealed difference in milk synthesis PeerJ CircRNA Mammary gland Bovine RNA-Seq Identification Differential expression |
| title | Genome wide expression analysis of circular RNAs in mammary epithelial cells of cattle revealed difference in milk synthesis |
| title_full | Genome wide expression analysis of circular RNAs in mammary epithelial cells of cattle revealed difference in milk synthesis |
| title_fullStr | Genome wide expression analysis of circular RNAs in mammary epithelial cells of cattle revealed difference in milk synthesis |
| title_full_unstemmed | Genome wide expression analysis of circular RNAs in mammary epithelial cells of cattle revealed difference in milk synthesis |
| title_short | Genome wide expression analysis of circular RNAs in mammary epithelial cells of cattle revealed difference in milk synthesis |
| title_sort | genome wide expression analysis of circular rnas in mammary epithelial cells of cattle revealed difference in milk synthesis |
| topic | CircRNA Mammary gland Bovine RNA-Seq Identification Differential expression |
| url | https://peerj.com/articles/13029.pdf |
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