A meta-analysis approach for annotation and identification of lncRNAs controlling perirenal fat deposition in suckling lambs
Long non-coding RNAs (lncRNAs) are being studied in farm animals due to their association with traits of economic interest, such as fat deposition. Based on the analysis of perirenal fat transcriptomes, this research explored the relevance of these regulatory elements to fat deposition in suckling l...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2024-12-01
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| Series: | Animal Biotechnology |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/10495398.2024.2374328 |
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| author | María Alonso-García Beatriz Gutiérrez-Gil Rocío Pelayo Pablo A. S. Fonseca Héctor Marina Juan José Arranz Aroa Suárez-Vega |
| author_facet | María Alonso-García Beatriz Gutiérrez-Gil Rocío Pelayo Pablo A. S. Fonseca Héctor Marina Juan José Arranz Aroa Suárez-Vega |
| author_sort | María Alonso-García |
| collection | DOAJ |
| description | Long non-coding RNAs (lncRNAs) are being studied in farm animals due to their association with traits of economic interest, such as fat deposition. Based on the analysis of perirenal fat transcriptomes, this research explored the relevance of these regulatory elements to fat deposition in suckling lambs. To that end, meta-analysis techniques have been implemented to efficiently characterize and detect differentially expressed transcripts from two different RNA-seq datasets, one including samples of two sheep breeds that differ in fat deposition features, Churra and Assaf (n = 14), and one generated from Assaf suckling lambs with different fat deposition levels (n = 8). The joint analysis of the 22 perirenal fat RNA-seq samples with the FEELnc software allowed the detection of 3953 novel lncRNAs. After the meta-analysis, 251 differentially expressed genes were identified, 21 of which were novel lncRNAs. Additionally, a co-expression analysis revealed that, in suckling lambs, lncRNAs may play a role in controlling angiogenesis and thermogenesis, processes highlighted in relation to high and low fat deposition levels, respectively. Overall, while providing information that could be applied for the improvement of suckling lamb carcass traits, this study offers insights into the biology of perirenal fat deposition regulation in mammals. |
| format | Article |
| id | doaj-art-3d07d7d1a1c94003b968217cfea2ff6a |
| institution | Kabale University |
| issn | 1049-5398 1532-2378 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Animal Biotechnology |
| spelling | doaj-art-3d07d7d1a1c94003b968217cfea2ff6a2025-08-20T03:25:53ZengTaylor & Francis GroupAnimal Biotechnology1049-53981532-23782024-12-0135110.1080/10495398.2024.2374328A meta-analysis approach for annotation and identification of lncRNAs controlling perirenal fat deposition in suckling lambsMaría Alonso-García0Beatriz Gutiérrez-Gil1Rocío Pelayo2Pablo A. S. Fonseca3Héctor Marina4Juan José Arranz5Aroa Suárez-Vega6Departamento de Producción Animal, Facultad de Veterinaria, Universidad de León, León, SpainDepartamento de Producción Animal, Facultad de Veterinaria, Universidad de León, León, SpainDepartamento de Producción Animal, Facultad de Veterinaria, Universidad de León, León, SpainDepartamento de Producción Animal, Facultad de Veterinaria, Universidad de León, León, SpainDepartamento de Producción Animal, Facultad de Veterinaria, Universidad de León, León, SpainDepartamento de Producción Animal, Facultad de Veterinaria, Universidad de León, León, SpainDepartamento de Producción Animal, Facultad de Veterinaria, Universidad de León, León, SpainLong non-coding RNAs (lncRNAs) are being studied in farm animals due to their association with traits of economic interest, such as fat deposition. Based on the analysis of perirenal fat transcriptomes, this research explored the relevance of these regulatory elements to fat deposition in suckling lambs. To that end, meta-analysis techniques have been implemented to efficiently characterize and detect differentially expressed transcripts from two different RNA-seq datasets, one including samples of two sheep breeds that differ in fat deposition features, Churra and Assaf (n = 14), and one generated from Assaf suckling lambs with different fat deposition levels (n = 8). The joint analysis of the 22 perirenal fat RNA-seq samples with the FEELnc software allowed the detection of 3953 novel lncRNAs. After the meta-analysis, 251 differentially expressed genes were identified, 21 of which were novel lncRNAs. Additionally, a co-expression analysis revealed that, in suckling lambs, lncRNAs may play a role in controlling angiogenesis and thermogenesis, processes highlighted in relation to high and low fat deposition levels, respectively. Overall, while providing information that could be applied for the improvement of suckling lamb carcass traits, this study offers insights into the biology of perirenal fat deposition regulation in mammals.https://www.tandfonline.com/doi/10.1080/10495398.2024.2374328Non-coding RNAsadipogenesisRNA-Seqmeta-analysissheep |
| spellingShingle | María Alonso-García Beatriz Gutiérrez-Gil Rocío Pelayo Pablo A. S. Fonseca Héctor Marina Juan José Arranz Aroa Suárez-Vega A meta-analysis approach for annotation and identification of lncRNAs controlling perirenal fat deposition in suckling lambs Animal Biotechnology Non-coding RNAs adipogenesis RNA-Seq meta-analysis sheep |
| title | A meta-analysis approach for annotation and identification of lncRNAs controlling perirenal fat deposition in suckling lambs |
| title_full | A meta-analysis approach for annotation and identification of lncRNAs controlling perirenal fat deposition in suckling lambs |
| title_fullStr | A meta-analysis approach for annotation and identification of lncRNAs controlling perirenal fat deposition in suckling lambs |
| title_full_unstemmed | A meta-analysis approach for annotation and identification of lncRNAs controlling perirenal fat deposition in suckling lambs |
| title_short | A meta-analysis approach for annotation and identification of lncRNAs controlling perirenal fat deposition in suckling lambs |
| title_sort | meta analysis approach for annotation and identification of lncrnas controlling perirenal fat deposition in suckling lambs |
| topic | Non-coding RNAs adipogenesis RNA-Seq meta-analysis sheep |
| url | https://www.tandfonline.com/doi/10.1080/10495398.2024.2374328 |
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