Transcriptome sequencing reveals key potential long non-coding RNAs related to duration of fertility trait in the uterovaginal junction of egg-laying hens
Abstract Duration of fertility, (DF) is an important functional trait in poultry production and lncRNAs have emerged as important regulators of various process including fertility. In this study we applied a genome-guided strategy to reconstruct the uterovaginal junction (UVJ) transcriptome of 14 eg...
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| Format: | Article |
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Nature Portfolio
2018-09-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-018-31301-z |
| _version_ | 1818995666697846784 |
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| author | Adeyinka Abiola Adetula Lantao Gu Chinedu Charles Nwafor Xiaoyong Du Shuhong Zhao Shijun Li |
| author_facet | Adeyinka Abiola Adetula Lantao Gu Chinedu Charles Nwafor Xiaoyong Du Shuhong Zhao Shijun Li |
| author_sort | Adeyinka Abiola Adetula |
| collection | DOAJ |
| description | Abstract Duration of fertility, (DF) is an important functional trait in poultry production and lncRNAs have emerged as important regulators of various process including fertility. In this study we applied a genome-guided strategy to reconstruct the uterovaginal junction (UVJ) transcriptome of 14 egg-laying birds with long- and short-DF (n = 7); and sought to uncover key lncRNAs related to duration of fertility traits by RNA-sequencing technology. Examination of RNA-seq data revealed a total of 9977 lncRNAs including 2576 novel lncRNAs. Differential expression (DE) analysis of lncRNA identified 223 lncRNAs differentially expressed between the two groups. DE-lncRNA target genes prediction uncovered over 200 lncRNA target genes and functional enrichment tests predict a potential function of DE-lncRNAs. Gene ontology classification and pathway analysis revealed 8 DE-lncRNAs, with the majority of their target genes enriched in biological functions such as reproductive structure development, developmental process involved in reproduction, response to cytokine, carbohydrate binding, chromatin organization, and immune pathways. Differential expression of lncRNAs and target genes were confirmed by qPCR. Together, these results significantly expand the utility of the UVJ transcriptome and our analysis identification of key lncRNAs and their target genes regulating DF will form the baseline for understanding the molecular functions of lncRNAs regulating DF. |
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| format | Article |
| id | doaj.art-93816f0c019f4d6a8ecd397bf242d597 |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-12-20T21:17:28Z |
| publishDate | 2018-09-01 |
| publisher | Nature Portfolio |
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| series | Scientific Reports |
| spelling | doaj.art-93816f0c019f4d6a8ecd397bf242d5972022-12-21T19:26:23ZengNature PortfolioScientific Reports2045-23222018-09-018111210.1038/s41598-018-31301-zTranscriptome sequencing reveals key potential long non-coding RNAs related to duration of fertility trait in the uterovaginal junction of egg-laying hensAdeyinka Abiola Adetula0Lantao Gu1Chinedu Charles Nwafor2Xiaoyong Du3Shuhong Zhao4Shijun Li5Key Laboratory of Agricultural Animal Genetics, Breeding, and Reproduction, Ministry of Education, Huazhong Agricultural UniversityKey Laboratory of Agricultural Animal Genetics, Breeding, and Reproduction, Ministry of Education, Huazhong Agricultural UniversityFaculty of Agriculture, Benson Idahosa UniversityCollege of Informatics, Huazhong Agricultural UniversityKey Laboratory of Agricultural Animal Genetics, Breeding, and Reproduction, Ministry of Education, Huazhong Agricultural UniversityKey Laboratory of Agricultural Animal Genetics, Breeding, and Reproduction, Ministry of Education, Huazhong Agricultural UniversityAbstract Duration of fertility, (DF) is an important functional trait in poultry production and lncRNAs have emerged as important regulators of various process including fertility. In this study we applied a genome-guided strategy to reconstruct the uterovaginal junction (UVJ) transcriptome of 14 egg-laying birds with long- and short-DF (n = 7); and sought to uncover key lncRNAs related to duration of fertility traits by RNA-sequencing technology. Examination of RNA-seq data revealed a total of 9977 lncRNAs including 2576 novel lncRNAs. Differential expression (DE) analysis of lncRNA identified 223 lncRNAs differentially expressed between the two groups. DE-lncRNA target genes prediction uncovered over 200 lncRNA target genes and functional enrichment tests predict a potential function of DE-lncRNAs. Gene ontology classification and pathway analysis revealed 8 DE-lncRNAs, with the majority of their target genes enriched in biological functions such as reproductive structure development, developmental process involved in reproduction, response to cytokine, carbohydrate binding, chromatin organization, and immune pathways. Differential expression of lncRNAs and target genes were confirmed by qPCR. Together, these results significantly expand the utility of the UVJ transcriptome and our analysis identification of key lncRNAs and their target genes regulating DF will form the baseline for understanding the molecular functions of lncRNAs regulating DF.https://doi.org/10.1038/s41598-018-31301-z |
| spellingShingle | Adeyinka Abiola Adetula Lantao Gu Chinedu Charles Nwafor Xiaoyong Du Shuhong Zhao Shijun Li Transcriptome sequencing reveals key potential long non-coding RNAs related to duration of fertility trait in the uterovaginal junction of egg-laying hens Scientific Reports |
| title | Transcriptome sequencing reveals key potential long non-coding RNAs related to duration of fertility trait in the uterovaginal junction of egg-laying hens |
| title_full | Transcriptome sequencing reveals key potential long non-coding RNAs related to duration of fertility trait in the uterovaginal junction of egg-laying hens |
| title_fullStr | Transcriptome sequencing reveals key potential long non-coding RNAs related to duration of fertility trait in the uterovaginal junction of egg-laying hens |
| title_full_unstemmed | Transcriptome sequencing reveals key potential long non-coding RNAs related to duration of fertility trait in the uterovaginal junction of egg-laying hens |
| title_short | Transcriptome sequencing reveals key potential long non-coding RNAs related to duration of fertility trait in the uterovaginal junction of egg-laying hens |
| title_sort | transcriptome sequencing reveals key potential long non coding rnas related to duration of fertility trait in the uterovaginal junction of egg laying hens |
| url | https://doi.org/10.1038/s41598-018-31301-z |
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