RNA-Seq-Based Gene Expression Pattern and Morphological Alterations in Chick Thymus during Postnatal Development
The thymus is a lobulated unique lymphoid immune organ that plays a critical role in the selection, development, proliferation, and differentiation of T cells. The thymus of developing chickens undergoes continued morphological alterations; however, the biomolecular and transcriptional dynamics of t...
Saved in:
| Main Authors: | , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Wiley
2019-01-01
|
| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2019/6905194 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1832565732938874880 |
|---|---|
| author | Zhouyiyuan Xue Abdur Rahman Ansari Xing Zhao Kun Zang Yu Liang Lei Cui Yafang Hu Ranran Cheng Xiaolong Zhang Juming Zhong Huazhen Liu |
| author_facet | Zhouyiyuan Xue Abdur Rahman Ansari Xing Zhao Kun Zang Yu Liang Lei Cui Yafang Hu Ranran Cheng Xiaolong Zhang Juming Zhong Huazhen Liu |
| author_sort | Zhouyiyuan Xue |
| collection | DOAJ |
| description | The thymus is a lobulated unique lymphoid immune organ that plays a critical role in the selection, development, proliferation, and differentiation of T cells. The thymus of developing chickens undergoes continued morphological alterations; however, the biomolecular and transcriptional dynamics of the postnatal thymus in avian species is not clear yet. Therefore, the thymuses from chickens at different stages of development (at weeks 0, 1, 5, 9, 18, and 27) were used in the present study. The RNA-seq method was used to study the gene expression patterns. On average, 24120819 clean reads were mapped, differentially expressed genes (DEGs) were identified on the basis of log values (fold change), including 744 upregulated and 425 downregulated genes. The expression pattern revealed by RNA-seq was validated by quantitative real-time PCR (qPCR) analysis of four important genes, which are PCNA, CCNA2, CCNB2, and CDK1. Thus, the current study revealed that during postnatal development, the thymus undergoes severe atrophy. Thymus structure was damaged and gene expression changed dramatically, especially at the 27th week of age. Moreover, we found significant changes of several signaling pathways such as the cytokine-cytokine receptor interaction and cell cycle signaling pathways. Hence, it may be inferred that those signaling pathways might be closely related to the postnatal chicken thymus development. |
| format | Article |
| id | doaj-art-a0c4ad5915784100b549f72cfe517fdf |
| institution | Kabale University |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2019-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-a0c4ad5915784100b549f72cfe517fdf2025-02-03T01:06:55ZengWileyInternational Journal of Genomics2314-436X2314-43782019-01-01201910.1155/2019/69051946905194RNA-Seq-Based Gene Expression Pattern and Morphological Alterations in Chick Thymus during Postnatal DevelopmentZhouyiyuan Xue0Abdur Rahman Ansari1Xing Zhao2Kun Zang3Yu Liang4Lei Cui5Yafang Hu6Ranran Cheng7Xiaolong Zhang8Juming Zhong9Huazhen Liu10Department of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaSection of Anatomy and Histology, Department of Basic Sciences, College of Veterinary and Animal Sciences (CVAS) Jhang, University of Veterinary and Animal Sciences (UVAS), Lahore, PakistanDepartment of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaDepartment of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaDepartment of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaDepartment of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaDepartment of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaDepartment of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaDepartment of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaDepartment of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaDepartment of Basic Veterinary Medicine, College of Animal Science and Veterinary Medicine, Huazhong Agricultural University, Wuhan, Hubei 430070, ChinaThe thymus is a lobulated unique lymphoid immune organ that plays a critical role in the selection, development, proliferation, and differentiation of T cells. The thymus of developing chickens undergoes continued morphological alterations; however, the biomolecular and transcriptional dynamics of the postnatal thymus in avian species is not clear yet. Therefore, the thymuses from chickens at different stages of development (at weeks 0, 1, 5, 9, 18, and 27) were used in the present study. The RNA-seq method was used to study the gene expression patterns. On average, 24120819 clean reads were mapped, differentially expressed genes (DEGs) were identified on the basis of log values (fold change), including 744 upregulated and 425 downregulated genes. The expression pattern revealed by RNA-seq was validated by quantitative real-time PCR (qPCR) analysis of four important genes, which are PCNA, CCNA2, CCNB2, and CDK1. Thus, the current study revealed that during postnatal development, the thymus undergoes severe atrophy. Thymus structure was damaged and gene expression changed dramatically, especially at the 27th week of age. Moreover, we found significant changes of several signaling pathways such as the cytokine-cytokine receptor interaction and cell cycle signaling pathways. Hence, it may be inferred that those signaling pathways might be closely related to the postnatal chicken thymus development.http://dx.doi.org/10.1155/2019/6905194 |
| spellingShingle | Zhouyiyuan Xue Abdur Rahman Ansari Xing Zhao Kun Zang Yu Liang Lei Cui Yafang Hu Ranran Cheng Xiaolong Zhang Juming Zhong Huazhen Liu RNA-Seq-Based Gene Expression Pattern and Morphological Alterations in Chick Thymus during Postnatal Development International Journal of Genomics |
| title | RNA-Seq-Based Gene Expression Pattern and Morphological Alterations in Chick Thymus during Postnatal Development |
| title_full | RNA-Seq-Based Gene Expression Pattern and Morphological Alterations in Chick Thymus during Postnatal Development |
| title_fullStr | RNA-Seq-Based Gene Expression Pattern and Morphological Alterations in Chick Thymus during Postnatal Development |
| title_full_unstemmed | RNA-Seq-Based Gene Expression Pattern and Morphological Alterations in Chick Thymus during Postnatal Development |
| title_short | RNA-Seq-Based Gene Expression Pattern and Morphological Alterations in Chick Thymus during Postnatal Development |
| title_sort | rna seq based gene expression pattern and morphological alterations in chick thymus during postnatal development |
| url | http://dx.doi.org/10.1155/2019/6905194 |
| work_keys_str_mv | AT zhouyiyuanxue rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT abdurrahmanansari rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT xingzhao rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT kunzang rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT yuliang rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT leicui rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT yafanghu rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT ranrancheng rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT xiaolongzhang rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT jumingzhong rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment AT huazhenliu rnaseqbasedgeneexpressionpatternandmorphologicalalterationsinchickthymusduringpostnataldevelopment |