Characteristics of tRNA-Derived Small RNAs and microRNAs Associated with Immunocompromise in an Intrauterine Growth-Restricted Pig Model
Intrauterine growth restriction (IUGR) is an important cause of newborn morbidity and mortality in mammals. Transfer RNA-derived small RNA (tsRNA) has become an emerging non-coding RNA in recent years. tsRNA and microRNAs (miRNAs) share similar mechanisms, which are involved in various biological pr...
| Main Authors: | , , , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2022-08-01
|
| Series: | Animals |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2076-2615/12/16/2102 |
| _version_ | 1797432602519404544 |
|---|---|
| author | Jianfeng Ma Mailin Gan Jingyun Chen Lei Chen Ye Zhao Yan Zhu Lili Niu Shunhua Zhang Yanzhi Jiang Zongyi Guo Jinyong Wang Li Zhu Linyuan Shen |
| author_facet | Jianfeng Ma Mailin Gan Jingyun Chen Lei Chen Ye Zhao Yan Zhu Lili Niu Shunhua Zhang Yanzhi Jiang Zongyi Guo Jinyong Wang Li Zhu Linyuan Shen |
| author_sort | Jianfeng Ma |
| collection | DOAJ |
| description | Intrauterine growth restriction (IUGR) is an important cause of newborn morbidity and mortality in mammals. Transfer RNA-derived small RNA (tsRNA) has become an emerging non-coding RNA in recent years. tsRNA and microRNAs (miRNAs) share similar mechanisms, which are involved in various biological processes. In this study, the pig was used as a model of IUGR, and the tsRNA and miRNA expression profile in the spleen was characterized by RNA sequencing. A total of 361 miRNAs and 620 tsRNAs were identified, of which 22 were differentially expressed miRNA (DEM) and 25 differentially expressed tsRNA (DET). tRF-5c were the primary tsRNA type making up more than 90%, and the most abundantly expressed tsRNAs are from tRNA-Gly-GCC. Functional enrichment analysis found that those DETs and DEMs have been implicated in the immune system process. Protein–protein interaction (PPI) network analysis revealed ssc-miR-370, ssc-miR-206, tiRNA-Ser-TGA-001 and tRF-Val-AAC-034 could be major regulators. TNF, TLR4, CD44, MAPK1 and STAT1 were predicted hub target genes. Those DETs and DEMs may regulate the T-cell receptor signaling pathway and Toll-like receptor signaling pathway to mediate the immunocompromise caused by IUGR. The results discussed in this article uncover the potential role of tsRNAs and miRNAs in IUGR porcine spleen. |
| first_indexed | 2024-03-09T10:02:58Z |
| format | Article |
| id | doaj.art-ee056b70803247a2ac3aea017217c4cf |
| institution | Directory Open Access Journal |
| issn | 2076-2615 |
| language | English |
| last_indexed | 2024-03-09T10:02:58Z |
| publishDate | 2022-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Animals |
| spelling | doaj.art-ee056b70803247a2ac3aea017217c4cf2023-12-01T23:19:03ZengMDPI AGAnimals2076-26152022-08-011216210210.3390/ani12162102Characteristics of tRNA-Derived Small RNAs and microRNAs Associated with Immunocompromise in an Intrauterine Growth-Restricted Pig ModelJianfeng Ma0Mailin Gan1Jingyun Chen2Lei Chen3Ye Zhao4Yan Zhu5Lili Niu6Shunhua Zhang7Yanzhi Jiang8Zongyi Guo9Jinyong Wang10Li Zhu11Linyuan Shen12Department of Animal Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, ChinaDepartment of Animal Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, ChinaDepartment of Animal Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, ChinaDepartment of Animal Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, ChinaDepartment of Animal Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, ChinaCollege of Life Science, China West Normal University, Nanchong 637009, ChinaDepartment of Animal Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, ChinaDepartment of Animal Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, ChinaDepartment of Zoology, College of Life Science, Sichuan Agricultural University, Ya’an 625014, ChinaChongqing Academy of Animal Science, Chongqing 402460, ChinaChongqing Academy of Animal Science, Chongqing 402460, ChinaDepartment of Animal Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, ChinaDepartment of Animal Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, ChinaIntrauterine growth restriction (IUGR) is an important cause of newborn morbidity and mortality in mammals. Transfer RNA-derived small RNA (tsRNA) has become an emerging non-coding RNA in recent years. tsRNA and microRNAs (miRNAs) share similar mechanisms, which are involved in various biological processes. In this study, the pig was used as a model of IUGR, and the tsRNA and miRNA expression profile in the spleen was characterized by RNA sequencing. A total of 361 miRNAs and 620 tsRNAs were identified, of which 22 were differentially expressed miRNA (DEM) and 25 differentially expressed tsRNA (DET). tRF-5c were the primary tsRNA type making up more than 90%, and the most abundantly expressed tsRNAs are from tRNA-Gly-GCC. Functional enrichment analysis found that those DETs and DEMs have been implicated in the immune system process. Protein–protein interaction (PPI) network analysis revealed ssc-miR-370, ssc-miR-206, tiRNA-Ser-TGA-001 and tRF-Val-AAC-034 could be major regulators. TNF, TLR4, CD44, MAPK1 and STAT1 were predicted hub target genes. Those DETs and DEMs may regulate the T-cell receptor signaling pathway and Toll-like receptor signaling pathway to mediate the immunocompromise caused by IUGR. The results discussed in this article uncover the potential role of tsRNAs and miRNAs in IUGR porcine spleen.https://www.mdpi.com/2076-2615/12/16/2102intrauterine growth restrictionpig modelspleenimmunocompromisemicroRNAtsRNA |
| spellingShingle | Jianfeng Ma Mailin Gan Jingyun Chen Lei Chen Ye Zhao Yan Zhu Lili Niu Shunhua Zhang Yanzhi Jiang Zongyi Guo Jinyong Wang Li Zhu Linyuan Shen Characteristics of tRNA-Derived Small RNAs and microRNAs Associated with Immunocompromise in an Intrauterine Growth-Restricted Pig Model Animals intrauterine growth restriction pig model spleen immunocompromise microRNA tsRNA |
| title | Characteristics of tRNA-Derived Small RNAs and microRNAs Associated with Immunocompromise in an Intrauterine Growth-Restricted Pig Model |
| title_full | Characteristics of tRNA-Derived Small RNAs and microRNAs Associated with Immunocompromise in an Intrauterine Growth-Restricted Pig Model |
| title_fullStr | Characteristics of tRNA-Derived Small RNAs and microRNAs Associated with Immunocompromise in an Intrauterine Growth-Restricted Pig Model |
| title_full_unstemmed | Characteristics of tRNA-Derived Small RNAs and microRNAs Associated with Immunocompromise in an Intrauterine Growth-Restricted Pig Model |
| title_short | Characteristics of tRNA-Derived Small RNAs and microRNAs Associated with Immunocompromise in an Intrauterine Growth-Restricted Pig Model |
| title_sort | characteristics of trna derived small rnas and micrornas associated with immunocompromise in an intrauterine growth restricted pig model |
| topic | intrauterine growth restriction pig model spleen immunocompromise microRNA tsRNA |
| url | https://www.mdpi.com/2076-2615/12/16/2102 |
| work_keys_str_mv | AT jianfengma characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT mailingan characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT jingyunchen characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT leichen characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT yezhao characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT yanzhu characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT liliniu characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT shunhuazhang characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT yanzhijiang characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT zongyiguo characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT jinyongwang characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT lizhu characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel AT linyuanshen characteristicsoftrnaderivedsmallrnasandmicrornasassociatedwithimmunocompromiseinanintrauterinegrowthrestrictedpigmodel |