Frontiers in Cellular and Infection Microbiology (Dec 2021)
Analysis of lncRNAs and mRNA Expression in the ZBTB1 Knockout Monoclonal EL4 Cell Line and Combined Analysis With miRNAs and circRNAs
- Junhong Wang,
- Junhong Wang,
- Junhong Wang,
- Xiaoxu Li,
- Xiaoxu Li,
- Xiaoxu Li,
- Yiyuan Lu,
- Yiyuan Lu,
- Yiyuan Lu,
- Quntao Huang,
- Quntao Huang,
- Quntao Huang,
- Yu Sun,
- Yu Sun,
- Yu Sun,
- Mingyang Cheng,
- Mingyang Cheng,
- Mingyang Cheng,
- Fengdi Li,
- Fengdi Li,
- Fengdi Li,
- Chunwei Shi,
- Chunwei Shi,
- Chunwei Shi,
- Yan Zeng,
- Yan Zeng,
- Yan Zeng,
- Chunfeng Wang,
- Chunfeng Wang,
- Chunfeng Wang,
- Xin Cao,
- Xin Cao,
- Xin Cao
Affiliations
- Junhong Wang
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Junhong Wang
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Junhong Wang
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Xiaoxu Li
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Xiaoxu Li
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Xiaoxu Li
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Yiyuan Lu
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Yiyuan Lu
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Yiyuan Lu
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Quntao Huang
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Quntao Huang
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Quntao Huang
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Yu Sun
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Yu Sun
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Yu Sun
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Mingyang Cheng
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Mingyang Cheng
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Mingyang Cheng
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Fengdi Li
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Fengdi Li
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Fengdi Li
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Chunwei Shi
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Chunwei Shi
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Chunwei Shi
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Yan Zeng
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Yan Zeng
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Yan Zeng
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Chunfeng Wang
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Chunfeng Wang
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Chunfeng Wang
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- Xin Cao
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, China
- Xin Cao
- Jilin Provincial Engineering Research Center of Animal Probiotics, Jilin Agricultural University, Changchun, China
- Xin Cao
- Key Laboratory of Animal Production and Product Quality Safety of Ministry of Education, Jilin Agricultural University, Changchun, China
- DOI
- https://doi.org/10.3389/fcimb.2021.806290
- Journal volume & issue
-
Vol. 11
Abstract
In previous experiments, we identified the effect of deletion of the Zbtb1 gene on circRNAs and microRNAs. In this study, we examined the expression profiles of lncRNAs and mRNAs using the RNA-seq method for Zbtb1-deficient EL4 cells and performed a clustering analysis of differentially expressed lncRNAs and mRNAs. GO term histograms and KEGG scatter plots were drawn. For the experimental results, a joint analysis was performed, which predicted the regulatory relationships among lncRNAs, mRNAs, microRNAs and circRNAs. For the regulatory relationship between lncRNAs and target genes, the chromatin structure and the degree of openness were verified for the possible target gene locations regulated by lncRNA using experimental methods such as Hi-C and ATAC-seq. Ultimately, the possible differential regulation of the Brcal and Dennd5d genes by lncRNAs and the differential changes in transcription factor binding sites in the promoter region were identified. For neRNA-regulated target genes with significantly differentially expressed mRNAs, a combined screen was performed, and the final obtained candidate target genes were subjected to GO and KEGG term enrichment analyses. Our results illustrate that the Zbtb1 gene can not only function as a regulatory factor but also regulate EL4 cells from multiple perspectives based on ceRNA theory.
Keywords
