Genome-Wide Phylogenetic Analysis, Expression Pattern, and Transcriptional Regulatory Network of the Pig C/EBP Gene Family

Autor: Chaoxin Zhang, Tao Wang, Tongyan Cui, Shengwei Liu, Bing Zhang, Xue Li, Jian Tang, Peng Wang, Yuanyuan Guo, Zhipeng Wang
Jazyk: angličtina
Rok vydání: 2021
Předmět:
Zdroj: Evolutionary Bioinformatics, Vol 17 (2021)
Druh dokumentu: article
ISSN: 1176-9343
11769343
DOI: 10.1177/11769343211041382
Popis: The CCAAT/enhancer binding protein (C/EBP) transcription factors (TFs) regulate many important biological processes, such as energy metabolism, inflammation, cell proliferation etc. A genome-wide gene identification revealed the presence of a total of 99 C/EBP genes in pig and 19 eukaryote genomes. Phylogenetic analysis showed that all C/EBP TFs were classified into 6 subgroups named C/EBPα, C/EBPβ, C/EBPδ, C/EBPε, C/EBPγ , and C/EBPζ . Gene expression analysis showed that the C/EBPα, C/EBPβ, C/EBPδ, C/EBPγ , and C/EBPζ genes were expressed ubiquitously with inconsistent expression patterns in various pig tissues. Moreover, a pig C/EBP regulatory network was constructed, including C/EBP genes, TFs and miRNAs. A total of 27 feed-forward loop (FFL) motifs were detected in the pig C/EBP regulatory network. Based on the RNA-seq data, gene expression patterns related to FFL sub-network were analyzed in 27 adult pig tissues. Certain FFL motifs may be tissue specific. Functional enrichment analysis indicated that C/EBP and its target genes are involved in many important biological pathways. These results provide valuable information that clarifies the evolutionary relationships of the C/EBP family and contributes to the understanding of the biological function of C/EBP genes.
Databáze: Directory of Open Access Journals
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