Screening of Bovine Tissue-Specific Expressed Genes and Identification of Genetic Variation Within an Adipose Tissue-Specific lncRNA Gene

Abstract

Global classification of bovine genes is important for studies of biology and tissue-specific gene editing. Herein, we classified the tissue-specific expressed genes and uncovered an important variation in the promoter region of an adipose tissue-specific lncRNA gene. Statistical analysis demonstrated that the number of genes specifically expressed in the brain was the highest, while it was lowest in the adipose tissues. A total of 1,575 genes were found to be significantly higher expressed in adipose tissues. Bioinformatic analysis and qRT-PCR were used to uncover the expression profiles of the 23 adipose tissue-specific and highly expressed genes in 8 tissues. The results showed that most of the 23 genes have higher expression level in adipose tissue. Besides, we detected a 12 bp insertion/deletion (indel) variation (rs720343880) in the promoter region of an adipose tissue-specific lncRNA gene (LOC100847835). The different genotypes of this variation were associated with carcass traits of cattle. Therefore, the outcomes of the present study can be used as a starting point to explore the development of cattle organs and tissues, as well as to improve the quality of cattle products.

CircRNA Profiling Reveals an Abundant circBDP1 that Regulates Bovine Fat Development by Sponging miR-181b/miR-204 Targeting Sirt1/TRARG1

“…Because gene tissue-specific expression is a major cause of differences in the tissue function, therefore, in order to narrow the scope of the target genes, this study predicted miR-204 and miR-181b target genes in cattle adipose tissue-specific genes. A total of 23 adipose tissue-specific genes were screened from different tissues of cattle in the previous study . Targeting prediction revealed that miR-204 and miR-181b have potential binding sites in the 3’ UTR region of Leptin and TRARG1 adipose tissue-specific genes.…”

“…The procedure of transcript expression level analysis was consistent with the previously published article. 27 Raw data were filtered to obtain clean reads for analysis. For circRNA sequencing results, the filtered clean reads were mapped to the bovine reference genome (ARS-UCD1.2) using Hisat2 software.…”

“…The mRNA sequencing was completed at Annoroad Gene Technology Co., Ltd., Beijing, China. The procedure of transcript expression level analysis was consistent with the previously published article …”

“…A total of 23 adipose tissue-specific genes were screened from different tissues of cattle in the previous study. 27 Targeting prediction revealed that miR-204 and miR-181b have potential binding sites in the 3' UTR region of Leptin and TRARG1 adipose tissue-specific genes. The verification results of the dual-luciferin reporter test showed that miR-204 and miR-181b do not target Leptin and miR-181b do not target TRARG1 (Figure 12B−D).…”