Full-Length Transcriptome and Gene Expression Analysis of Different Adipose Tissues Reveals Transcript Variants Involved in Lipid Biosynthesis

Overview

Journal Animals (Basel)

Date 2024 Jan 11

PMID 38200738

Authors

Lixia An

Yangyang Pan

Mengjiao Yuan

Zhonghao Wen

Liying Qiao

Weiwei Wang

Jianhua Liu

Baojun Li

Wenzhong Liu

Affiliations

Soon will be listed here.

Abstract

Sheep have historically been bred globally as a vital food source. To explore the transcriptome of adipose tissue and investigate key genes regulating adipose metabolism in sheep, adipose tissue samples were obtained from F1 Dorper × Hu sheep. High-throughput sequencing libraries for second- and third-generation sequencing were constructed using extracted total RNA. Functional annotation of differentially expressed genes and isoforms facilitated the identification of key regulatory genes and isoforms associated with sheep fat metabolism. SMRT-seq generated 919,259 high-accuracy cDNA sequences after filtering. Full-length sequences were corrected using RNA-seq sequences, and 699,680 high-quality full-length non-chimeric (FLNC) reads were obtained. Upon evaluating the ratio of total lengths based on FLNC sequencing, it was determined that 36,909 out of 56,316 multiple-exon isoforms met the criteria for full-length status. This indicates the identification of 330,375 full-length FLNC transcripts among the 370,114 multiple-exon FLNC transcripts. By comparing the reference genomes, 60,276 loci and 111,302 isoforms were identified. In addition, 43,423 new genes and 44,563 new isoforms were identified. The results identified 185 (3198), 394 (3592), and 83 (3286) differentially expressed genes (transcripts) between tail and subcutaneous, tail and visceral, and subcutaneous and visceral adipose tissues, respectively. Functional annotation and pathway analysis revealed the following observations. (1) Among the differentially expressed genes (DEGs) of TF and SF tissues, the downregulation of , , and was observed in SF, while exhibited upregulation. (2) Among the DEGs of TF and VF tissues, expressions of , , , , and were downregulated in VF, with upregulation of . (3) Among SF and VF expressions of , and were downregulated in VF. Specific differentially expressed genes (, , , , , , and ) and transcripts (NC_056066.1.1866.16 and NC_056066.1.1866.22) were identified as relevant to fat metabolism. These results provide a dataset for further verification of the regulatory pathway associated with fat metabolism in sheep.

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