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Open AccessArticle

Long Noncoding RNA and mRNA Expression Profiles in the Thyroid Gland of Two Phenotypically Extreme Pig Breeds Using Ribo-Zero RNA Sequencing

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College of Animal Science, Zhejiang University, Hangzhou 310058, China
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Laboratory of Animal Research Center, Zhenjiang Chinese Medical University, Hangzhou 310053, China
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College of Mechanics, Taiyuan University of Technology, Taiyuan 030024, China
*
Author to whom correspondence should be addressed.
Academic Editor: Paolo Cinelli
Genes 2016, 7(7), 34; https://doi.org/10.3390/genes7070034
Received: 30 March 2016 / Revised: 24 June 2016 / Accepted: 5 July 2016 / Published: 9 July 2016
(This article belongs to the Section Molecular Genetics and Genomics)
The thyroid gland is an important endocrine organ modulating development, growth, and metabolism, mainly by controlling the synthesis and secretion of thyroid hormones (THs). However, little is known about the pig thyroid transcriptome. Long non-coding RNAs (lncRNAs) regulate gene expression and play critical roles in many cellular processes. Yorkshire pigs have a higher growth rate but lower fat deposition than that of Jinhua pigs, and thus, these species are ideal models for studying growth and lipid metabolism. This study revealed higher levels of THs in the serum of Yorkshire pigs than in the serum of Jinhua pigs. By using Ribo-zero RNA sequencing—which can capture both polyA and non-polyA transcripts—the thyroid transcriptome of both breeds were analyzed and 22,435 known mRNAs were found to be expressed in the pig thyroid. In addition, 1189 novel mRNAs and 1018 candidate lncRNA transcripts were detected. Multiple TH-synthesis-related genes were identified among the 455 differentially-expressed known mRNAs, 37 novel mRNAs, and 52 lncRNA transcripts. Bioinformatics analysis revealed that differentially-expressed genes were enriched in the microtubule-based process, which contributes to THs secretion. Moreover, integrating analysis predicted 13 potential lncRNA-mRNA gene pairs. These data expanded the repertoire of porcine lncRNAs and mRNAs and contribute to understanding the possible molecular mechanisms involved in animal growth and lipid metabolism. View Full-Text
Keywords: Ribo-zero RNA sequencing; lncRNA; thyroid; pig Ribo-zero RNA sequencing; lncRNA; thyroid; pig
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Shen, Y.; Mao, H.; Huang, M.; Chen, L.; Chen, J.; Cai, Z.; Wang, Y.; Xu, N. Long Noncoding RNA and mRNA Expression Profiles in the Thyroid Gland of Two Phenotypically Extreme Pig Breeds Using Ribo-Zero RNA Sequencing. Genes 2016, 7, 34.

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