The miRNA Transcriptome Directly Reflects the Physiological and Biochemical Differences between Red, White, and Intermediate Muscle Fiber Types.
MicroRNAs (miRNAs) are small non-coding RNAs that can regulate their target genes at the post-transcriptional level. Skeletal muscle comprises different ﬁber types that can be broadly classified as red, intermediate, and white. Recently, a set of miRNAs was found expressed in a fiber type-specific manner in red and white fiber types. However, an in-depth analysis of the miRNA transcriptome differences between all three fiber types has not been undertaken. Herein, we collected 15 porcine skeletal muscles from different anatomical locations, which were then clearly divided into red, white, and intermediate fiber type based on the ratios of myosin heavy chain isoforms. We further illustrated that three muscles, which typically represented each muscle fiber type (i.e., red: peroneal longus (PL), intermediate: psoas major muscle (PMM), white: longissimus dorsi muscle (LDM)), have distinct metabolic patterns of mitochondrial and glycolytic enzyme levels. Furthermore, we constructed small RNA libraries for PL, PMM, and LDM using a deep sequencing approach. Results showed that the differentially expressed miRNAs were mainly enriched in PL and played a vital role in myogenesis and energy metabolism. Overall, this comprehensive analysis will contribute to a better understanding of the miRNA regulatory mechanism that achieves the phenotypic diversity of skeletal muscles.
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. jideng_ma@sina.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. jideng_ma@sina.com.
Jideng
J
Ma
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. hongmei_wang0826@163.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. hongmei_wang0826@163.com.
Hongmei
H
Wang
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. rui_liu777@163.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. rui_liu777@163.com.
Rui
R
Liu
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. longjin8806@163.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. longjin8806@163.com.
Long
L
Jin
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. wupie@163.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. wupie@163.com.
Qianzi
Q
Tang
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. xun_wang007@163.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. xun_wang007@163.com.
Xun
X
Wang
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. lingdang317@163.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. lingdang317@163.com.
Anan
A
Jiang
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. yaodong_hu@163.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. yaodong_hu@163.com.
Yaodong
Y
Hu
Novogene Bioinformatics Institute, Beijing 100083, China. lizongwen@novogene.cn.
Zongwen
Z
Li
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. zhuli7508@163.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. zhuli7508@163.com.
Li
L
Zhu
Novogene Bioinformatics Institute, Beijing 100083, China. lirq@novogene.cn.
Ruiqiang
R
Li
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. mingzhou.li@163.com.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. mingzhou.li@163.com.
Mingzhou
M
Li
Institute of Animal Genetics & Breeding, College of Animal Science & Technology, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. xuewei.li@sicau.edu.cn.|Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Ya'an 625014, Sichuan, China. xuewei.li@sicau.edu.cn.
Xuewei
X
Li
D000818:Animals; D004734:Energy Metabolism / Q000235:genetics; D005260:Female; D059014:High-Throughput Nucleotide Sequencing; D053858:Metabolic Networks and Pathways / Q000235:genetics; D035683:MicroRNAs / Q000235:genetics* / Q000378:metabolism; D024510:Muscle Development / Q000235:genetics; D018485:Muscle Fibers, Skeletal / Q000378:metabolism* / Q000502:physiology*; D018919:Neovascularization, Physiologic / Q000235:genetics; D009928:Organ Specificity / Q000235:genetics; D034421:Sus scrofa / Q000235:genetics; D059467:Transcriptome / Q000235:genetics*
D035683:MicroRNAs