Scientia Agricultura Sinica ›› 2021, Vol. 54 ›› Issue (14): 3134-3148.doi: 10.3864/j.issn.0578-1752.2021.14.018

• RESEARCH NOTES • Previous Articles    

Investigation of miR-486 Target Genes in Skeletal Muscle of Bashbay Sheep in Different Development Periods

ZHANG Wei1,2(),WANG ShiYin1(),GAO Li1,YANG LiWei1,DENG ShuangYi1,LIU XiaoNa1,SHI GuoQing2,GAN ShangQuan2()   

  1. 1Xinjiang Agricultural Professional Technological College, Changji 831100, Xinjiang
    2State Key Laboratory of Sheep Genetic Improvement and Healthy Production/Institute of Animal Husbandry and Veterinary, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi 832000, Xinjiang
  • Received:2020-06-03 Accepted:2020-10-30 Online:2021-07-16 Published:2021-07-26
  • Contact: ShiYin WANG,ShangQuan GAN E-mail:zhangweigsau@163.com;wangshiyinxjnzy@163.com;shangquangan@163.com

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Abstract:

【Objective】The aim of this study was to deeply reveal the target genes of miR-486 in skeletal muscle of Bashbay sheep during different development periods, and to get basic data for finally uncover the molecular regulation mechanism of excellent meat traits of this sheep breed, then finally to support to further breeding. 【Method】The skeletal muscle of Bashbay sheep were collected during 40 d, 50 d, 60 d, 80 d, 100 d and 120 d of fetal period, and 1, 2, and 3 months old of new born sheep. The total RNA was extracted, and two cDNA libraries of miR-486 target genes were constructed using mRNA of fetal and postnatal period, respectively, then the library was sequenced applied high-throughput sequencing technology. Based on the function analysis, 10 candidate target genes were selected, and their express patterns in Bashbay sheep skeletal muscle of 10 development periods mentioned above were detected by qRT-PCR. By analyzing the expression pattern of these 10 candidate target genes and miR-486 in skeletal muscle of Bashbay sheep, their target regulation relationship and functions were primarily verified. Finally, 4 candidate target genes were chosen to confirm their regulation relationship using the double luciferase reporter assay and target regulation assay in satellite cell of skeletal muscle of Bashbay sheep. 【Result】Total 123 and 118 target genes of fetal and postnatal period were obtained, respectively. Due to these target genes were not confirmed by further function assay, so they were called candidate target genes temporarily. Among of them, 96 genes were expressed in skeletal muscle of fetal and postnatal period, 27 and 22 genes were specially expressed in these two periods respectively. The result of GO and KEGG analysis showed that these candidate target genes regulated mass pathways related to muscle cell differentiation and development, just like PI3k-Akt, MAPK, Wnt, Adherens junction and Regulation of actin cytoskeleton, etc. All 10 candidate target genes were expressed in skeletal muscle of Bashbay sheep, but their expression patterns were different. Among of them,PTEN, Foxo1, Dock3, PAX7, IGF1R, PIK3I1 and FBN1 were expressed at a relatively high level in the fetal period skeletal muscle of Bashbay sheep, but were significantly down regulated during postnatal period, and OLFM4 showed an opposite expression pattern compared with above 7 genes. The expression of ARHGAP5 and PDCD4 gene did not found significantly change in all 10 development periods of Bashbay sheep. The result of double luciferase reporter assay showed that miR-486 could bind the target sites of PTEN, Foxo1, IGF1R and PIK3I1 efficiently, and significantly suppressed the activity of firefly luciferase. In skeletal muscle satellite cell, mir-486 also could down-regulate mRNA of these four genes significantly, and finally suppressed their biology functions. So it was ultimately confirmed that miR-486 could regulate these 4 target genes indeed in skeletal muscle of Bashbay sheep. 【Conclusion】The investigation deeply revealed the target genes of miR-486 in skeletal muscle of Bashbay sheep during different development periods for the first time, and comprehensively analyzed the biology process and signaling pathway they participated. The further function assay proved that the data of target genes were reliable. These data would help to uncover the molecular regulation mechanisms related to excellent meat traits of Bashbay sheep.

Key words: Bashbay sheep, miR-486, target gene, skeletal muscle, cDNA library

Table 1

qRT-PCR primer of 10 candidate target genes"

基因 Gene 登录号* Transcript ID 引物名称 Primers name 引物序列(5′-3′) Sequence of primers 片段大小 Size (bp)
PTEN ENSOART00000015407.1 PTENqF GTATTTGCAGTATAGAGCGTGC 165
PTENqR GGATTTGATGACTCCTCTACTG
Foxo1 ENSBTAT00000061127.3 Foxo1qF CCACAGCAATGACGACTTCGAC 275
Foxo1qR GACTGGGTGGACACAGTCAATG
Dock3 ENSOART00000008795.1 Dock3qF AATCAGCCAAGCCTTCAGCTAG 246
Dock3qR TCTGCTCCCAGTCCATCATGTC
PAX7 ENSOART00000011524.1 PAX7qF GTTCGATTAGCCGAGTGCTCAG 274
PAX7qR GTAGATGTCTGGGTAGTGGGTC
ARHGAP5 ENSOART00000006997.1 ARHG5qF GTCTATCAGAACCATGTACAGC 189
ARHG5qR CATACACCTCTTTGCTATCAGC
OLFM4 ENSOART00000007293.1 OLFM4qF GACCATCTCCAAGAAGTTCGAG 159
OLFM4qR CTTGATCAGCTCAAAGTCCAGC
IGF1R ENSOART00000010895.1 IGF1RqF GGAAGAGCTCGAGACTGAGTAC 159
IGF1RqR GACAAAGTTAGAGGCGCTGCAG
PIK3R1 ENSOART00000006390.1 PIK3R1qF CATGGGGATTACACTCTTACAC 147
PIK3R1qR CTAGAGATTCATTCCGGTAGTG
FBN1 ENSOART00000022901.1 FBN1qF GGATTTCACGTCACACGAGATG 208
FBN1qR ACACAACGCCCATTCATGCAGA
PDCD4 ENSOART00000011353.1 PDCD4qF ATTGCTAGAGCTGTTGGAGATG 250
PDCD4qR TCAGCTTCAGAAATGTCTCCAG
β-actin ENSOART00000003275.1 β-actin qF TGTGCGTGACATCAAGGAGAAG 177
β-actinqR AGGAAGGAAGGCTGGAAGAG

Table 2

The primers used to construct luciferase reporter vectors"

引物 Primer 引物序列(5′-3′) Sequence of primers 片段大小Size (bp) 试验用途 Experiment
PTENcF ccctcgagggCACCTTTCTTTAGCATGCTAC 262 载体构建
Vector construction
PTENcR ccaagcttggGATAGCCTCCACATTTGTATG
PTENmutF GAATCTGTATTGGGGTACcttcATGAACCTTCCACAACAT 262 靶位点突变
Mutate bind site
PTENmutR ATGTTGTGGAAGGTTCATgaagGTACCCCAATACAGATTC
Foxo1cF ccctcgagggGAGAAGCAGTCCAAAGATGTC 221 载体构建
Vector construction
Foxo1cR ccaagcttggATGGTGTAGTGAGTTTGGCAC
Foxo1mutF CGAAGACGCTTCCTGTACcttcTGTTTGCCCAGTGTTTGC 221 靶位点突变
Mutate bind site
Foxo1mutR GCAAACACTGGGCAAACAgaagGTACAGGAAGCGTCTTCG
IGF1RcF ccctcgagggGAGAATCCCAATGGATTGATC 237 载体构建
Vector construction
IGF1RcR ccaagcttggGGATGAAGTTCTCATATGTCG
IGF1RmutF GTGTCCAGACAGGAGTACcttcAGTATGGAGGAGCCAAGC 237 靶位点突变
Mutate bind site
IGF1RmutR GCTTGGCTCCTCCATACTgaagGTACTCCTGTCTGGACAC
PIK3R1cF ccctcgagggCTGAAGGCTAAATTCACAGTG 267 载体构建
Vector construction
PIK3R1cR ccaagcttggTAACAGCCAAGTACTCTGTAC
PIK3R1mutF GCTTTTAAAGAAATGTACcttcTGCCAGTTTGTCAAGTCG 267 靶位点突变
Mutate bind site
PIK3R1mutR CGACTTGACAAACTGGCAgaagGTACATTTCTTTAAAAGC

Table 3

The sequences of miR-486 mimics, miR-486 inhibitor and their negative controls"

名称 Name 序列(5′-3′) Sequence
miR-486 mimics UCCUGUACUGAGCUGCCCCGAG
miR-486 mimics negative control CAGUACUAGCGUGUAGUACCAA
miR-486 inhibitor CUCGGGGCAGCUCAGUACAGGA
miR-486 inhibitor negative control GCAUGGCUUGAGUCCGUAAGAU

Fig. 1

The top 10 items in GO analysis of candidate target genes A and B are GO analysis results of fetal and postnatal period, y axis show the GO items, X axis show the percentage of the candidate target genes enriched in one GO item account for the candidate target genes noted in one kind of GO mold"

Fig. 2

KEGG analysis result of candidate target genes A and B are KEGG analysis result of fetal and postnatal period candidate target genes, y axis show the pathway name, X axis show the rich factor, bubble size reflect the number of candidate target genes enriched to a certain pathway/all quantities in the background, color reflect the significance level of a certain pathway"

Fig. 3

The relative expression levels of 10 candidate target genes in skeletal muscle of Bashbay sheep in different development stages Figure A to J are qRT-PCR results of 10 candidate target genes in skeletal muscle of Bashbay sheep in different development stages, the abscissa axis shows the different development stages of Bashbay skeletal muscle, 1 to 10 shows the 40, 50, 60, 80, 100 and 120 d of fetus periods, and the day of birth, and 30, 60 and 90 d of postnatal periods, expression levels without letters or with the same letters have no significant difference (P>0.05), with the different lowercase letters have significant differences (P<0.05), with the different capital letters have extremely significant differences (P<0.01). The same as below "

Fig. 4

Double luciferase reporter assay experiments A: the insert site of candidate target gene fragment in vector and the sequence of wild (WT) and mutant (Mut) type, the base with underline are mutated bases achieved by overlap extension PCR. B: the relative luciferase activity determined 48 h after transfection. Data are expressed as means ± SD of three independent experiments, NC is negative control of miR-486"

Fig. 5

The relative expression levels of 4 candidate target genes in transfected cells A, B, C and D are relative expression levels of 4 candidate target genes in transfected cells during 24, 48 and 72 h"

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