RNA-Seq Reveals miRNA Role Shifts in Seven Stages of Skeletal Muscles in Goat Fetuses and Kids.
STEM
goat (Capra hircus)
miRNA
miRNA–mRNA network
skeletal muscle
Journal
Frontiers in genetics
ISSN: 1664-8021
Titre abrégé: Front Genet
Pays: Switzerland
ID NLM: 101560621
Informations de publication
Date de publication:
2020
2020
Historique:
received:
25
11
2019
accepted:
04
06
2020
entrez:
1
8
2020
pubmed:
1
8
2020
medline:
1
8
2020
Statut:
epublish
Résumé
MicroRNAs (miRNAs) are indispensable for the regulation of skeletal muscle. We performed RNA sequencing (RNA-seq) to establish a comprehensive miRNA profiling of goats in seven stages, namely, 45- (F45), 65- (F65), 90- (F90), 120- (F120), and 135-day (F135) fetuses, newborn (B1), and 90-day-old (B90) kids. In total, 421 known miRNAs and 228 goat novel miRNAs were identified in the data, and the average abundance of 19 miRNAs in seven stages exceeds 10,000 reads per million. Furthermore, 420 differentially expressed miRNAs (DEmiRNAs) were identified in all comparison group at seven stages, 80 of which were uniquely differentially expressed in the B1 and B90 comparison groups. Pathway analysis indicated that this group was associated with the release of muscle hypertrophy and regulation of myoblast proliferation. Besides, 305 DEmiRNAs were clustered into three significantly enriched profiles (profiles 11, 16, and 19). Function analysis revealed that profile 16 was related to muscle hypertrophy and differentiation. Profile 11 was involved in multiple enzyme activities and metabolic processes in muscle cells. And profile 19 was involved in material transport and structural stability. Two highly expressed miRNAs and three key miRNAs (chi-miR-328-3p, chi-miR-767, and chi-miR-150) of these profiles were verified to be consistent with the data by quantitative real-time PCR. These results provided a catalog of goat muscle-associated miRNAs, allowing us to better understand the transformation of miRNA roles during mammalian muscle development.
Identifiants
pubmed: 32733538
doi: 10.3389/fgene.2020.00684
pmc: PMC7358459
doi:
Types de publication
Journal Article
Langues
eng
Pagination
684Informations de copyright
Copyright © 2020 Ling, Zheng, Jing, Sui, Zhu, Li, Zhang, Liu, Fang and Zhang.
Références
Cell Rep. 2017 Oct 31;21(5):1253-1266
pubmed: 29091764
Hepatology. 2018 Oct;68(4):1459-1475
pubmed: 29637568
PLoS One. 2014 May 12;9(5):e96857
pubmed: 24818606
Nat Commun. 2017 Oct 6;8(1):797
pubmed: 28986522
Am J Physiol Regul Integr Comp Physiol. 2018 May 1;314(5):R741-R751
pubmed: 29443546
Int J Biol Sci. 2018 May 12;14(7):760-774
pubmed: 29910686
J Gerontol A Biol Sci Med Sci. 2019 Jun 18;74(7):1008-1014
pubmed: 30215687
Sci Rep. 2017 Aug 29;7(1):9723
pubmed: 28852047
Sci Rep. 2016 Jul 25;6:30281
pubmed: 27452271
Am J Physiol Cell Physiol. 2003 May;284(5):C1149-55
pubmed: 12519750
Bone. 2015 Nov;80:2-13
pubmed: 26453493
Front Aging Neurosci. 2015 May 28;7:85
pubmed: 26074812
J Agric Food Chem. 2018 May 9;66(18):4734-4740
pubmed: 29685038
FASEB J. 2015 Apr;29(4):1314-28
pubmed: 25491309
Asian-Australas J Anim Sci. 2019 Jun;32(6):757-766
pubmed: 30477295
Mol Cancer. 2014 Feb 21;13:33
pubmed: 24555688
Nat Commun. 2018 Oct 12;9(1):4232
pubmed: 30315160
Cell. 2007 Oct 5;131(1):25-8
pubmed: 17923084
BMC Bioinformatics. 2012 Jun 21;13:140
pubmed: 22720726
Genome Biol. 2009;10(3):R25
pubmed: 19261174
J Hepatol. 2017 Nov;67(5):966-978
pubmed: 28645739
Cell. 2013 Apr 25;153(3):654-65
pubmed: 23622248
Proc Natl Acad Sci U S A. 2006 Mar 21;103(12):4741-6
pubmed: 16537399
J Clin Invest. 2014 Jun;124(6):2651-67
pubmed: 24789910
Nucleic Acids Res. 2012 Jan;40(1):37-52
pubmed: 21911355
Sci Rep. 2018 Mar 2;8(1):3909
pubmed: 29500394
Development. 2017 Jun 15;144(12):2104-2122
pubmed: 28634270
PLoS One. 2016 Oct 31;11(10):e0165764
pubmed: 27798673
Dev Biol. 2016 Feb 1;410(1):1-13
pubmed: 26708096
J Cell Physiol. 2019 Feb 22;:
pubmed: 30793769
Genome Biol. 2010;11(2):R14
pubmed: 20132535
Biol Rev Camb Philos Soc. 2009 Nov;84(4):637-52
pubmed: 19725819
Nat Commun. 2018 Nov 7;9(1):4671
pubmed: 30405106
Biol Reprod. 2004 Dec;71(6):1968-73
pubmed: 15317692
Cell Rep. 2018 May 15;23(7):1907-1914
pubmed: 29768191
Nature. 2017 Oct 12;550(7675):275-279
pubmed: 28976967
J Biol Chem. 2017 Jan 6;292(1):351-360
pubmed: 27899448
Am J Med Genet C Semin Med Genet. 2011 May 15;157C(2):104-14
pubmed: 21495178
PLoS One. 2010 Dec 30;5(12):e15224
pubmed: 21253009
Open Biol. 2016 Sep;6(9):
pubmed: 27628322
Dev Cell. 2010 Apr 20;18(4):643-54
pubmed: 20412778
Bioinformatics. 2005 Oct 1;21(19):3787-93
pubmed: 15817693
Cell Metab. 2018 May 01;27(5):1026-1039.e6
pubmed: 29606596
Physiology (Bethesda). 2018 Jan 1;33(1):26-38
pubmed: 29212890
J Proteome Res. 2015 Jan 2;14(1):342-52
pubmed: 25231380
Dev Biol. 2009 Nov 1;335(1):93-105
pubmed: 19699733
Nat Med. 2015 Dec;21(12):1455-63
pubmed: 26569381
Cell. 2004 Jan 23;116(2):281-97
pubmed: 14744438
Life Sci. 2010 Jul 3;87(1-2):9-16
pubmed: 20470788
Int J Biol Sci. 2015 Feb 05;11(3):345-52
pubmed: 25678853
Development. 2011 Jul;138(14):2935-45
pubmed: 21653616
J Proteomics. 2013 Oct 8;91:188-99
pubmed: 23238062