Analyzing the miRNA-Gene Networks to Mine the Important miRNAs under Skin of Human and Mouse.
Genetic networks provide new mechanistic insights into the diversity of species morphology. In this study, we have integrated the MGI, GEO, and miRNA database to analyze the genetic regulatory networks under morphology difference of integument of humans and mice. We found that the gene expression network in the skin is highly divergent between human and mouse. The GO term of secretion was highly enriched, and this category was specific in human compared to mouse. These secretion genes might be involved in eccrine system evolution in human. In addition, total 62,637 miRNA binding target sites were predicted in human integument genes (IGs), while 26,280 miRNA binding target sites were predicted in mouse IGs. The interactions between miRNAs and IGs in human are more complex than those in mouse. Furthermore,hsa-miR-548,mmu-miR-466, andmmu-miR-467have an enormous number of targets on IGs, which both have the role of inhibition of host immunity response. The pattern of distribution on the chromosome of these three miRNAs families is very different. The interaction of miRNA/IGs has added the new dimension in traditional gene regulation networks of skin. Our results are generating new insights into the gene networks basis of skin difference between human and mouse.
College of Animal Science, Inner Mongolia Agricultural University, Hohhot 010018, China; Inner Mongolia Academy of Agricultural & Animal Husbandry Sciences, Hohhot 010031, China; Inner Mongolia Prataculture Research Center, Chinese Academy of Science, Hohhot 010031, China; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China; Department of Biology, Indiana State University, Terre Haute, IN 47809, USA.
Jianghong
0000-0003-4027-2345
J
Wu
College of Animal Science, Inner Mongolia Agricultural University, Hohhot 010018, China; Inner Mongolia Academy of Agricultural & Animal Husbandry Sciences, Hohhot 010031, China.
Husile
H
Gong
Department of Biology, Indiana State University, Terre Haute, IN 47809, USA; The Center for Genomic Advocacy, Indiana State University, Terre Haute, IN 47809, USA.
Yongsheng
0000-0002-9944-5426
Y
Bai
College of Animal Science, Inner Mongolia Agricultural University, Hohhot 010018, China.
Wenguang
0000-0002-3508-588X
W
Zhang
Mol Cell Biol. 2014 Sep 15;34(18):3407-20
24980435
Nat Rev Immunol. 2014 May;14(5):289-301
24722477
Genome Res. 2003 Nov;13(11):2498-504
14597658
Database (Oxford). 2014 Aug 25;2014:
25157074
BMC Syst Biol. 2014;8 Suppl 2:I1
25032990
Nucleic Acids Res. 2012 Aug;40(15):7291-302
22638581
Nat Methods. 2009 Jan;6(1):63-6
19043411
Bioinformatics. 2005 Aug 15;21(16):3439-40
16082012
J Exp Zool B Mol Dev Evol. 2013 Nov;320(7):412-9
25961277
Bioinformatics. 2009 Apr 15;25(8):1091-3
19237447
BMC Genomics. 2011 Apr 21;12:204
21510876
J Clin Invest. 2006 May;116(5):1150-8
16670755
Nucleic Acids Res. 2015 Jan;43(Database issue):D146-52
25378301
Genome Res. 2008 Sep;18(9):1500-8
18687879
Vet Pathol. 2012 Jan;49(1):146-54
22135020
Trends Endocrinol Metab. 2008 Jan;19(1):17-24
18155917
Protein Cell. 2013 Feb;4(2):130-41
23150165
Nat Rev Genet. 2009 Feb;10(2):141-8
19139764
Proc Biol Sci. 2003 Aug 7;270 Suppl 1:S117-9
12952654
Inflamm Res. 2015 Apr;64(3-4):171-83
25596950
Nucleic Acids Res. 2008 Jan;36(Database issue):D149-53
18158296
Nature. 2001 Feb 1;409(6820):614-8
11214319
Am J Hum Genet. 2011 Jun 10;88(6):819-826
21636067
Comput Biol Med. 2014 Feb;45:157-60
24480175
PLoS One. 2013 Dec 12;8(12):e81122
24349037
Arch Virol. 2011 Jul;156(7):1161-71
21442230
Nat Rev Genet. 2009 Aug;10(8):578-85
19609263
Dermatol Online J. 2007 Jul 13;13(3):8
18328202
Methods Enzymol. 2006;411:352-69
16939800
Nature. 2007 Feb 22;445(7130):834-42
17314969
Izv Akad Nauk Ser Biol. 2009 Mar-Apr;(2):218-27
19391480
Mamm Genome. 2015 Aug;26(7-8):272-84
26238262
Nature. 2008 Mar 13;452(7184):225-9
18311128
J Biomed Biotechnol. 2012;2012:679563
23091353
Cell Mol Immunol. 2012 Nov;9(6):497-502
23042536
BMC Bioinformatics. 2008 Dec 29;9:559
19114008
Cell Death Differ. 2010 Feb;17(2):229-35
19609273
Exp Dermatol. 2003 Jun;12(3):233-6
12823435
Acta Physiol (Oxf). 2014 Mar;210(3):498-507
24716231
Curr Opin Cell Biol. 2007 Feb;19(1):13-23
17178453
Biomed Res Int. 2015;2015:309747
26609524
Nucleic Acids Res. 2016 Jan 4;44(D1):D239-47
26590260
Int J Biometeorol. 1991 Nov;35(3):180-6
1778649
PLoS One. 2014 Sep 24;9(9):e108388
25251323
PLoS One. 2012;7(7):e41753
22911852
PLoS Comput Biol. 2006 May;2(5):e48
16733546
J Invest Dermatol. 2010 Sep;130(9):2286-94
20445547
FASEB J. 2010 Oct;24(10):3869-81
20522784