Dissecting the Effect of a 3D Microscaffold on the Transcriptome of Neural Stem Cells with Computational Approaches: A Focus on Mechanotransduction.
Animals
Cell Culture Techniques
Cells, Cultured
Cytoskeleton
/ genetics
Gene Expression
/ genetics
Mechanotransduction, Cellular
/ genetics
Mice
Mice, Inbred C57BL
Neural Stem Cells
/ metabolism
Regenerative Medicine
/ methods
Signal Transduction
/ genetics
Stem Cell Niche
/ genetics
Tissue Scaffolds
/ chemistry
Transcriptome
/ genetics
RNA-Seq
computational genomics
mechanobiology
mechanotransduction
neural stem cells
niche
regenerative medicine
scaffolds
signal transduction
Journal
International journal of molecular sciences
ISSN: 1422-0067
Titre abrégé: Int J Mol Sci
Pays: Switzerland
ID NLM: 101092791
Informations de publication
Date de publication:
15 Sep 2020
15 Sep 2020
Historique:
received:
30
07
2020
revised:
05
09
2020
accepted:
14
09
2020
entrez:
18
9
2020
pubmed:
19
9
2020
medline:
25
2
2021
Statut:
epublish
Résumé
3D cell cultures are becoming more and more important in the field of regenerative medicine due to their ability to mimic the cellular physiological microenvironment. Among the different types of 3D scaffolds, we focus on the Nichoid, a miniaturized scaffold with a structure inspired by the natural staminal niche. The Nichoid can activate cellular responses simply by subjecting the cells to mechanical stimuli. This kind of influence results in different cellular morphology and organization, but the molecular bases of these changes remain largely unknown. Through RNA-Seq approach on murine neural precursors stem cells expanded inside the Nichoid, we investigated the deregulated genes and pathways showing that the Nichoid causes alteration in genes strongly connected to mechanobiological functions. Moreover, we fully dissected this mechanism highlighting how the changes start at a membrane level, with subsequent alterations in the cytoskeleton, signaling pathways, and metabolism, all leading to a final alteration in gene expression. The results shown here demonstrate that the Nichoid influences the biological and genetic response of stem cells thorough specific alterations of cellular signaling. The characterization of these pathways elucidates the role of mechanical manipulation on stem cells, with possible implications in regenerative medicine applications.
Identifiants
pubmed: 32942778
pii: ijms21186775
doi: 10.3390/ijms21186775
pmc: PMC7555048
pii:
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Références
Nat Commun. 2017 Oct 12;8(1):896
pubmed: 29026081
Nat Rev Mol Cell Biol. 2009 Jan;10(1):21-33
pubmed: 19197329
Biomed Eng Online. 2010 Nov 11;9:70
pubmed: 21070668
PLoS One. 2013 Oct 18;8(10):e76854
pubmed: 24204686
Int J Mol Sci. 2020 May 04;21(9):
pubmed: 32375302
Bioengineering (Basel). 2017 Aug 24;4(3):
pubmed: 28952551
Acc Chem Res. 2010 Mar 16;43(3):419-28
pubmed: 20043634
Curr Opin Cell Biol. 2008 Oct;20(5):551-6
pubmed: 18583124
Nat Rev Mol Cell Biol. 2017 Dec;18(12):717-727
pubmed: 29044247
J Appl Biomater Funct Mater. 2012 Jun 26;10(1):55-65
pubmed: 22562455
Sci Rep. 2018 Feb 5;8(1):2378
pubmed: 29402919
J Cell Biol. 2017 Feb;216(2):305-315
pubmed: 28043971
Am J Cancer Res. 2012;2(5):478-91
pubmed: 22957302
Restor Neurol Neurosci. 2017;35(6):583-599
pubmed: 29172009
Cell Metab. 2014 Dec 2;20(6):939-52
pubmed: 25448702
Biophys J. 2012 Dec 19;103(12):2423-31
pubmed: 23260044
Cell Transplant. 2015;24(4):703-19
pubmed: 25299753
Cell. 2010 Aug 6;142(3):409-19
pubmed: 20673990
BMC Bioinformatics. 2013 Apr 15;14:128
pubmed: 23586463
Cell Stem Cell. 2020 Feb 6;26(2):277-293.e8
pubmed: 32032526
Curr Opin Cell Biol. 2018 Oct;54:114-120
pubmed: 29902730
ScientificWorldJournal. 2006 Aug 11;6:946-66
pubmed: 16906327
J Neuroinflammation. 2018 Nov 30;15(1):333
pubmed: 30501635
Curr Opin Hematol. 2017 May;24(3):248-255
pubmed: 28178039
Biomaterials. 2006 Dec;27(36):5978-89
pubmed: 16824594
NPJ Regen Med. 2019 Jun 27;4:15
pubmed: 31263573
Nat Rev Neurosci. 2019 Jul;20(7):380-396
pubmed: 31000796
PLoS One. 2012;7(9):e43291
pubmed: 23028449
Mol Cell Neurosci. 2017 Jun;81:49-63
pubmed: 27871938
Nucleus. 2014 Sep-Oct;5(5):427-40
pubmed: 25482195
Nat Rev Mol Cell Biol. 2014 Dec;15(12):802-12
pubmed: 25355505
J Biomech. 2015 Dec 16;48(16):4253-61
pubmed: 26573901
Curr Genomics. 2013 Mar;14(1):49-55
pubmed: 23997650
Genes Dev. 2006 Feb 1;20(3):307-20
pubmed: 16452503
Nat Cell Biol. 2019 Mar;21(3):338-347
pubmed: 30718857
Genome Biol. 2013;14(9):R104
pubmed: 24070194
J Appl Physiol (1985). 2019 Aug 1;127(2):608-618
pubmed: 31295035
J Vis Exp. 2014 Dec 17;(94):
pubmed: 25548937
Philos Trans R Soc Lond B Biol Sci. 2019 Aug 19;374(1779):20180229
pubmed: 31431179
Sci Rep. 2019 Aug 13;9(1):11761
pubmed: 31409835
Cell Stem Cell. 2009 Jul 2;5(1):17-26
pubmed: 19570510
Nat Commun. 2018 Nov 19;9(1):4862
pubmed: 30451822
Cancers (Basel). 2019 Mar 08;11(3):
pubmed: 30857153
Curr Opin Cell Biol. 2001 Oct;13(5):541-5
pubmed: 11544021
Cell Biol Int Rep. 1991 Nov;15(11):1151-66
pubmed: 1838307
Nucleic Acids Res. 2019 Dec 16;47(22):11709-11728
pubmed: 31647095
BMC Bioinformatics. 2015;16 Suppl 9:S2
pubmed: 26050971
Stem Cell Res Ther. 2016 Sep 09;7(1):132
pubmed: 27613598
Cell Signal. 2012 Nov;24(11):1999-2006
pubmed: 22781750
Organogenesis. 2008 Apr;4(2):68-75
pubmed: 19279717
Biochem Biophys Res Commun. 2004 Apr 9;316(3):618-27
pubmed: 15033445
Bioinformatics. 2013 Apr 15;29(8):1035-43
pubmed: 23428641
Biochim Biophys Acta. 2014 Feb;1838(2):532-45
pubmed: 23899502
Nucleus. 2015;6(1):19-22
pubmed: 25738642
Nat Rev Mol Cell Biol. 2009 Jan;10(1):75-82
pubmed: 19197334
BMC Bioinformatics. 2011 Aug 04;12:323
pubmed: 21816040
Dis Model Mech. 2017 May 1;10(5):509-518
pubmed: 28468937
Science. 2016 Apr 15;352(6283):aaf1015
pubmed: 27081075
Cell Tissue Res. 2018 Jan;371(1):55-71
pubmed: 29079882
Nat Cell Biol. 2001 Jan;3(1):E7-9
pubmed: 11146637
J Cell Biol. 2016 Nov 21;215(4):445-456
pubmed: 27872252
Circ Res. 2008 Jun 6;102(11):1307-18
pubmed: 18535268
J Biomed Biotechnol. 2012;2012:797410
pubmed: 23091358
Matrix Biol. 2016 May-Jul;52-54:413-425
pubmed: 26877077
Int J Mol Sci. 2017 Jan 18;18(1):
pubmed: 28106780
Arch Biochem Biophys. 2008 Jun 1;474(1):102-8
pubmed: 18375197
Cell Adh Migr. 2017 Sep 3;11(5-6):524-531
pubmed: 28135886
Cell Transplant. 2019 Mar;28(3):269-285
pubmed: 30574805
Blood. 2019 Oct 17;134(16):1279-1288
pubmed: 31471375
J Clin Neurol. 2015 Jul;11(3):212-9
pubmed: 26174783
Cold Spring Harb Perspect Biol. 2012 Nov 01;4(11):
pubmed: 23125017
J Cell Sci. 2016 Mar 15;129(6):1093-100
pubmed: 26919980
Cell Adh Migr. 2013 May-Jun;7(3):325-32
pubmed: 23722246
Biophys Rev. 2019 Oct;11(5):817-831
pubmed: 31628607
Int J Ophthalmol. 2017 Apr 18;10(4):507-514
pubmed: 28503420
Angew Chem Int Ed Engl. 2007;46(33):6238-58
pubmed: 17654468
Nat Cell Biol. 2017 Jun;19(6):724-731
pubmed: 28553939
Trends Cell Biol. 2015 Sep;25(9):523-32
pubmed: 26045259
Biomaterials. 2011 Dec;32(35):9188-96
pubmed: 21890197
Nucleic Acids Res. 2016 Jul 8;44(W1):W90-7
pubmed: 27141961
Int J Biochem Cell Biol. 2012 May;44(5):728-32
pubmed: 22387568
Neurobiol Dis. 2011 Jul;43(1):86-98
pubmed: 21324364
RNA Biol. 2019 Oct;16(10):1471-1485
pubmed: 31345103
J Neurosci. 2002 Jan 15;22(2):437-45
pubmed: 11784788
Cell. 2018 Jun 28;174(1):156-171.e16
pubmed: 29909984
Integr Biol (Camb). 2012 Sep;4(9):1008-18
pubmed: 23077731
Philos Trans R Soc Lond B Biol Sci. 2006 Sep 29;361(1473):1545-64
pubmed: 16939974
Stem Cells. 2018 Jul;36(7):1097-1108
pubmed: 29575305
Front Immunol. 2018 May 23;9:1127
pubmed: 29875775
Cell Stem Cell. 2015 Jan 8;16(1):88-101
pubmed: 25575081
Sci STKE. 2002 Feb 12;2002(119):pe6
pubmed: 11842240
Autoimmun Rev. 2011 Jan;10(3):175-9
pubmed: 20923710
Nat Commun. 2019 Oct 11;10(1):4620
pubmed: 31604958
Acta Biomater. 2013 Jan;9(1):4579-84
pubmed: 22922332
Matrix Biol. 2015 Sep;47:54-65
pubmed: 25960420
Cells. 2020 Jul 07;9(7):
pubmed: 32646008
Blood Cancer J. 2018 Feb 13;8(2):20
pubmed: 29440639
Biochim Biophys Acta. 2007 Aug;1773(8):1213-26
pubmed: 17112607
Sci Rep. 2019 May 2;9(1):6822
pubmed: 31048708
Cell Mol Life Sci. 2018 Jun;75(12):2177-2195
pubmed: 29541793
J Cell Biol. 2016 Dec 19;215(6):801-821
pubmed: 27956467
Biochem Soc Trans. 2011 Dec;39(6):1606-11
pubmed: 22103495
J Phys D Appl Phys. 2017 Jun 14;50(23):
pubmed: 29097823
Neuropharmacology. 2017 Jun;119:76-90
pubmed: 28373075
Cell. 2012 Mar 16;148(6):1132-44
pubmed: 22424225
Materials (Basel). 2017 Jan 13;10(1):
pubmed: 28772424
Nucleus. 2018 Jan 1;9(1):202-211
pubmed: 29431587
PLoS Biol. 2014 Nov 18;12(11):e1001996
pubmed: 25405923
ASN Neuro. 2016 Oct 27;8(5):
pubmed: 27789613
Sci Rep. 2018 Jul 11;8(1):10457
pubmed: 29993043
Nat Clin Pract Rheumatol. 2006 Nov;2(11):619-26
pubmed: 17075601