Dynamic changes in transcriptome during orthodontic tooth movement.
RNA sequencing
Transciptome
orthodontic tooth movement
Journal
Orthodontics & craniofacial research
ISSN: 1601-6343
Titre abrégé: Orthod Craniofac Res
Pays: England
ID NLM: 101144387
Informations de publication
Date de publication:
08 Mar 2023
08 Mar 2023
Historique:
revised:
09
02
2023
received:
01
12
2022
accepted:
13
02
2023
pubmed:
10
3
2023
medline:
10
3
2023
entrez:
9
3
2023
Statut:
aheadofprint
Résumé
The objective of this study was to determine global changes in gene expression with next generation sequencing (NGS) in order to assess the biological effects of orthodontic tooth movement (OTM) on alveolar bone in a rat model. Thirty-five Wistar rats (age 14 weeks) were used in the study. The OTM was performed using closed coil Nickel-Titanium spring to apply a mesial force on maxillary first molars of 8-10 g. Three hours, 1, 3, 7 and 14 days after the placement of the appliance, rats were killed at each time point respectively. The alveolar bone, around left maxillary first molar, were excised on compression side. The samples were immediately frozen in liquid nitrogen for subsequent RNA extraction. Total RNA samples were prepared for mRNA sequencing using the Illumina kit. RNA-Seq reads were aligned to the rat genomes using the STAR Aligner and bioinformatic analysis was performed. A total of 18 192 genes were determined. Day 1 has the highest number of differentially expressed genes (DEGs) observed with more upregulated than downregulated genes. A total of 2719 DEGs were identified to use as input for the algorithm. Six distinct clusters of temporal patterns were observed representing proteins that were differentially regulated indicating different expression kinetics. Principal component analysis (PCA) showed distinct clustering by time points and days 3, 7 and 14 share similar gene expression pattern. Distinct gene expression pattern was observed at different time points studied. Hypoxia, inflammation and bone remodelling pathways are major mechanisms behind OTM.
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : American Association of Orthodontic Foundation
Informations de copyright
© 2023 The Authors. Orthodontics & Craniofacial Research published by John Wiley & Sons Ltd.
Références
d’Apuzzo F, Cappabianca S, Ciavarella D, Monsurrò A, Silvestrini-Biavati A, Perillo L. Biomarkers of periodontal tissue remodeling during orthodontic tooth movement in mice and men: overview and clinical relevance. Scientific World Journal 2013;2013:105873, 1, 8.
Masella RS, Meister M. Current concepts in the biology of orthodontic tooth movement. Am J Orthod Dentofacial Orthop. 2006;129(4):458-468.
Kitaura H, Kimura K, Ishida M, Sugisawa H, Kohara H, Yoshimatsu M, Takano-Yamamoto T Effect of cytokines on osteoclast formation and bone resorption during mechanical force loading of the periodontal membrane. ScientificWorldJournal 2014;2014:617032, 1, 7.
Huang H, Williams RC, Kyrkanides S. Accelerated orthodontic tooth movement: molecular mechanisms. Am J Orthod Dentofacial Orthop. 2014;146(5):620-632.
Li Y, Jacox LA, Little SH, Ko C-C. Orthodontic tooth movement: the biology and clinical implications. Kaohsiung J Med Sci. 2018;34(4):207-214.
Asiry MA. Biological aspects of orthodontic tooth movement: a review of literature. Saudi J Biol Sci. 2018;25(6):1027-1032.
Ren Y, Vissink A. Cytokines in crevicular fluid and orthodontic tooth movement. Eur J Oral Sci. 2008;116(2):89-97.
Matsumoto T, Iimura T, Ogura K, Moriyama K, Yamaguchi A. The role of osteocytes in bone resorption during orthodontic tooth movement. J Dent Res. 2013;92(4):340-345.
Shu R, Bai D, Sheu T, et al. Sclerostin promotes bone remodeling in the process of tooth movement. PLoS One. 2017;12(1):e0167312.
Vansant L, Cadenas De Llano-Pérula M, Verdonck A, Willems G. Expression of biological mediators during orthodontic tooth movement: a systematic review. Arch Oral Biol. 2018;95:170-186.
Robinson SW, Fernandes M, Husi H. Current advances in systems and integrative biology. Comput Struct Biotechnol J. 2014;11(18):35-46.
Liao Y, Smyth GK, Shi W. featureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics. 2013;30(7):923-930.
Dobin A, Davis CA, Schlesinger F, et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2012;29(1):15-21.
Love MI, Huber W, Anders S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014;15(12):550.
Olkkonen J, Kouri VP, Kuusela E, et al. DEC2 blocks the effect of the ARNTL2/NPAS2 dimer on the expression of PER3 and DBP. J Circadian Rhythms. 2017;15:6.
Niklas A, Proff P, Gosau M, Römer P. The role of hypoxia in orthodontic tooth movement. Int J Dent. 2013;2013:841840.
Bar-Joseph Z, Gitter A, Simon I. Studying and modelling dynamic biological processes using time-series gene expression data. Nat Rev Genet. 2012;13(8):552-564.
Ullrich N, Schröder A, Jantsch J, Spanier G, Proff P, Kirschneck C. The role of mechanotransduction versus hypoxia during simulated orthodontic compressive strain-an in vitro study of human periodontal ligament fibroblasts. Int J Oral Sci. 2019;11(4):33.
Dandajena TC, Ihnat MA, Disch B, Thorpe J, Currier GF. Hypoxia triggers a HIF-mediated differentiation of peripheral blood mononuclear cells into osteoclasts. Orthod Craniofac Res. 2012;15(1):1-9.
Greer SN, Metcalf JL, Wang Y, Ohh M. The updated biology of hypoxia-inducible factor. EMBO J. 2012;31(11):2448-2460.
Graham AM, Presnell JS. Hypoxia inducible factor (HIF) transcription factor family expansion, diversification, divergence and selection in eukaryotes. PLoS One. 2017;12(6):e0179545.
Lisy K, Peet DJ. Turn me on: regulating HIF transcriptional activity. Cell Death Differ. 2008;15(4):642-649.
Tanaka T, Wiesener M, Bernhardt W, Eckardt K-U, Warnecke C. The human HIF (hypoxia-inducible factor)-3α gene is a HIF-1 target gene and may modulate hypoxic gene induction. Biochem J. 2009;424(1):143-151.
Mahon PC, Hirota K, Semenza GL. FIH-1: a novel protein that interacts with HIF-1alpha and VHL to mediate repression of HIF-1 transcriptional activity. Genes Dev. 2001;15(20):2675-2686.
Choudhry H, Harris AL. Advances in hypoxia-inducible factor biology. Cell Metab. 2018;27(2):281-298.
Knowles HJ. Hypoxic regulation of osteoclast differentiation and bone resorption activity. Hypoxia (Auckl). 2015;3:73-82.
Gazon H, Barbeau B, Mesnard J-M, Peloponese J-M. Hijacking of the AP-1 signaling pathway during development of ATL. Front Microbiol. 2018;8:1-13.
Müller JM, Krauss B, Kaltschmidt C, Baeuerle PA, Rupec RA. Hypoxia induces c-fos transcription via a mitogen-activated protein kinase-dependent pathway. J Biol Chem. 1997;272(37):23435-23439.
Yan SF, Lu J, Zou YS, et al. Hypoxia-associated induction of early growth response-1 gene expression. J Biol Chem. 1999;274(21):15030-15040.
Sampieri L, Di Giusto P, Alvarez C. CREB3 transcription factors: ER-Golgi stress transducers as hubs for cellular homeostasis. Front Cell Develop Biol. 2019;7:123.
Cui M, Kanemoto S, Cui X, et al. OASIS modulates hypoxia pathway activity to regulate bone angiogenesis. Sci Rep. 2015;5(1):16455.
Schafer S, Viswanathan S, Widjaja AA, et al. IL-11 is a crucial determinant of cardiovascular fibrosis. Nature. 2017;552(7683):110-115.
Liau NPD, Laktyushin A, Lucet IS, et al. The molecular basis of JAK/STAT inhibition by SOCS1. Nat Commun. 2018;9(1):1558.
Benbow U, Brinckerhoff CE. The AP-1 site and MMP gene regulation: what is all the fuss about? Matrix Biol. 1997;15(8-9):519-526.
Mak IW, Turcotte RE, Popovic S, Singh G, Ghert M. AP-1 as a regulator of MMP-13 in the stromal cell of Giant cell tumor of bone. Biochem Res Int. 2011;2011:164197.
Hirata M, Kugimiya F, Fukai A, et al. C/EBPβ and RUNX2 cooperate to degrade cartilage with MMP-13 as the target and HIF-2α as the inducer in chondrocytes. Hum Mol Genet. 2012;21(5):1111-1123.
Gaffney J, Solomonov I, Zehorai E, Sagi I. Multilevel regulation of matrix metalloproteinases in tissue homeostasis indicates their molecular specificity in vivo. Matrix Biol. 2015;44-46:191-199.
Cantarella G, Cantarella R, Caltabiano M, Risuglia N, Bernardini R, Leonardi R. Levels of matrix metalloproteinases 1 and 2 in human gingival crevicular fluid during initial tooth movement. Am J Orthod Dentofacial Orthop. 2006;130(5):566-568.
Kouskoura T, Katsaros C, von Gunten S. The potential use of pharmacological agents to modulate orthodontic tooth movement (OTM). Front Physiol. 2017;8:67.
Ono T, Hayashi M, Sasaki F, Nakashima T. RANKL biology: bone metabolism, the immune system, and beyond. Inflammation and Regeneration. 2020;40(1):2.