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Calcified Tissue International

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19.12.2019 | Original Research

Comprehensive Analysis of lncRNA and miRNA Expression Profiles and ceRNA Network Construction in Osteoporosis

verfasst von: Xianzuo Zhang, Haiyi Liang, Nikolaos Kourkoumelis, Zhaodong Wu, Guoyuan Li, Xifu Shang

Erschienen in: Calcified Tissue International | Ausgabe 4/2020

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Abstract

Multiple profiling studies have identified a number of non-coding RNAs associated with the pathogenesis of human diseases. However, the exact regulatory mechanisms and functions of these non-coding RNAs in the development of osteoporosis have not yet been explored. Transcriptome gene expression and miRNA microarray data from peripheral blood monocytes of five high hip bone mineral density (BMD) subjects and five low hip BMD subjects were analyzed. Differentially expressed mRNAs, lncRNAs, and miRNAs were identified and subjected to functional enrichment analysis. Additionally, protein–protein interaction (PPI), lncRNA–mRNA, and mRNA–lncRNA–miRNA competing endogenous RNA (ceRNA) networks were constructed. Differential analysis revealed that 297 mRNAs, 151 lncRNAs, and 38 miRNAs were significantly differentially expressed between peripheral blood monocytes from high and low hip BMD subjects. Key genes including ACLY, HSPA5, and AKT1 were subsequently identified in the PPI network. Additionally, differentially expressed lncRNAs were primarily enriched in the citrate cycle (TCA cycle), biosynthesis of antibiotics, and carbon metabolism pathways. Finally, the mRNA–lncRNA–miRNA network revealed several key ceRNA regulatory relationships among the transcripts and non-coding RNAs. Key mRNAs and non-coding RNAs identified in the networks represent potential biomarkers or targets in the diagnosis and management of osteoporosis. Our findings represent a resource for further functional research on the ceRNA regulation mechanism of non-coding RNA in osteoporosis.

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Lane NE (2006) Epidemiology, etiology, and diagnosis of osteoporosis. Am J Obstet Gynecol 194:S3–11CrossRefPubMed

Ensrud KE, Crandall CJ (2017) Osteoporosis. Ann Intern Med 167:Itc17-itc32

Bijelic R, Milicevic S, Balaban J (2017) Risk factors for osteoporosis in postmenopausal women. Med Arch (Sarajevo, Bosnia and Herzegovina) 71:25–28

You L, Pan L, Chen L, Gu W, Chen J (2016) MiR-27a is essential for the shift from osteogenic differentiation to adipogenic differentiation of mesenchymal stem cells in postmenopausal osteoporosis. Cell Physiol Biochem 39:253–265CrossRefPubMed

McCormick RK (2007) Osteoporosis: integrating biomarkers and other diagnostic correlates into the management of bone fragility. Altern Med Rev 12:113–145PubMed

Eastell R, Szulc P (2017) Use of bone turnover markers in postmenopausal osteoporosis. Lancet Diabetes Endocrinol 5:908–923CrossRefPubMed

Szulc P, Naylor K, Hoyle NR, Eastell R, Leary ET (2017) Use of CTX-I and PINP as bone turnover markers: National Bone Health Alliance recommendations to standardize sample handling and patient preparation to reduce pre-analytical variability. Osteopor Int 28:2541–2556CrossRef

Dou C, Cao Z, Yang B et al (2016) Changing expression profiles of lncRNAs, mRNAs, circRNAs and miRNAs during osteoclastogenesis. Sci Rep 6:21499CrossRefPubMedPubMedCentral

Takao N, Tetsuro H (2013) Paraspeckle formation during the biogenesis of long non-coding RNAs. RNA Biol 10:456–461CrossRef

10.

Mei B, Wang Y, Ye W, Huang H, Zhou Q, Chen Y, Niu Y, Zhang M, Huang Q (2019) LncRNA ZBTB40-IT1 modulated by osteoporosis GWAS risk SNPs suppresses osteogenesis. Hum Genet 138(2):151–166CrossRefPubMed

11.

Li W, Zhu H, Xu H, Zhang B, Huang S (2018) CRNDE impacts the proliferation of osteoclast by estrogen deficiency in postmenopausal osteoporosis. Eur Rev Med Pharmacol Sci 22:5815–5821PubMed

12.

Guan B-G, Cai X-X (2019) Abnormal sub-pathways competitively regulated by lncRNAs contribute to postmenopausal osteoporosis. Exp Ther Med 17:2894–2900PubMedPubMedCentral

13.

Jing Q, Huang S, Guth S, Zarubin T, Motoyama A, Chen J, Di Padova F, Lin SC, Gram H, Han J (2005) Involvement of microRNA in AU-rich element-mediated mRNA stability. Cell 120:623–634CrossRefPubMed

14.

Cui Q, Xing J, Yu M, Wang Y, Xu J, Gu Y, Nan X, Ma W, Liu H, Zhao H (2019) Mmu-miR-185 depletion promotes osteogenic differentiation and suppresses bone loss in osteoporosis through the Bgn-mediated BMP/Smad pathway. Cell Death Dis 10:172CrossRefPubMedPubMedCentral

15.

Lu X-D, Han W-X, Liu Y-X (2019) Suppression of miR-451a accelerates osteogenic differentiation and inhibits bone loss via Bmp6 signaling during osteoporosis. Biomed Pharmacother 120:109378CrossRefPubMed

16.

Gu H, Wu L, Chen H, Huang Z, Xu J, Zhou K, Zhang Y, Chen J, Xia J, Yin X (2019) Identification of differentially expressed microRNAs in the bone marrow of osteoporosis patients. Am J Transl Res 11:2940PubMedPubMedCentral

17.

Shao M (2017) Construction of an miRNA-regulated pathway network reveals candidate biomarkers for postmenopausal osteoporosis. Comput Math Methods Med 2017:9426280CrossRefPubMedPubMedCentral

18.

Wang J-D, Zhou H-S, Tu X-X, He Y, Liu Q-F, Liu Q, Long Z-J (2019) Prediction of competing endogenous RNA coexpression network as prognostic markers in AML. Aging (Albany, NY) 11:3333CrossRef

19.

Wang C-G, Liao Z, Xiao H, Liu H, Hu Y-H, Liao Q-D, Zhong D (2019) LncRNA KCNQ1OT1 promoted BMP2 expression to regulate osteogenic differentiation by sponging miRNA-214. Exp Mol Pathol 107:77–84CrossRefPubMed

20.

Yang L, Li Y, Gong R, Gao M, Feng C, Liu T, Sun Y, Jin M, Wang D, Yuan Y (2019) The long non-coding RNA-ORLNC1 regulates bone mass by directing mesenchymal stem cell fate. Mol Ther 27:394–410CrossRefPubMed

21.

Zhang JG, Tan LJ, Xu C, He H, Tian Q, Zhou Y, Qiu C, Chen XD, Deng HW (2015) Integrative analysis of transcriptomic and epigenomic data to reveal regulation patterns for BMD variation. PLoS ONE 10:e0138524CrossRefPubMedPubMedCentral

22.

Wright GW, Simon RM (2003) A random variance model for detection of differential gene expression in small microarray experiments. Bioinformatics 19:2448–2455CrossRefPubMed

23.

Yang H, Crawford N, Lukes L, Finney R, Lancaster M, Hunter KW (2005) Metastasis predictive signature profiles pre-exist in normal tissues. Clin Exp Metastasis 22:593–603CrossRefPubMed

24.

Misha K, Patrick K, Culhane AC, Steffen D, Jan I, Christine KR, Meelis K, Aurora T, Ugis S, Jaak V (2004) Expression Profiler: next generation—an online platform for analysis of microarray data. Nucleic Acids Res 32:465–470CrossRef

25.

Gene Ontology C (2006) The Gene Ontology (GO) project in 2006. Nucleic Acids Res 34:D322–326CrossRef

26.

Kanehisa M, Goto S, Kawashima S, Okuno Y, Hattori M (2004) The KEGG resource for deciphering the genome. Nucleic Acids Res 32:D277–280CrossRefPubMedPubMedCentral

27.

Simson L, Mcalpine CH (1998) Awareness of osteoporosis risk factors and use of treatment. Age Ageing 27:17–17CrossRef

28.

Liu HY, Wu AT, Tsai CY, Chou KR, Zeng R, Wang MF, Chang WC, Hwang SM, Su CH, Deng WP (2011) The balance between adipogenesis and osteogenesis in bone regeneration by platelet-rich plasma for age-related osteoporosis. Biomaterials 32:6773–6780CrossRefPubMed

29.

Lau EMC, Suriwongpaisal P, Lee JK, De SD, Festin MR, Saw SM, Khir A, Torralba T, Sham A, Sambrook P (2010) Risk factors for hip fracture in Asian men and women: The Asian Osteoporosis Study. J Bone Miner Res 16:572–580CrossRef

30.

Zhou Y, Xu C, Zhu W, He H, Zhang L, Tang B, Zeng Y, Tian Q, Deng HW (2019) Long noncoding RNA analyses for osteoporosis risk in Caucasian women. Calcif Tissue Int 105:183–192CrossRefPubMedPubMedCentral

31.

Bidwell JP, Alvarez MB, Hood M, Childress P (2013) Functional impairment of bone formation in the pathogenesis of osteoporosis: the bone marrow regenerative competence. Curr Osteoporos Rep 11:117–125CrossRefPubMed

32.

Li C, Xiao Y, Yang M, Su T, Sun X, Guo Q, Huang Y, Luo XH (2018) Long noncoding RNA Bmncr regulates mesenchymal stem cell fate during skeletal aging. J Clin Investig 128:5251–5266CrossRefPubMedPubMedCentral

33.

Liang WC, Fu WM, Wang YB, Sun YX, Xu LL, Wong CW, Chan KM, Li G, Waye MY, Zhang JF (2016) H19 activates Wnt signaling and promotes osteoblast differentiation by functioning as a competing endogenous RNA. Sci Rep 6:20121CrossRefPubMedPubMedCentral

34.

Li B, Zhao J, Ma JX, Li GM, Zhang Y, Xing GS, Liu J, Ma XL (2018) Overexpression of DNMT1 leads to hypermethylation of H19 promoter and inhibition of Erk signaling pathway in disuse osteoporosis. Bone 111:82–91CrossRefPubMed

35.

Wang Y, Luo TB, Liu L, Cui ZQ (2018) LncRNA LINC00311 promotes the proliferation and differentiation of osteoclasts in osteoporotic rats through the notch signaling pathway by targeting DLL3. Cell Physiol Biochem 47:2291CrossRefPubMed

36.

Bazilevsky GA, Affronti HC, Wei X, Campbell SL, Wellen KE, Marmorstein R (2019) ATP-citrate lyase multimerization is required for coenzyme-A substrate binding and catalysis. J Biol Chem 294:7259–7268CrossRefPubMedPubMedCentral

37.

Teng L, Chen Y, Cao Y, Wang W, Xu Y, Wang Y, Lv J, Li C, Su Y (2018) Overexpression of ATP citrate lyase in renal cell carcinoma tissues and its effect on the human renal carcinoma cellsin vitro. Oncol Lett 15:6967–6974PubMedPubMedCentral

38.

Nicodemus KK, Folsom AR (2001) Type 1 and Type 2 diabetes and incident hip fractures in postmenopausal women. Diabetes Care 24:1192–1197CrossRefPubMed

39.

Petit MA, Paudel ML, Taylor BC, Hughes JM, Strotmeyer ES, Schwartz AV, Cauley JA, Zmuda JM, Hoffman AR, Ensrud KE (2010) Bone mass and strength in older men with type 2 diabetes: the osteoporotic fractures in Men Study. J Bone Miner Res 25:285–291CrossRefPubMed

40.

Wongdee K, Charoenphandhu N (2011) Osteoporosis in diabetes mellitus: possible cellular and molecular mechanisms. World J Diabetes 2:41–48CrossRefPubMedPubMedCentral

41.

Shi W, Xu G, Wang C, Sperber SM, Chen Y, Zhou Q, Deng Y, Zhao H (2015) Heat shock 70-kDa protein 5 (Hspa5) is essential for pronephros formation by mediating retinoic acid signaling. J Biol Chem 290:577–589CrossRefPubMed

42.

Guzel E, Basar M, Ocak N, Arici A, Kayisli UA (2011) Bidirectional interaction between unfolded-protein-response key protein HSPA5 and estrogen signaling in human endometrium. Biol Reprod 85:121–127CrossRefPubMed

43.

Chang YW, Tseng CF, Wang MY, Chang WC, Lee CC, Chen LT, Hung MC, Su JL (2016) Deacetylation of HSPA5 by HDAC6 leads to GP78-mediated HSPA5 ubiquitination at K447 and suppresses metastasis of breast cancer. Oncogene 35:1517–1528CrossRefPubMed

44.

Chen H, Xing J, Hu X, Chen L, Lv H, Xu C, Hong D, Wu X (2017) Inhibition of heat shock protein 90 rescues glucocorticoid-induced bone loss through enhancing bone formation. J Steroid Biochem Mol Biol 171:236CrossRefPubMed

45.

Daswani B, Gavali S, Desai M, Patil A, Khatkhatay M (2016) Serum levels of phosphorylated heat shock protein 27 (pHSP27) are associated with bone mineral density in pre- & postmenopausal women: a pilot study. Indian J Med Res 143:288–296CrossRefPubMedPubMedCentral

46.

Rong PZ, Si JL, Wen BW, Hui LZ, Yao FF, Hui BR, Jin X, Wei S, Yi CZ, Shi YW (2016) Chlorogenic acid prevents osteoporosis by Shp2/PI3K/Akt pathway in ovariectomized rats. PLoS ONE 11:e0166751CrossRef

47.

Mcmanus S, Bisson M, Chamberland R, Roy M, Nazari S, Roux S (2016) Autophagy and 3-phosphoinositide-dependent kinase 1 (PDK1)-related kinome in pagetic osteoclasts. J Bone Miner Res 31:1334–1343CrossRefPubMed

48.

Kawamura N, Kugimiya F, Oshima Y, Ohba S, Ikeda T, Saito T, Shinoda Y, Kawasaki Y, Ogata N, Hoshi K (2007) Akt1 in osteoblasts and osteoclasts controls bone remodeling. PLoS ONE 2(10):e1058CrossRefPubMedPubMedCentral

49.

Aditi M, Wilson EM, Peter R (2010) Selective signaling by Akt2 promotes bone morphogenetic protein 2-mediated osteoblast differentiation. Mol Cell Biol 30:1018–1027CrossRef

Titel: Comprehensive Analysis of lncRNA and miRNA Expression Profiles and ceRNA Network Construction in Osteoporosis
verfasst von: Xianzuo Zhang
Haiyi Liang
Nikolaos Kourkoumelis
Zhaodong Wu
Guoyuan Li
Xifu Shang
Publikationsdatum: 19.12.2019
Verlag: Springer US
Erschienen in: Calcified Tissue International / Ausgabe 4/2020
Print ISSN: 0171-967X
Elektronische ISSN: 1432-0827
DOI: https://doi.org/10.1007/s00223-019-00643-9

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Comprehensive Analysis of lncRNA and miRNA Expression Profiles and ceRNA Network Construction in Osteoporosis

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