دورية أكاديمية
أعرض في EDS

Gene Expression in Synovium of Rotator Cuff Tear Patients Determined by RNA Sequencing.

التفاصيل البيبلوغرافية
العنوان: Gene Expression in Synovium of Rotator Cuff Tear Patients Determined by RNA Sequencing.
المؤلفون: Qian H; Department of Orthopedics, Jinling Hospital, The First School of Clinical Medicine, Southern Medical University, #305, East Zhongshan Road, Nanjing, 210002, China., Meng J; Department of Orthopedics, Jinling Hospital, The First School of Clinical Medicine, Southern Medical University, #305, East Zhongshan Road, Nanjing, 210002, China., Yuan T; Department of Orthopedics, Jinling Hospital, The First School of Clinical Medicine, Southern Medical University, #305, East Zhongshan Road, Nanjing, 210002, China., Jiang H; Department of Orthopedics, Jinling Hospital, The First School of Clinical Medicine, Southern Medical University, #305, East Zhongshan Road, Nanjing, 210002, China., Zhou L; Department of Orthopedics, Jinling Hospital, The First School of Clinical Medicine, Southern Medical University, #305, East Zhongshan Road, Nanjing, 210002, China., Zhang L; Department of Orthopedics, Jinling Hospital, The First School of Clinical Medicine, Southern Medical University, #305, East Zhongshan Road, Nanjing, 210002, China. leizhang1987md@163.com., Zhao J; Department of Orthopedics, Jinling Hospital, The First School of Clinical Medicine, Southern Medical University, #305, East Zhongshan Road, Nanjing, 210002, China. zhaojianning.0207@163.com., Bao N; Department of Orthopedics, Jinling Hospital, The First School of Clinical Medicine, Southern Medical University, #305, East Zhongshan Road, Nanjing, 210002, China. bnrbnr@sina.com.
المصدر: Biochemical genetics [Biochem Genet] 2024 Feb; Vol. 62 (1), pp. 452-467. Date of Electronic Publication: 2023 Jun 28.
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: Kluwer Academic/Plenum Publishers Country of Publication: United States NLM ID: 0126611 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1573-4927 (Electronic) Linking ISSN: 00062928 NLM ISO Abbreviation: Biochem Genet Subsets: MEDLINE
أسماء مطبوعة: Publication: 1999- : New York : Kluwer Academic/Plenum Publishers
Original Publication: New York, Plenum Press.
مواضيع طبية MeSH: Rotator Cuff Injuries*/genetics , Rotator Cuff Injuries*/surgery , RNA, Long Noncoding*/genetics , RNA, Long Noncoding*/metabolism , MicroRNAs*/genetics, Humans ; Gene Regulatory Networks ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; Sequence Analysis, RNA ; Receptors, Interleukin-21/genetics ; Gene Expression ; Fatty Acids
مستخلص: Rotator cuff tear (RCT) is a common shoulder disorder related to pain and dysfunction. However, the pathological mechanism of RCT remains unclear. Thus, this study aims to investigate the molecular events in RCT synovium and identify possible target genes and pathways as determined by RNA sequencing (RNA-Seq). The synovial tissue was biopsied from 3 patients with RCT (RCT group) and 3 patients with shoulder instability (Control group) during arthroscopic surgery. Then, differentially expressed (DE) mRNAs, long non-coding RNAs (lncRNAs) and micro RNAs (miRNAs) were comprehensively profiled by RNA-Seq. Gene ontology (GO) enrichment, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway, and competing endogenous RNA (ceRNA) network analysis were performed to identify the potential functions of these DE genes. 447 mRNAs, 103 lncRNAs and 15 miRNAs were identified differentially expressed. The DE mRNAs were highlighted in inflammatory pathway including up-regulated T cell costimulation, positive regulation of T cell activation, and T cell receptor signaling. Down-regulated fatty acid degradation pathway and 5'-AMP-activated protein kinase (AMPK) signaling in RCT group are also enriched. Validation assay showed that the expression of pro-inflammatory molecules including IL21R, CCR5, TNFSF11, and MMP11 was significantly increased in RCT group compared with Control group. CeRNA analysis further revealed lncRNA-miRNA-mRNA regulatory networks involving IL21R and TNFSF11 in RCT. Activated synovial inflammation is the remarkable event of RCT. Importantly, increased T cell activation and disordered fatty acid metabolism signaling might play a significant role. ceRNA networks involving IL21R and TNFSF11 identified could potentially control the progression of RCT. In conclusion, our findings could provide new evidence for the molecular mechanisms of RCT and might identify new therapeutic targets.
(© 2023. The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature.)
References: Abrams GD, Luria A, Carr RA, Rhodes C, Robinson WH, Sokolove J (2016) Association of synovial inflammation and inflammatory mediators with glenohumeral rotator cuff pathology. J Shoulder Elbow Surg 25:989–997. (PMID: 10.1016/j.jse.2015.10.01126775747)
Anders S, Pyl PT, Huber W (2015) HTSeq—a Python framework to work with high-throughput sequencing data. Bioinformatics 31:166–169. (PMID: 10.1093/bioinformatics/btu63825260700)
Cofield RH (1985) Rotator cuff disease of the shoulder. J Bone Joint Surg Am 67:974–979. (PMID: 10.2106/00004623-198567060-000244019548)
Cofield RH, Parvizi J, Hoffmeyer PJ, Lanzer WL, Ilstrup DM, Rowland CM (2001) Surgical repair of chronic rotator cuff tears. A prospective long-term study. J Bone Joint Surg Am 83:71–77. (PMID: 10.2106/00004623-200101000-0001011205861)
Corcoran SE, O’Neill LA (2016) HIF1α and metabolic reprogramming in inflammation. J Clin Invest 126:3699–3707. (PMID: 10.1172/JCI84431275714075096812)
Cordasco FA, Backer M, Craig EV, Klein D, Warren RF (2002) The partial-thickness rotator cuff tear: is acromioplasty without repair sufficient? Am J Sports Med 30:257–260. (PMID: 10.1177/0363546502030002180111912097)
Gumucio J, Flood M, Harning J, Phan A, Roche S, Lynch E, Bedi A, Mendias C (2014) T lymphocytes are not required for the development of fatty degeneration after rotator cuff tear. Bone Joint Res 3:262–272. (PMID: 10.1302/2046-3758.39.2000294251854444220170)
Hermans J, Luime JJ, Meuffels DE, Reijman M, Simel DL, Bierma-Zeinstra SM (2013) Does this patient with shoulder pain have rotator cuff disease? The Rational Clinical Examination systematic review. JAMA 310:837–847. (PMID: 10.1001/jama.2013.27618723982370)
Kim D, Langmead B, Salzberg SL (2015) HISAT: a fast spliced aligner with low memory requirements. Nat Methods 12:357–360. (PMID: 10.1038/nmeth.3317257511424655817)
Li H, Malhotra S, Kumar A (2008) Nuclear factor-kappa B signaling in skeletal muscle atrophy. J Mol Med (berl) 86:1113–1126. (PMID: 10.1007/s00109-008-0373-818574572)
Liu K, Yan Z, Li Y, Sun Z (2013) Linc2GO: a human LincRNA function annotation resource based on ceRNA hypothesis. Bioinformatics 29:2221–2222. (PMID: 10.1093/bioinformatics/btt36123793747)
Ma J, Piuzzi NS, Muschler GF, Iannotti JP, Ricchetti ET, Derwin KA (2018) Biomarkers of rotator cuff disease severity and repair healing. JBJS Rev 6:e9. (PMID: 10.2106/JBJS.RVW.17.0017830252720)
Maglaviceanu A, Wu B, Kapoor M (2021) Fibroblast-like synoviocytes: Role in synovial fibrosis associated with osteoarthritis. Wound Repair Regen 29:642–649. (PMID: 10.1111/wrr.1293934021514)
Millar NL, Hueber AJ, Reilly JH, Xu Y, Fazzi UG, Murrell GA, McInnes IB (2010) Inflammation is present in early human tendinopathy. Am J Sports Med 38:2085–2091. (PMID: 10.1177/036354651037261320595553)
Nagase H, Woessner JF Jr (1999) Matrix metalloproteinases. J Biol Chem 274:21491–21494. (PMID: 10.1074/jbc.274.31.2149110419448)
Nakayama Y, Fujiu K, Yuki R, Oishi Y, Morioka MS, Isagawa T, Matsuda J, Oshima T, Matsubara T, Sugita J et al (2020) A long noncoding RNA regulates inflammation resolution by mouse macrophages through fatty acid oxidation activation. Proc Natl Acad Sci U S A 117:14365–14375. (PMID: 10.1073/pnas.2005924117325136907322040)
Pertea M, Pertea GM, Antonescu CM, Chang TC, Mendell JT, Salzberg SL (2015) StringTie enables improved reconstruction of a transcriptome from RNA-seq reads. Nat Biotechnol 33:290–295. (PMID: 10.1038/nbt.3122256908504643835)
Procaccini C, Galgani M, De Rosa V, Matarese G (2012) Intracellular metabolic pathways control immune tolerance. Trends Immunol 33:1–7. (PMID: 10.1016/j.it.2011.09.00222075206)
Ren HM, Lukacher AE, Rahman ZSM, Olsen NJ (2021) New developments implicating IL-21 in autoimmune disease. J Autoimmun 122:102689. (PMID: 10.1016/j.jaut.2021.102689342249368293794)
Seo IH, Eun HS, Kim JK, Lee H, Jeong S, Choi SJ, Lee J, Lee BS, Kim SH, Rou WS et al (2021) IL-15 enhances CCR5-mediated migration of memory CD8(+) T cells by upregulating CCR5 expression in the absence of TCR stimulation. Cell Rep 36:109438. (PMID: 10.1016/j.celrep.2021.10943834320338)
Shimano H, Sato R (2017) SREBP-regulated lipid metabolism: convergent physiology - divergent pathophysiology. Nat Rev Endocrinol 13:710–730. (PMID: 10.1038/nrendo.2017.9128849786)
Shindle MK, Chen CC, Robertson C, DiTullio AE, Paulus MC, Clinton CM, Cordasco FA, Rodeo SA, Warren RF (2011) Full-thickness supraspinatus tears are associated with more synovial inflammation and tissue degeneration than partial-thickness tears. J Shoulder Elbow Surg 20:917–927. (PMID: 10.1016/j.jse.2011.02.015216129443156316)
Sishi BJ, Engelbrecht AM (2011) Tumor necrosis factor alpha (TNF-α) inactivates the PI3-kinase/PKB pathway and induces atrophy and apoptosis in L6 myotubes. Cytokine 54:173–184. (PMID: 10.1016/j.cyto.2011.01.00921300557)
Steinberg GR, Schertzer JD (2014) AMPK promotes macrophage fatty acid oxidative metabolism to mitigate inflammation: implications for diabetes and cardiovascular disease. Immunol Cell Biol 92:340–345. (PMID: 10.1038/icb.2014.1124638063)
Tay Y, Kats L, Salmena L, Weiss D, Tan SM, Ala U, Karreth F, Poliseno L, Provero P, Di Cunto F et al (2011) Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs. Cell 147:344–357. (PMID: 10.1016/j.cell.2011.09.029220000133235920)
Tsuzaki M, Guyton G, Garrett W, Archambault JM, Herzog W, Almekinders L, Bynum D, Yang X, Banes AJ (2003) IL-1 beta induces COX2, MMP-1, -3 and -13, ADAMTS-4, IL-1 beta and IL-6 in human tendon cells. J Orthop Res 21:256–264. (PMID: 10.1016/S0736-0266(02)00141-912568957)
Vasquez-Bolanos LS, Gibbons MC, Ruoss S, Wu IT, Vargas-Vila M, Hyman SA, Esparza MC, Fithian DC, Lane JG, Singh A et al (2021) Transcriptional time course after rotator cuff tear. Front Physiol 12:707116. (PMID: 10.3389/fphys.2021.707116344216468378535)
Xing L, Schwarz EM, Boyce BF (2005) Osteoclast precursors, RANKL/RANK, and immunology. Immunol Rev 208:19–29. (PMID: 10.1111/j.0105-2896.2005.00336.x16313338)
Xu Q, Xu Z, Zhu K, Lin J, Ye B (2021) LINC00346 sponges miR-30c-2-3p to promote the development of lung adenocarcinoma by targeting MYBL2 and regulating cell cycle signaling pathway. Front Oncol 11:687208. (PMID: 10.3389/fonc.2021.687208346315228493815)
Yoshida K, Itoigawa Y, Wada T, Maruyama Y, Nojiri H, Kawasaki T, Kaneko K (2020) Association of superoxide-induced oxidative stress with rotator cuff tears in human patients. J Orthop Res 38:212–218. (PMID: 10.1002/jor.2447231520427)
Zhu F, Liu Z, Zhou Q, Fan J, Zhou D, Xing L, Bo H, Tang L, Fan L (2021) Identification of mRNA Prognostic Markers for TGCT by Integration of Co-Expression and CeRNA Network. Front Endocrinol (lausanne) 12:743155. (PMID: 10.3389/fendo.2021.74315534621245)
معلومات مُعتمدة: BK20221555 Foundation Research Project of Jiangsu Province; 21XLS18 Research Subject of CMC Logistic Support Department; 81772318 National Natural Science Foundation of China; BE2017723 Natural Science Foundation of Jiangsu Province
فهرسة مساهمة: Keywords: Fatty acid degradation; RNA sequencing; Rotator cuff tear; Synovium; T cell signaling
المشرفين على المادة: 0 (RNA, Long Noncoding)
0 (MicroRNAs)
0 (RNA, Messenger)
0 (Receptors, Interleukin-21)
0 (Fatty Acids)
تواريخ الأحداث: Date Created: 20230628 Date Completed: 20240301 Latest Revision: 20240311
رمز التحديث: 20240311
DOI: 10.1007/s10528-023-10411-y
PMID: 37380850
قاعدة البيانات: MEDLINE
الوصف
تدمد:1573-4927
DOI:10.1007/s10528-023-10411-y