Long noncoding RNA ENST00000436340 promotes podocyte injury in diabetic kidney disease by facilitating the association of PTBP1 with RAB3B.

Jinxiu Hu, Qimeng Wang, Xiaoting Fan, Junhui Zhen, Cheng Wang, Huimin Chen, Yingxiao Liu, Ping Zhou, Tingwei Zhang, Tongtong Huang, Rong Wang, Zhimei Lv
Author Information
  1. Jinxiu Hu: Department of Nephrology, Shandong Provincial Hospital, Shandong University, Jinan, Shandong, 250021, China.
  2. Qimeng Wang: Department of Nephrology, Shandong Provincial Hospital, Shandong University, Jinan, Shandong, 250021, China.
  3. Xiaoting Fan: Department of Nephrology, Shandong Provincial Hospital, Shandong University, Jinan, Shandong, 250021, China.
  4. Junhui Zhen: Department of Pathology, School of Medicine, Shandong University, Jinan, Shandong, 250021, China.
  5. Cheng Wang: Department of Nephrology, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong, 250021, China.
  6. Huimin Chen: Department of Nephrology, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong, 250021, China.
  7. Yingxiao Liu: Department of Nephrology, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong, 250021, China.
  8. Ping Zhou: Department of Nephrology, Shandong Provincial Hospital, Shandong University, Jinan, Shandong, 250021, China.
  9. Tingwei Zhang: Department of Nephrology, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong, 250021, China.
  10. Tongtong Huang: Department of Nephrology, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong, 250021, China.
  11. Rong Wang: Department of Nephrology, Shandong Provincial Hospital, Shandong University, Jinan, Shandong, 250021, China. sd_wangrong@163.com. ORCID
  12. Zhimei Lv: Department of Nephrology, Shandong Provincial Hospital, Shandong University, Jinan, Shandong, 250021, China. sdlvzhimei@163.com. ORCID

Abstract

Dysfunction of podocytes has been regarded as an important early pathologic characteristic of diabetic kidney disease (DKD), but the regulatory role of long noncoding RNAs (lncRNAs) in this process remains largely unknown. Here, we performed RNA sequencing in kidney tissues isolated from DKD patients and nondiabetic renal cancer patients undergoing surgical resection and discovered that the novel lncRNA ENST00000436340 was upregulated in DKD patients and high glucose-induced podocytes, and we showed a significant correlation between ENST00000436340 and kidney injury. Gain- and loss-of-function experiments showed that silencing ENST00000436340 alleviated high glucose-induced podocyte injury and cytoskeleton rearrangement. Mechanistically, we showed that fat mass and obesity- associate gene (FTO)-mediated m6A induced the upregulation of ENST00000436340. ENST00000436340 interacted with polypyrimidine tract binding protein 1 (PTBP1) and augmented PTBP1 binding to RAB3B mRNA, promoted RAB3B mRNA degradation, and thereby caused cytoskeleton rearrangement and inhibition of GLUT4 translocation to the plasma membrane, leading to podocyte injury and DKD progression. Together, our results suggested that upregulation of ENST00000436340 could promote podocyte injury through PTBP1-dependent RAB3B regulation, thus suggesting a novel form of lncRNA-mediated epigenetic regulation of podocytes that contributes to the pathogenesis of DKD.

References

  1. Sci Rep. 2016 Jan 04;6:18874 [PMID: 26727661]
  2. Oncogenesis. 2019 Dec 10;8(12):73 [PMID: 31822653]
  3. Mol Cancer. 2016 May 17;15(1):39 [PMID: 27189224]
  4. Aging (Albany NY). 2020 Mar 23;12(6):5280-5299 [PMID: 32203053]
  5. BMC Med. 2021 Mar 15;19(1):66 [PMID: 33715620]
  6. J Clin Endocrinol Metab. 2019 Mar 1;104(3):665-673 [PMID: 30137347]
  7. Proc Natl Acad Sci U S A. 1994 Jun 7;91(12):5587-91 [PMID: 8202531]
  8. Nat Rev Nephrol. 2019 Jun;15(6):327-345 [PMID: 30894700]
  9. J Hematol Oncol. 2020 Jan 8;13(1):5 [PMID: 31915027]
  10. Small GTPases. 2018 Mar 4;9(1-2):22-48 [PMID: 28632484]
  11. Trends Genet. 2018 Feb;34(2):142-157 [PMID: 29249332]
  12. Nat Methods. 2015 Aug;12(8):767-72 [PMID: 26121403]
  13. Front Endocrinol (Lausanne). 2018 Apr 09;9:155 [PMID: 29686650]
  14. Hepatology. 2017 Feb;65(2):604-615 [PMID: 27770549]
  15. Cancer Cell. 2020 Mar 16;37(3):270-288 [PMID: 32183948]
  16. Nat Rev Genet. 2014 Jan;15(1):7-21 [PMID: 24296535]
  17. Kidney Int. 2017 Nov;92(5):1119-1129 [PMID: 28709640]
  18. Trends Genet. 2006 Jan;22(1):1-5 [PMID: 16290135]
  19. Mol Cancer. 2020 Jan 21;19(1):11 [PMID: 31964396]
  20. Genome Res. 2001 May;11(5):833-49 [PMID: 11337478]
  21. J Clin Endocrinol Metab. 2015 Jan;100(1):E148-54 [PMID: 25303482]
  22. Acta Pharm Sin B. 2021 Feb;11(2):340-354 [PMID: 33643816]
  23. Immunity. 2019 Mar 19;50(3):600-615.e15 [PMID: 30824325]
  24. Arch Biochem Biophys. 2021 Oct 15;710:109005 [PMID: 34371008]
  25. Hepatology. 2018 May;67(5):1768-1783 [PMID: 29140550]
  26. J Am Soc Nephrol. 2002 Mar;13(3):630-638 [PMID: 11856766]
  27. Nat Rev Endocrinol. 2014 Jan;10(1):51-61 [PMID: 24247219]
  28. Nephrol Dial Transplant. 2012 Mar;27(3):1030-5 [PMID: 21788373]
  29. J Biol Chem. 2019 Nov 8;294(45):16908-16917 [PMID: 31578283]
  30. Diabetologia. 2015 Aug;58(8):1877-86 [PMID: 26024738]
  31. Sci Rep. 2016 Apr 13;6:24345 [PMID: 27072590]
  32. J Diabetes Res. 2020 Aug 01;2020:4729019 [PMID: 32832561]
  33. Cancer Cell. 2014 May 12;25(5):666-81 [PMID: 24768205]
  34. BJU Int. 2020 Apr;125(4):617-624 [PMID: 31985880]
  35. Diabetologia. 2019 Nov;62(11):2129-2142 [PMID: 31399844]
  36. Cells. 2019 Aug 16;8(8): [PMID: 31426400]
  37. Cell Metab. 2020 Dec 1;32(6):1052-1062.e8 [PMID: 33186558]
  38. Cell. 2013 Jan 31;152(3):570-83 [PMID: 23352431]
  39. Wiley Interdiscip Rev RNA. 2017 Jan;8(1): [PMID: 27436689]
  40. Kidney Int. 2021 Oct;100(4):837-849 [PMID: 34175352]
  41. Nat Commun. 2019 Oct 4;10(1):4523 [PMID: 31586053]
  42. Nat Commun. 2019 May 6;10(1):2065 [PMID: 31061416]
  43. Mol Cancer. 2020 Dec 12;19(1):171 [PMID: 33308223]
  44. Mol Cancer. 2020 Feb 28;19(1):46 [PMID: 32111213]
  45. Mol Biol Rep. 2022 Nov;49(11):10521-10529 [PMID: 36129598]
  46. Cell Biosci. 2020 Feb 21;10:19 [PMID: 32110378]
  47. Cell. 2013 Jan 17;152(1-2):82-96 [PMID: 23313552]
  48. Nat Rev Nephrol. 2016 Dec;12(12):721-737 [PMID: 27748389]
  49. Mol Cancer. 2019 Apr 13;18(1):87 [PMID: 30979372]
  50. Proc Natl Acad Sci U S A. 2010 Nov 16;107(46):19909-14 [PMID: 21041651]
  51. J Am Soc Nephrol. 2016 Apr;27(4):999-1005 [PMID: 26319246]
  52. Nat Microbiol. 2016 Feb 22;1:16011 [PMID: 27572442]
  53. Biochem Soc Trans. 2008 Aug;36(Pt 4):641-7 [PMID: 18631133]
  54. Biochem Biophys Res Commun. 2001 Sep 21;287(2):445-54 [PMID: 11554749]
  55. Sci Transl Med. 2018 Oct 10;10(462): [PMID: 30305452]
  56. N Engl J Med. 2016 Sep 1;375(9):905-6 [PMID: 27579659]
  57. Cell Metab. 2007 Apr;5(4):293-303 [PMID: 17403373]
  58. Nucleic Acids Res. 2020 Nov 18;48(20):11626-11644 [PMID: 33130894]
  59. Nephrol Dial Transplant. 2016 Feb;31(2):206-13 [PMID: 25550448]
  60. Nucleic Acids Res. 2017 Jul 3;45(W1):W12-W16 [PMID: 28521017]
  61. Blood. 2019 Oct 31;134(18):1533-1546 [PMID: 31387917]
  62. Nat Commun. 2018 Oct 22;9(1):4386 [PMID: 30349036]
  63. Neuron. 2016 Jun 15;90(6):1174-1188 [PMID: 27263970]
  64. Trends Endocrinol Metab. 2017 Aug;28(8):597-611 [PMID: 28602209]
  65. Nucleic Acids Res. 2013 Apr 1;41(6):e74 [PMID: 23335781]
  66. Front Immunol. 2019 May 17;10:1100 [PMID: 31156645]
  67. Ren Fail. 2007;29(3):353-8 [PMID: 17497451]
  68. PLoS One. 2018 Dec 19;13(12):e0208654 [PMID: 30566433]
  69. J Diabetes Res. 2019 Feb 12;2019:5383010 [PMID: 30891461]
  70. Nat Commun. 2020 Jan 2;11(1):45 [PMID: 31896749]
  71. Diabetes. 2005 Nov;54(11):3095-102 [PMID: 16249431]

MeSH Term

Humans
Alpha-Ketoglutarate-Dependent Dioxygenase FTO
Diabetes Mellitus
Diabetic Nephropathies
Epigenesis, Genetic
Glucose
Heterogeneous-Nuclear Ribonucleoproteins
Podocytes
Polypyrimidine Tract-Binding Protein
RNA, Long Noncoding

Chemicals

Alpha-Ketoglutarate-Dependent Dioxygenase FTO
FTO protein, human
Glucose
Heterogeneous-Nuclear Ribonucleoproteins
Polypyrimidine Tract-Binding Protein
PTBP1 protein, human
RNA, Long Noncoding
RAB3B protein, human

Word Cloud

Created with Highcharts 10.0.0ENST00000436340DKDinjurykidneypodocyteRAB3BpodocytespatientsshowedPTBP1diabeticdiseasenoncodingRNAnovelhighglucose-inducedcytoskeletonrearrangementupregulationbindingmRNAregulationDysfunctionregardedimportantearlypathologiccharacteristicregulatoryrolelongRNAslncRNAsprocessremainslargelyunknownperformedsequencingtissuesisolatednondiabeticrenalcancerundergoingsurgicalresectiondiscoveredlncRNAupregulatedsignificantcorrelationGain-loss-of-functionexperimentssilencingalleviatedMechanisticallyfatmassobesity-associategeneFTO-mediatedm6Ainducedinteractedpolypyrimidinetractprotein1augmentedpromoteddegradationtherebycausedinhibitionGLUT4translocationplasmamembraneleadingprogressionTogetherresultssuggestedpromotePTBP1-dependentthussuggestingformlncRNA-mediatedepigeneticcontributespathogenesisLongpromotesfacilitatingassociation

Similar Articles

Cited By