Analysis of splice variants of the human protein disulfide isomerase (P4HB) gene

Imagem de Miniatura
Arquivos
art_KAJIHARA_Analysis_of_splice_variants_of_the_human_protein_2020.PDF.pdf (2.8 MB)
Citações na Scopus
4
Tipo de produção
article
Data de publicação
2020
DOI
Scopus
Web of Science
PubMed
Título da Revista
ISSN da Revista
Título do Volume
Editora
BMC
Autores
HON, Chung-Chau
ABDULLAH, Aimi Naim
MORETTI, Ana Iochabel S.
POLONI, Joice F.
BONATTO, Diego
HASHIMOTO, Kosuke
CARNINCI, Piero
Citação
BMC GENOMICS, v.21, n.1, article ID 766, 16p, 2020
Projetos de Pesquisa
Unidades Organizacionais
Fascículo
Resumo
BackgroundProtein Disulfide Isomerases are thiol oxidoreductase chaperones from thioredoxin superfamily with crucial roles in endoplasmic reticulum proteostasis, implicated in many diseases. The family prototype PDIA1 is also involved in vascular redox cell signaling. PDIA1 is coded by the P4HB gene. While forced changes in P4HB gene expression promote physiological effects, little is known about endogenous P4HB gene regulation and, in particular, gene modulation by alternative splicing. This study addressed the P4HB splice variant landscape.ResultsTen protein coding sequences (Ensembl) of the P4HB gene originating from alternative splicing were characterized. Structural features suggest that except for P4HB-021, other splice variants are unlikely to exert thiol isomerase activity at the endoplasmic reticulum. Extensive analyses using FANTOM5, ENCODE Consortium and GTEx project databases as RNA-seq data sources were performed. These indicated widespread expression but significant variability in the degree of isoform expression among distinct tissues and even among distinct locations of the same cell, e.g., vascular smooth muscle cells from different origins. P4HB-02, P4HB-027 and P4HB-021 were relatively more expressed across each database, the latter particularly in vascular smooth muscle. Expression of such variants was validated by qRT-PCR in some cell types. The most consistently expressed splice variant was P4HB-021 in human mammary artery vascular smooth muscle which, together with canonical P4HB gene, had its expression enhanced by serum starvation.ConclusionsOur study details the splice variant landscape of the P4HB gene, indicating their potential role to diversify the functional reach of this crucial gene. P4HB-021 splice variant deserves further investigation in vascular smooth muscle cells.
Palavras-chave
URI
https://observatorio.fm.usp.br/handle/OPI/38617
Referências
  1. Araujo TLS, 2017, REDOX BIOL, V12, P1004, DOI 10.1016/j.redox.2017.04.034
  2. Capitani M, 2009, FEBS LETT, V583, P3863, DOI 10.1016/j.febslet.2009.10.053
  3. Carninci P, 2005, SCIENCE, V309, P1559, DOI 10.1126/science.1112014
  4. Casas F, 1999, MOL CELL BIOL, V19, P7913
  5. Chisa JL, 2007, GENETICS, V175, P1079, DOI 10.1534/genetics.106.066183
  6. Djebali S, 2012, NATURE, V489, P101, DOI 10.1038/nature11233
  7. Essex DW, 1999, BRIT J HAEMATOL, V104, P448, DOI 10.1046/j.1365-2141.1999.01197.x
  8. Flaumenhaft R, 2015, ARTERIOSCL THROM VAS, V35, P16, DOI 10.1161/ATVBAHA.114.303410
  9. FREEDMAN RB, 1994, TRENDS BIOCHEM SCI, V19, P331, DOI 10.1016/0968-0004(94)90072-8
  10. Furie B, 2014, CIRC RES, V114, P1162, DOI 10.1161/CIRCRESAHA.114.301808
  11. Galligan JJ, 2012, HUM GENOMICS, V6, DOI 10.1186/1479-7364-6-6
  12. Gilbert HF, 1997, J BIOL CHEM, V272, P29399, DOI 10.1074/jbc.272.47.29399
  13. Hatahet F, 2009, ANTIOXID REDOX SIGN, V11, P2807, DOI [10.1089/ars.2009.2466, 10.1089/ARS.2009.2466]
  14. Hon CC, 2017, NATURE, V543, P199, DOI 10.1038/nature21374
  15. Jacquot JP, 2002, BIOCHEM PHARMACOL, V64, P1065, DOI 10.1016/S0006-2952(02)01177-2
  16. Janiszewski M, 2005, J BIOL CHEM, V280, P40813, DOI 10.1074/jbc.M509255200
  17. Katz Y, 2015, BIOINFORMATICS, V31, P2400, DOI 10.1093/bioinformatics/btv034
  18. Kremneva E, 2006, FEBS J, V273, P588, DOI 10.1111/j.1742-4658.2005.05092.x
  19. Laurindo FRM, 2012, FREE RADICAL BIO MED, V52, P1954, DOI 10.1016/j.freeradbiomed.2012.02.037
  20. Li H, 2009, BIOINFORMATICS, V25, P1754, DOI 10.1093/bioinformatics/btp324
  21. Li J, 2019, NAT COMMUN, V10, DOI 10.1038/s41467-019-08949-w
  22. Lizio M, 2019, NUCLEIC ACIDS RES, V47, pD752, DOI 10.1093/nar/gky1099
  23. Lizio M, 2015, GENOME BIOL, V16, DOI 10.1186/s13059-014-0560-6
  24. Ma J, 2019, SCI REP-UK, V9, DOI 10.1038/s41598-019-50224-x
  25. Mercer TR, 2010, GENOME RES, V20, P1639, DOI 10.1101/gr.112128.110
  26. Moretti AIS, 2017, SCI REP-UK, V7, DOI 10.1038/s41598-017-16947-5
  27. Mussil B, 2013, PLOS ONE, V8, DOI 10.1371/journal.pone.0073641
  28. Neagoe C, 2002, CIRCULATION, V106, P1333, DOI 10.1161/01.CIR.0000029803.93022.93
  29. Ohmiya H, 2014, BMC GENOMICS, V15, DOI 10.1186/1471-2164-15-269
  30. Okumura M, 2019, NAT CHEM BIOL, V15, P499, DOI 10.1038/s41589-019-0268-8
  31. Pescatore LA, 2012, J BIOL CHEM, V287, P29290, DOI 10.1074/jbc.M112.394551
  32. Reese MG, 2010, GENOME BIOL, V11, DOI 10.1186/gb-2010-11-8-r88
  33. Reyes A, 2018, NUCLEIC ACIDS RES, V46, P582, DOI 10.1093/nar/gkx1165
  34. Richardson DS, 2012, MOL BIOL CELL, V23, P3838, DOI 10.1091/mbc.E12-02-0114
  35. Rosenbloom KR, 2010, NUCLEIC ACIDS RES, V38, pD620, DOI 10.1093/nar/gkp961
  36. Santos CXC, 2009, J LEUKOCYTE BIOL, V86, P989, DOI 10.1189/jlb.0608354
  37. Schwaller M, 2003, J BIOL CHEM, V278, P7154, DOI 10.1074/jbc.M211036200
  38. Severin J, 2014, NAT BIOTECHNOL, V32, P217, DOI 10.1038/nbt.2840
  39. Moretti AIS, 2017, ARCH BIOCHEM BIOPHYS, V617, P106, DOI 10.1016/j.abb.2016.11.007
  40. Takahashi H, 2012, NAT PROTOC, V7, P542, DOI 10.1038/nprot.2012.005
  41. Tanaka LY, 2016, HYPERTENSION, V67, P613, DOI 10.1161/HYPERTENSIONAHA.115.06177
  42. Tanaka S, 2000, J BIOL CHEM, V275, P10388, DOI 10.1074/jbc.275.14.10388
  43. TASANEN K, 1988, J BIOL CHEM, V263, P16218
  44. Thorvaldsdottir H, 2013, BRIEF BIOINFORM, V14, P178, DOI 10.1093/bib/bbs017
  45. Vandenbroucke I I, 2001, Nucleic Acids Res, V29, pE68, DOI 10.1093/nar/29.13.e68
  46. Vaquero AR, 2012, PHYSIOL GENOMICS, V44, P903, DOI 10.1152/physiolgenomics.00030.2012
  47. Vitting-Seerup K, 2017, MOL CANCER RES, V15, P1206, DOI 10.1158/1541-7786.MCR-16-0459
  48. Yu CK, 2018, ARTERIOSCL THROM VAS, V38, P164, DOI 10.1161/ATVBAHA.117.310237
  49. Zerbino DR, 2018, NUCLEIC ACIDS RES, V46, pD754, DOI 10.1093/nar/gkx1098
  50. Zhao W, 2016, BMC GENOMICS, V17, DOI 10.1186/s12864-016-2521-9

Coleções
Artigos e Materiais de Revistas Científicas - HC/InCor
Artigos e Materiais de Revistas Científicas - FM/MCP
Artigos e Materiais de Revistas Científicas - LIM/18
Artigos e Materiais de Revistas Científicas - LIM/64