Fibrotic myofibroblasts manifest genome-wide derangements of translational control

PLoS ONE

Volumn 3, Issue 9, 2008, Pages

  Larsson, Ola ^a,b   Diebold, Deanna ^a   Fan, Danhua ^a,c   Peterson, Mark ^a   Nho, Richard Seonghun ^a   Bitterman, Peter B ^a   Henke, Craig A ^a  

^a UNIVERSITY OF MINNESOTA MEDICAL SCHOOL   (United States)

^b MCGILL UNIVERSITY   (Canada)

^c UNIVERSITY OF MINNESOTA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BETA1 INTEGRIN; TRANSFORMING GROWTH FACTOR BETA;

ARTICLE; CELL TRANSFORMATION; CONTROLLED STUDY; DOWNSTREAM PROCESSING; EPITHELIUM CELL; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENE MUTATION; GENOME ANALYSIS; HUMAN; HUMAN CELL; IDIOPATHIC DISEASE; INTERNAL RIBOSOME ENTRY SITE; LUNG FIBROSIS; MESENCHYME CELL; MOLECULAR MECHANICS; MYOFIBROBLAST; PATHOPHYSIOLOGY; SIGNAL TRANSDUCTION; TRANSLATION INITIATION; AGED; BIOLOGICAL MODEL; CHEMISTRY; FEMALE; FIBROBLAST; GENETICS; HUMAN GENOME; MALE; METABOLISM; MIDDLE AGED; PROTEIN SYNTHESIS; RIBOSOME;

AGED; AGED, 80 AND OVER; ANTIGENS, CD29; FEMALE; FIBROBLASTS; GENOME, HUMAN; HUMANS; MALE; MIDDLE AGED; MODELS, BIOLOGICAL; PROTEIN BIOSYNTHESIS; PULMONARY FIBROSIS; RIBOSOMES; SIGNAL TRANSDUCTION; TRANSFORMING GROWTH FACTOR BETA;

EID: 52449088850     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0003220     Document Type: Article

References (58)

1. Bitterman PB, Henke CA (1991) Fibroproliferative disorders. pp 81S-84S.
2. Cotran R, Kumar V, Collins T (1999) In: Collins T, ed. Philadelphia: W.B. Saunders Company. pp 89-112.
3. Wynn TA (2004) Fibrotic disease and the T(H)1/T(H)2 paradigm. pp 583-594.
4. Pacanowski MA, Amsden GW (2005) Interferon gamma-1b in the treatment of idiopathic pulmonary fibrosis. Ann Pharmacother. pp 1678-1686.
5. Aono Y, Nishioka Y, Inayama M, Ugai M, Kishi J, et al. (2005) Imatinib as a novel antifibrotic agent in bleomycin-induced pulmonary fibrosis in mice. Am J Respir Crit Care Med. pp 1279-1285.
6. Schuttert JB, Liu MH, Gliem N, Fiedler GM, Zopf S, et al. (2003) Human renal fibroblasts derived from normal and fibrotic kidneys show differences in increase of extracellular matrix synthesis and cell proliferation upon angiotensin II exposure. Pflugers Arch. pp 387-393.
7. Norman JT, Fine LG (1999) Progressive renal disease: fibroblasts, extracellular matrix, and integrins. Exp Nephrol. pp 167-177.
8. Ramos C, Montano M, Garcia-Alvarez J, Ruiz V, Uhal BD, et al. (2001) Fibroblasts from idiopathic pulmonary fibrosis and normal lungs differ in growth rate, apoptosis, and tissue inhibitor of metalloproteinases expression. Am J Respir Cell Mol Biol. pp 591-598.
9. Santiago B, Galindo M, Rivero M, Pablos JL (2001) Decreased susceptibility to Fas-induced apoptosis of systemic sclerosis dermal fibroblasts. Arthritis Rheum. pp 1667-1676.
10. Ladin DA, Hou Z, Patel D, McPhail M, Olson JC, et al. (1998) p53 and apoptosis alterations in keloids and keloid fibroblasts. Wound Repair Regen. pp 28-37.
11. Tsujita-Kyutoku M, Uehara N, Matsuoka Y, Kyutoku S, Ogawa Y, et al. (2005) Comparison of transforming growth factor-beta/Smad signaling between normal dermal fibroblasts and fibroblasts derived from central and peripheral areas of keloid lesions. In Vivo. pp 959-963.
12. Selman M, Montano M, Ramos C, Chapela R (1986) Concentration, biosynthesis and degradation of collagen in idiopathic pulmonary fibrosis. Thorax 41: 355-359.
13. King TE Jr, Schwarz MI, Brown K, Tooze JA, Colby TV, et al. (2001) Idiopathic pulmonary fibrosis: relationship between histopathologic features and mortality. Am J Respir Crit Care Med 164: 1025-1032.
14. Nicholson AG, Fulford LG, Colby TV, du Bois RM, Hansell DM, et al. (2002) The relationship between individual histologic features and disease progression in idiopathic pulmonary fibrosis. Am J Respir Crit Care Med 166: 173-177.
15. Enomoto N, Suda T, Kato M, Kaida Y, Nakamura Y, et al. (2006) Quantitative analysis of fibroblastic foci in usual interstitial pneumonia. Chest 130: 22-29.
16. Xia H, Diebold D, Nho R, Perlman D, Kleidon J, et al. (2008) Pathological integrin signaling enhances proliferation of primary lung fibroblasts from patients with idiopathic pulmonary fibrosis. J Exp Med 205: 1659-1672.
17. Pardo A, Gibson K, Cisneros J, Richards TJ, Yang Y, et al. (2005) Up-regulation and profibrotic role of osteopontin in human idiopathic pulmonary fibrosis. PLoS Med 2: e251.
18. Grinnell F (1994) Fibroblasts, myofibroblasts, and wound contraction. J Cell Biol 124: 401-404.
19. Gruber MP, Coldren CD, Woolum MD, Cosgrove GP, Zeng C, et al. (2006) Human lung project: evaluating variance of gene expression in the human lung. Am J Respir Cell Mol Biol 35: 65-71.
20. Li S, Takasu T, Perlman DM, Peterson MS, Burrichter D, et al. (2003) Translation factor eIF4E rescues cells from Myc-dependent apoptosis by inhibiting cytochrome c release. J Biol Chem 278: 3015-3022.
21. Dai M, Wang P, Boyd AD, Kostov G, Athey B, et al. (2005) Evolving gene/ transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Res 33: e175.
22. Sandberg R, Larsson O (2007) Improved precision and accuracy for microarrays using updated probe set definitions. BMC Bioinformatics 8: 48.
23. Tusher VG, Tibshirani R, Chu G (2001) Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci U S A 98: 5116-5121.
24. Larsson O, Wahlestedt C, Timmons JA (2005) Considerations when using the significance analysis of microarrays (SAM) algorithm. BMC Bioinformatics 6: 129.
25. Boyle EI, Weng S, Gollub J, Jin H, Botstein D, et al. (2004) GO::Term Finder-open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Bioinformatics 20: 3710-3715.
26. Al-Shahrour F, Diaz-Uriarte R, Dopazo J (2005) Discovering molecular functions significantly related to phenotypes by combining gene expression data and biological information. Bioinformatics 21: 2988-2993.
27. Fluck J, Querfeld C, Cremer A, Niland S, Krieg T, et al. (1998) Normal human primary fibroblasts undergo apoptosis in three-dimensional contractile collagen gels. J Invest Dermatol 110: 153-157.
28. Tian B, Lessan K, Kahm J, Kleidon J, Henke C (2002) beta 1 integrin regulates fibroblast viability during collagen matrix contraction through a phosphatidylinositol 3-kinase/Akt/protein kinase B signaling pathway. J Biol Chem 277: 24667-24675.
29. Nho RS, Xia H, Kahm J, Kleidon J, Diebold D, et al. (2005) Role of integrinlinked kinase in regulating phosphorylation of Akt and fibroblast survival in type I collagen matrices through a beta1 integrin viability signaling pathway. J Biol Chem 280: 26630-26639.
30. Xia H, Nho RS, Kahm J, Kleidon J, Henke CA (2004) Focal adhesion kinase is upstream of phosphatidylinositol 3-kinase/Akt in regulating fibroblast survival in response to contraction of type I collagen matrices via a beta 1 integrin viability signaling pathway. J Biol Chem 279: 33024-33034.
31. Nho RS, Xia H, Diebold D, Kahm J, Kleidon J, et al. (2006) PTEN regulates fibroblast elimination during collagen matrix contraction. J Biol Chem 281: 33291-33301.
32. Larsson O, Perlman DM, Fan D, Reilly CS, Peterson M, et al. (2006) Apoptosis resistance downstream of eIF4E: posttranscriptional activation of an antiapoptotic transcript carrying a consensus hairpin structure. Nucleic Acids Res 34: 4375-4386.
33. Larsson O, Li S, Issaenko OA, Avdulov S, Peterson M, et al. (2007) Eukaryotic translation initiation factor 4E induced progression of primary human mammary epithelial cells along the cancer pathway is associated with targeted translational deregulation of oncogenic drivers and inhibitors. Cancer Res 67: 6814-6824.
34. Rajasekhar VK, Viale A, Socci ND, Wiedmann M, Hu X, et al. (2003) Oncogenic Ras and Akt signaling contribute to glioblastoma formation by differential recruitment of existing mRNAs to polysomes. Mol Cell 12: 889-901.
35. Mamane Y, Petroulakis E, Martineau Y, Sato TA, Larsson O, et al. (2007) Epigenetic Activation of a Subset of mRNAs by eIF4E Explains Its Effects on Cell Proliferation. PLoS ONE 2: e242.
36. Blais JD, Filipenko V, Bi M, Harding HP, Ron D, et al. (2004) Activating transcription factor 4 is translationally regulated by hypoxic stress. Mol Cell Biol 24: 7469-7482.
37. The Gene Ontology (GO) project in 2006. Nucleic Acids Res 34: D322-326.
38. Frankel SK, Cosgrove GP, Cha SI, Cool CD, Wynes MW, et al. (2006) TNF-alpha sensitizes normal and fibrotic human lung fibroblasts to Fas-induced apoptosis. Am J Respir Cell Mol Biol 34: 293-304.
39. Ramos C, Montano M, Garcia-Alvarez J, Ruiz V, Uhal BD, et al. (2001) Fibroblasts from idiopathic pulmonary fibrosis and normal lungs differ in growth rate, apoptosis, and tissue inhibitor of metalloproteinases expression. Am J Respir Cell Mol Biol 24: 591-598.
40. Moodley YP, Caterina P, Scaffidi AK, Misso NL, Papadimitriou JM, et al. (2004) Comparison of the morphological and biochemical changes in normal human lung fibroblasts and fibroblasts derived from lungs of patients with idiopathic pulmonary fibrosis during FasL-induced apoptosis. J Pathol 202: 486-495.
41. Moodley YP, Scaffidi AK, Misso NL, Keerthisingam C, McAnulty RJ, et al. (2003) Fibroblasts isolated from normal lungs and those with idiopathic pulmonary fibrosis differ in interleukin-6/gp130-mediated cell signaling and proliferation. Am J Pathol 163: 345-354.
42. Hayflick L (1965) The Limited in Vitro Lifetime of Human Diploid Cell Strains. Exp Cell Res 37: 614-636.
43. Wennmalm K, Wahlestedt C, Larsson O (2005) The expression signature of in vitro senescence resembles mouse but not human aging. Genome Biol 6: R109.
44. Oostendorp RA, Audet J, Miller C, Eaves CJ (1999) Cell division tracking and expansion of hematopoietic long-term repopulating cells. Leukemia 13: 499-501.
45. Larsson O, Wennmalm K, Sandberg R (2006) Comparative microarray analysis. Omics 10: 381-397.
46. Willis BC, Liebler JM, Luby-Phelps K, Nicholson AG, Crandall ED, et al. (2005) Induction of epithelial-mesenchymal transition in alveolar epithelial cells by transforming growth factor-beta1: potential role in idiopathic pulmonary fibrosis. Am J Pathol 166: 1321-1332.
47. Kim KK, Kugler MC, Wolters PJ, Robillard L, Galvez MG, et al. (2006) Alveolar epithelial cell mesenchymal transition develops in vivo during pulmonary fibrosis and is regulated by the extracellular matrix. Proc Natl Acad Sci U S A 103: 13180-13185.
48. Zeisberg M, Yang C, Martino M, Duncan MB, Rieder F, et al. (2007) Fibroblasts derive from hepatocytes in liver fibrosis via epithelial to mesenchymal transition. J Biol Chem 282: 23337-23347.
49. Choi ES, Jakubzick C, Carpenter KJ, Kunkel SL, Evanoff H, et al. (2004) Enhanced monocyte chemoattractant protein-3/CC chemokine ligand-7 in usual interstitial pneumonia. Am J Respir Crit Care Med 170: 508-515.
50. Renzoni EA, Abraham DJ, Howat S, Shi-Wen X, Sestini P, et al. (2004) Gene expression profiling reveals novel TGFbeta targets in adult lung fibroblasts. Respir Res 5: 24.
51. Cosgrove GP, Brown KK, Schiemann WP, Serls AE, Parr JE, et al. (2004) Pigment epithelium-derived factor in idiopathic pulmonary fibrosis: a role in aberrant angiogenesis. Am J Respir Crit Care Med 170: 242-251.
52. Selman M, Pardo A, Barrera L, Estrada A, Watson SR, et al. (2006) Gene expression profiles distinguish idiopathic pulmonary fibrosis from hypersensitivity pneumonitis. Am J Respir Crit Care Med 173: 188-198.
53. Gygi SP, Rochon Y, Franza BR, Aebersold R (1999) Correlation between protein and mRNA abundance in yeast. Mol Cell Biol 19: 1720-1730.
54. Anderson L, Seilhamer J (1997) A comparison of selected mRNA and protein abundances in human liver. Electrophoresis 18: 533-537.
55. Torry DJ, Richards CD, Podor TJ, Gauldie J (1994) Anchorage-independent colony growth of pulmonary fibroblasts derived from fibrotic human lung tissue. J Clin Invest 93: 1525-1532.
56. Chilosi M, Zamo A, Doglioni C, Reghellin D, Lestani M, et al. (2006) Migratory marker expression in fibroblast foci of idiopathic pulmonary fibrosis. Respir Res 7: 95.
57. Wipff PJ, Rifkin DB, Meister JJ, Hinz B (2007) Myofibroblast contraction activates latent TGF-beta1 from the extracellular matrix. J Cell Biol 179: 1311-1323.
58. Kaminski N, Rosas IO (2006) Gene expression profiling as a window into idiopathic pulmonary fibrosis pathogenesis: can we identify the right target genes? Proc Am Thorac Soc 3: 339-344.