Gene expression profiling in lung fibroblasts reveals new players in alveolarization

Physiological Genomics

Volumn 32, Issue 1, 2007, Pages 128-141

  Boucherat, Olivier ^a,b   Franco Montoya, Marie Laure ^a,b   Thibault, Christelle ^c   Incitti, Roberto ^d   Chailley Heu, Bernadette ^a,b   Delacourt, Christophe ^a,b   Bourbon, Jacques R ^a,b,e  

^a INSERM U955   (France)

^b FACULTÉ DE MÉDECINE   (France)

^c INSTITUT DE GÉNÉTIQUE ET DE BIOLOGIE MOLÉCULAIRE ET CELLULAIRE   (France)

^d HENRI MONDOR HOSPITAL   (France)

^e INSERM   (France)

Author keywords

Bronchopulmonary dysplasia; Hox; Hyperoxia; Opn; Wnt

Indexed keywords

RETINOIC ACID RECEPTOR; TRANSCRIPTION FACTOR; WNT5A PROTEIN;

ANIMAL CELL; ANIMAL EXPERIMENT; ARTICLE; CELL ISOLATION; CONTROLLED STUDY; DNA MICROARRAY; DOWN REGULATION; FEMALE; GENE CONTROL; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENOME; HOMEOBOX; IMMUNOBLOTTING; IMMUNOHISTOCHEMISTRY; LUNG FIBROBLAST; NONHUMAN; NUCLEOTIDE SEQUENCE; PERINATAL PERIOD; PRIORITY JOURNAL; RAT; REAL TIME POLYMERASE CHAIN REACTION; RNA EXTRACTION; UPREGULATION;

RATTUS;

EID: 37449002082     PISSN: 10948341     EISSN: 15312267     Source Type: Journal    
DOI: 10.1152/physiolgenomics.00108.2007     Document Type: Article

References (67)

1. Armstrong LC, Bornstein P. Thrombospondins 1 and 2 function as inhibitors of angiogenesis. Matrix Biol 22: 63-71, 2003.
2. Atkinson JJ, Holmbeck K, Yamada S, Birkedal-Hansen H, Parks WC, Senior RM. Membrane-type 1 matrix metalloproteinase is required for normal alveolar development. Dev Dyn 232: 1079-1090, 2005.
3. Aubin J, Lemieux M, Tremblay M, Berard J, Jeannotte L. Early postnatal lethality in Hoxa-5 mutant mice is attributable to respiratory tract defects. Dev Biol 192: 432-445, 1997.
4. Bonner AE, Lemon WJ, You M. Gene expression signatures identify novel regulatory pathways during murine lung development: implications for lung tumorigenesis. J Med Genet 40: 408-417, 2003.
5. Bostrom H, Willetts K, Pekny M, Leveen P, Lindahl P, Hedstrand H, Pekna M, Hellstrom M, Gebre-Medhin S, Schalling M, Nilsson M, Kurland S, Tornell J, Heath JK, Betsholtz C. PDGF-A signaling is a critical event in lung alveolar myofibroblast development and alveogenesis. Cell 85: 863-873, 1996.
6. Bourbon J, Boucherat O, Chailley-Heu B, Delacourt C. Control mechanisms of lung alveolar development and their disorders in bronchopulmonary dysplasia. Pediatr Res 57: 38R-46R, 2005.
7. Brady G, Boggan L, Bowie A, O'Neill LA. Schlafen-1 causes a cell cycle arrest by inhibiting induction of cyclin D1. J Biol Chem 280: 30723-30734, 2005.
8. Bruce MC, Honaker CE. Transcriptional regulation of tropoelastin expression in rat lung fibroblasts: changes with age and hyperoxia. Am J Physiol Lung Cell Mol Physiol 274: L940-L950, 1998.
9. Bucher JR, Roberts RJ. The development of the newborn rat lung in hyperoxia: a dose-response study of lung growth, maturation, and changes in antioxidant enzyme activities. Pediatr Res 15: 999-1008, 1981.
10. Burri PH. Fetal and postnatal development of the lung. Annu Rev Physiol 46: 617-628, 1984.
11. Chailley-Heu B, Boucherat O, Barlier-Mur AM, Bourbon JR. FGF-18 is upregulated in the postnatal rat lung and enhances elastogenesis in myofibroblasts. Am J Physiol Lung Cell Mol Physiol 288: L43-L51, 2005.
12. Clerch LB, Baras AS, Massaro GD, Hoffman EP, Massaro D. DNA microarray analysis of neonatal mouse lung connects regulation of KDR with dexamethasone-induced inhibition of alveolar formation. Am J Physiol Lung Cell Mol Physiol 286: L411-L419, 2004.
13. Denhardt DT, Noda M, O'Regan AW, Pavlin D, Berman JS. Osteopontin as a means to cope with environmental insults: regulation of inflammation, tissue remodeling, and cell survival. J Clin Invest 107: 1055-1061, 2001.
14. Foster JJ, Goss KL, George CL, Bangsund PJ, Snyder JM. Galectin-1 in secondary alveolar septae of neonatal mouse lung. Am J Physiol Lung Cell Mol Physiol 291: L1142-L1149, 2006.
15. Frey G, Egli E, Chailley-Heu B, Lelievre-Pegorier M, Burri PH, Bourbon J, Tschanz SA. Effects of mild vitamin A deficiency on lung maturation in newborn rats: a morphometric and morphologic study. Biol Neonate 86: 259-268, 2004.
16. Galliot B, Dolle P, Vigneron M, Featherstone MS, Baron A, Duboule D. The mouse Hox-1.4 gene: primary structure, evidence for promoter activity and expression during development. Development 107: 343-359, 1989.
17. Gendron-Maguire M, Mallo M, Zhang M, Gridley T. Hoxa-2 mutant mice exhibit homeotic transformation of skeletal elements derived from cranial neural crest. Cell 75: 1317-1331, 1993.
18. Hind M, Corcoran J, Maden M. Temporal/spatial expression of retinoid binding proteins and RAR isoforms in the postnatal lung. Am J Physiol Lung Cell Mol Physiol 282: L468-L476, 2002.
19. Hind M, Corcoran J, Maden M. Alveolar proliferation, retinoid synthesizing enzymes, and endogenous retinoids in the postnatal mouse lung. Different roles for Aldh-1 and Raldh-2. Am J Respir Cell Mol Biol 26: 67-73, 2002.
20. Ihaka R, Gentleman R. R: a language for data analysis and graphics. J Comput Graph Stat 5: 299-314, 1996.
21. Irizarry RA, Bolstad BM, Collin F, Cope LM, Hobbs B, Speed TP. Summaries of Affymetrix GeneChip probe level data. Nucleic Acids Res 31: e15, 2003.
22. Irizarry R, Gautier L, Cope L. An R package for analyses of Affymetrix oligonucleotide arrays. In: The Analysis of Gene Expression Data: Methods and Software, edited by Parmigiani G, Garrett ES, Irizarry RA, Zeger SL. New York: Springer, 2002.
23. Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, Speed TP. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4: 249-264, 2003.
24. Kaplan F, Comber J, Sladek R, Hudson TJ, Muglia LJ, Macrae T, Gagnon S, Asada M, Brewer JA, Sweezey NB. The growth factor midkine is modulated by both glucocorticoid and retinoid in fetal lung development. Am J Respir Cell Mol Biol 28: 33-41, 2003.
25. Kastner P, Leid M, Chambon P. The role of nuclear retinoic acid receptors in the regulation of gene expression. In: Vitamin A in Health and Disease, edited by Blomhoff R. New York: Dekker, 1994, p.189-238.
26. Kinsella JP, Greenough A, Abman SH. Bronchopulmonary dysplasia. Lancet 367: 1421-1431, 2006.
27. Li C, Wong WH. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc Natl Acad Sci USA 98: 31-36, 2001.
28. Li C, Xiao J, Hormi K, Borok Z, Minoo P. Wnt5a participates in distal lung morphogenesis. Dev Biol 248: 68-81, 2002.
29. Liaw L, Birk DE, Ballas CB, Whitsitt JS, Davidson JM, Hogan BL. Altered wound healing in mice lacking a functional osteopontin gene (spp1). J Clin Invest 101: 1468-1478, 1998.
30. Lindahl P, Karlsson L, Hellstrom M, Gebre-Medhin S, Willetts K, Heath JK, Betsholtz C. Alveogenesis failure in PDGF-A-deficient mice is coupled to lack of distal spreading of alveolar smooth muscle cell progenitors during lung development. Development 124: 3943-3953, 1997.
31. Logan CY, Nusse R. The Wnt signaling pathway in development and disease. Annu Rev Cell Dev Biol 20: 781-810, 2004.
32. Luyet C, Burri PH, Schittny JC. Suppression of cell proliferation and programmed cell death by dexamethasone during postnatal lung development. Am J Physiol Lung Cell Mol Physiol 282: L477-L483, 2002.
33. Maconochie M, Nonchev S, Morrison A, Krumlauf R. Paralogous Hox genes: function and regulation. Annu Rev Genet 30: 529-556, 1996.
34. Mandeville I, Aubin J, LeBlanc M, Lalancette-Hebert M, Janelle MF, Tremblay GM, Jeannotte L. Impact of the loss of Hoxa5 function on lung alveogenesis. Am J Pathol 169: 1312-1327, 2006.
35. Mariani TJ, Reed JJ, Shapiro SD. Expression profiling of the developing mouse lung: insights into the establishment of the extracellular matrix. Am J Respir Cell Mol Biol 26: 541-548, 2002.
36. Masckauchan TN, Agalliu D, Vorontchikhina M, Ahn A, Parmalee NL, Li CM, Khoo A, Tycko B, Brown AM, Kitajewski J. Wnt5a signaling induces proliferation and survival of endothelial cells in vitro and expression of MMP-1 and Tie-2. Mol Biol Cell 17: 5163-5172, 2006.
37. Massaro GD, Massaro D. Postnatal treatment with retinoic acid increases the number of pulmonary alveoli in rats. Am J Physiol Lung Cell Mol Physiol 270: L305-L310, 1996.
38. Massaro GD, Massaro D, Chan WY, Clerch LB, Ghyselinck N, Chambon P, Chandraratna RA. Retinoic acid receptor-β: an endogenous inhibitor of the perinatal formation of pulmonary alveoli. Physiol Genomics 4: 51-57, 2000.
39. Massaro D, Teich N, Maxwell S, Massaro GD, Whitney P. Postnatal development of alveoli. Regulation and evidence for a critical period in rats. J Clin Invest 76: 1297-1305, 1985.
40. Massaro D, Teich N, Maxwell S, Massaro GD, Whitney P. Dexamethasone accelerates postnatal alveolar wall thinning and alters wall composition. Am J Physiol Regul Integr Comp Physiol 251: R218-R224, 1986.
41. Matsuura O, Kadomatsu K, Takei Y, Uchimura K, Mimura S, Watanabe K, Muramatsu T. Midkine expression is associated with postnatal development of the lungs. Cell Struct Funct 27: 109-115, 2002.
42. McGowan S, Jackson SK, Jenkins-Moore M, Dai HH, Chambon P, Snyder JM. Mice bearing deletions of retinoic acid receptors demonstrate reduced lung elastin and alveolar numbers. Am J Respir Cell Mol Biol 23: 162-167, 2000.
43. McGrath-Morrow SA, Cho C, Cho C, Zhen L, Hicklin DJ, Tuder RM. Vascular endothelial growth factor receptor 2 blockade disrupts postnatal lung development. Am J Respir Cell Mol Biol 32: 420-427, 2005.
44. Meyrick B, Reid L. Pulmonary arterial and alveolar development in normal postnatal rat lung. Am Rev Respir Dis 125: 468-473, 1982.
45. Mucenski ML, Wert SE, Nation JM, Loudy DE, Huelsken J, Birchmeier W, Morrisey EE, Whitsett JA. β-Catenin is required for specification of proximal/distal cell fate during lung morphogenesis. J Biol Chem 278: 40231-40238, 2003.
46. Nemir M, Bhattacharyya D, Li X, Singh K, Mukherjee AB, Mukherjee BB. Targeted inhibition of osteopontin expression in the mammary gland causes abnormal morphogenesis and lactation deficiency. J Biol Chem 275: 969-976, 2000.
47. Neptune ER, Frischmeyer PA, Arking DE, Myers L, Bunton TE, Gayraud B, Ramirez F, Sakai LY, Dietz HC. Dysregulation of TGF-beta activation contributes to pathogenesis in Marfan syndrome. Nat Genet 33: 407-411, 2003.
48. Pardo A, Gibson K, Cisneros J, Richards TJ, Yang Y, Becerril C, Yousem S, Herrera I, Ruiz V, Selman M, Kaminski N. Up-regulation and profibrotic role of osteopontin in human idiopathic pulmonary fibrosis. PLoS Med 2: e251, 2005.
49. Powell PP, Wang CC, Horinouchi H, Shepherd K, Jacobson M, Lipson M, Jones R. Differential expression of fibroblast growth factor receptors 1 to 4 and ligand genes in late fetal and early postnatal rat lung. Am J Respir Cell Mol Biol 19: 563-572, 1998.
50. Randell SH, Mercer RR, Young SL. Postnatal growth of pulmonary acini and alveoli in normal and oxygen-exposed rats studied by serial section reconstructions. Am J Anat 186: 55-68, 1989.
51. Roth-Kleiner M, Berger TM, Tarek MR, Burri PH, Schittny JC. Neonatal dexamethasone induces premature microvascular maturation of the alveolar capillary network. Dev Dyn 233: 1261-1271, 2005.
52. Saeed AI, Sharov V, White J, Li J, Liang W, Bhagabati N, Braisted J, Klapa M, Currier T, Thiagarajan M, Sturn A, Snuffin M, Rezantsev A, Popov D, Ryltsov A, Kostukovich E, Borisovsky I, Liu Z, Vinsavich A, Trush V, Quackenbush J. TM4: a free, open-source system for microarray data management and analysis. Biotechniques 34: 374-378, 2003.
53. Svingen T, Tonissen KF. Hox transcription factors and their elusive mammalian gene targets. Heredity 97: 88-96, 2006.
54. Takahashi F, Takahashi K, Okazaki T, Maeda K, Ienaga H, Maeda M, Kon S, Uede T, Fukuchi Y. Role of osteopontin in the pathogenesis of bleomycin-induced pulmonary fibrosis. Am J Respir Cell Mol Biol 24: 264-271, 2001.
55. Tebar M, Destree O, de Vree WJ, Ten Have-Opbroek AA. Expression of Tcf/Lef and sFrp and localization of beta-catenin in the developing mouse lung. Mech Dev 109: 437-440, 2001.
56. Torday JS, Rehan VK. The evolutionary continuum from lung development to homeostasis and repair. Am J Physiol Lung Cell Mol Physiol 292: L608-L611, 2007.
57. Volpert OV, Tolsma SS, Pellerin S, Feige JJ, Chen H, Mosher DF, Bouck N. Inhibition of angiogenesis by thrombospondin-2. Biochem Biophys Res Commun 217: 326-332, 1995.
58. Wang Z, Shu W, Lu MM, Morrisey EE. Wnt7b activates canonical signaling in epithelial and vascular smooth muscle cells through interactions with Fzd1, Fzd10, and LRP5. Mol Cell Biol 25: 5022-5030, 2005.
59. Warner BB, Stuart LA, Papes RA, Wispe JR. Functional and pathological effects of prolonged hyperoxia in neonatal mice. Am J Physiol Lung Cell Mol Physiol 275: L110-L117, 1998.
60. Weinstein M, Xu X, Ohyama K, Deng CX. FGFR-3 and FGFR-4 function cooperatively to direct alveogenesis in the murine lung. Development 125: 3615-3623, 1998.
61. Workman C, Jensen LJ, Jarmer H, Berka R, Gautier L, Nielser HB, Saxild HH, Nielsen C, Brunak S, Knudsen S. A new non-linear normalization method for reducing variability in DNA microarray experiments. Genome Biol 3: research0048, 2002.
62. Xu Q, Wang Y, Dabdoub A, Smallwood PM, Williams J, Woods C, Kelley MW, Jiang L, Tasman W, Zhang K, Nathans J. Vascular development in the retina and inner ear: control by Norrin and Frizzled-4, a high-affinity ligand-receptor pair. Cell 116: 883-895, 2004.
63. Yamada M, Kurihara H, Kinoshita K, Sakai T. Temporal expression of alpha-smooth muscle actin and drebrin in septal interstitial cells during alveolar maturation. J Histochem Cytochem 53: 735-744, 2005.
64. Yi M, Jankov RP, Belcastro R, Humes D, Copland I, Shek S, Sweezey NB, Post M, Albertine KH, Auten RL, Tanswell AK. Opposing effects of 60% oxygen and neutrophil influx on alveologenesis in the neonatal rat. Am J Respir Crit Care Med 170: 1188-1196, 2004.
65. Zhang XF, Foda HD. Study on the function of osteopontin in hyperoxia-induced acute lung injury and its mechanism. Zhonghua Jie He He Hu Xi Za Zhi 29: 385-389, 2006.
66. Zweers MC, Dean WB, van Kuppevelt TH, Bristow J, Schalkwijk J. Elastic fiber abnormalities in hypermobility type Ehlers-Danlos syndrome patients with tenascin-X mutations. Clin Genet 67: 330-334, 2005.
67. Zweers MC, Schalkwijk J, van Kuppevelt TH, van Vlijmen-Willems IM, Bergers M, Lethias C, Lamme EN. Transplantation of reconstructed human skin on nude mice: a model system to study expression of human tenascin-X and elastic fiber components. Cell Tissue Res 319: 279-287, 2005.