Comparative gene expression profiling of post-natal and post-pneumonectomy lung growth

European Respiratory Journal

Volumn 35, Issue 3, 2010, Pages 655-666

  Wolff, J C ^a,b   Wilhelm, J ^b   Fink, L ^b,c   Seeger, W ^a,b   Voswinckel, R ^a,b  

^a MAX PLANCK INSTITUTE FOR HEART AND LUNG RESEARCH   (Germany)

^b JUSTUS LIEBIG UNIVERSITY GIESSEN   (Germany)

^c Institute of Pathology and Cytology   (Germany)

Author keywords

Alveolar septation; Alveolarisation; Arrays; Gene expression; Pneumonectomy

Indexed keywords

ELASTIN; FIBRILLIN 1;

ANIMAL EXPERIMENT; ANIMAL MODEL; ANIMAL TISSUE; ARTICLE; CONTROLLED STUDY; FEMALE; GENE EXPRESSION PROFILING; GENETIC SCREENING; IMMUNE SYSTEM; IN SITU HYBRIDIZATION; LUNG ALVEOLUS; LUNG DEVELOPMENT; LUNG RESECTION; MALE; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; REGULATOR GENE; RESPIRATORY CHAIN; SIGNAL TRANSDUCTION; WESTERN BLOTTING;

ACUTE-PHASE PROTEINS; ANIMALS; ANIMALS, NEWBORN; BLOTTING, WESTERN; ELASTIN; GENE EXPRESSION PROFILING; GENES, FOS; HUMANS; IN SITU HYBRIDIZATION; LIPOCALINS; LIVER REGENERATION; LUNG; MALE; MICE; MICROFILAMENT PROTEINS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; ONCOGENE PROTEINS; PNEUMONECTOMY; POLYMERASE CHAIN REACTION; PROCOLLAGEN; UP-REGULATION;

EID: 77951191394     PISSN: 09031936     EISSN: 13993003     Source Type: Journal    
DOI: 10.1183/09031936.00059709     Document Type: Article

References (41)

1. Schittny JC, Mund SI, Stampanoni M. Evidence and structural mechanism for late lung alveolarization. Am J Physiol Lung Cell Mol Physiol 2008; 294: L246-L254.
2. Foster DJ, Yan X, Bellotto DJ, et al. Expression of epidermal growth factor and surfactant proteins during postnatal and compensatory lung growth. Am J Physiol Lung Cell Mol Physiol 2002; 283: L981-L990.
3. Cagle PT, Langston C, Thurlbeck WM. The effect of age on postpneumonectomy growth in rabbits. Pediatr Pulmonol 1988; 5: 92-95.
4. Hsia CC, Herazo LF, Fryder-Doffey F, et al. Compensatory lung growth occurs in adult dogs after right pneumonectomy. J Clin Invest 1994; 94: 405-412.
5. Fehrenbach H, Voswinckel R, Michl V, et al. Neoalveolarisation contributes to compensatory lung growth following pneumonectomy in mice. Eur Respir J 2008; 31: 515-522.
6. Massaro GD, Radaeva S, Clerch LB, et al. Lung alveoli: endogenous programmed destruction and regeneration. Am J Physiol Lung Cell Mol Physiol 2002; 283: L305-L309.
7. Voswinckel R, Motejl V, Fehrenbach A, et al. Characterisation of post-pneumonectomy lung growth in adult mice. Eur Respir J 2004; 24: 524-532.
8. R Development Core Team R. A language and environment for statistical computing. R Foundation for statistical computing, Vienna, Austria, 2007.
9. Smyth G. Limma: linear models for microarray data. In: Gentleman R CV, Dudoit S, Irizarry R, Huber W, eds. Bioinformatics and computational biology solutions using R and bioconductor. Springer, New York, 2005; pp. 397-420.
10. Gentleman RC, Carey VJ, Bates DM, et al. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol 2004; 5: R80.
11. Edwards D. Non-linear normalization and background correction in one-channel cDNA microarray studies. Bioinformatics 2003; 19: 825-833.
12. Smyth GK, Speed T. Normalization of cDNA microarray data. Methods 2003; 31: 265-273.
13. Smyth GK. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 2004; 3: article 3.
14. Ferkingstad E, Langaas M, Lindqvist B. Estimating the proportion of true null hypotheses, with application to DNA microarray data. J R Stat Soc Series B Stat Methodol 2005; 67: 555-572.
15. Fink L, Kohlhoff S, Stein MM, et al. cDNA array hybridization after laser-assisted microdissection from nonneoplastic tissue. Am J Pathol 2002; 160: 81-90.
16. Fink L, Stahl U, Ermert L, et al. Rat porphobilinogen deaminase gene: a pseudogene-free internal standard for laser-assisted cell picking. Biotechniques 1999; 26: 510-516.
17. Livak KJ, Schmittgen TD. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-DDC(T)) Method. Methods 2001; 25: 402-408.
18. 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 2002; 26: 541-548.
19. Foster JJ, Goss KL, George CL, et al. Galectin-1 in secondary alveolar septae of neonatal mouse lung. Am J Physiol Lung Cell Mol Physiol 2006; 291: L1142-L1149.
20. Boucherat O, Franco-Montoya ML, Thibault C, et al. Gene expression profiling in lung fibroblasts reveals new players in alveolarization. Physiol Genomics 2007; 32: 128-141.
21. Clerch LB, Baras AS, Massaro GD, et al. 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 2004; 286: L411-L419.
22. Massaro D, Massaro GD, Baras A, et al. Calorie-related rapid onset of alveolar loss, regeneration, and changes in mouse lung gene expression. Am J Physiol Lung Cell Mol Physiol 2004; 286: L896-L906.
23. Massaro D, Alexander E, Reiland K, et al. Rapid onset of gene expression in lung, supportive of formation of alveolar septa, induced by refeeding mice after calorie restriction. Am J Physiol Lung Cell Mol Physiol 2007; 292: L1313-L1326.
24. Steiglitz BM, Keene DR, Greenspan DS. PCOLCE2 encodes a functional procollagen C-proteinase enhancer (PCPE2) that is a collagen-binding protein differing in distribution of expression and post-translational modification from the previously described PCPE1. J Biol Chem 2002; 277: 49820-49830.
25. Ding X, Kaminsky LS. Human extrahepatic cytochromes P450: function in xenobiotic metabolism and tissue-selective chemical toxicity in the respiratory and gastrointestinal tracts. Annu Rev Pharmacol Toxicol 2003; 43: 149-173.
26. Yildirim AO, Veith M, Rausch T, et al. Keratinocyte growth factor protects against Clara cell injury induced by naphthalene. Eur Respir J 2008; 32: 694-704.
27. Reynolds SD, Zemke AC, Giangreco A, et al. Conditional stabilization of beta-catenin expands the pool of lung stem cells. Stem Cells 2008; 26: 1337-1346.
28. Akerfelt M, Trouillet D, Mezger V, et al. Heat shock factors at a crossroad between stress and development. Ann N Y Acad Sci 2007; 1113: 15-27.
29. Sunil VR, Patel KJ, Nilsen-Hamilton M, et al. Acute endotoxemia is associated with upregulation of lipocalin 24p3/Lcn2 in lung and liver. Exp Mol Pathol 2007; 83: 177-187.
30. Gwira JA, Wei F, Ishibe S, et al. Expression of neutrophil gelatinase-associated lipocalin regulates epithelial morphogenesis in vitro. J Biol Chem 2005; 280: 7875-7882.
31. Mason N, Ciufo LF, Brown JD. Elongation arrest is a physiologically important function of signal recognition particle. EMBO J 2000; 19: 4164-4174.
32. Hamacher-Brady A, Brady NR, Gottlieb RA. The interplay between pro-death and pro-survival signaling pathways in myocardial ischemia/reperfusion injury: apoptosis meets autophagy. Cardiovasc Drugs Ther 2006; 20: 445-462.
33. Maruyama R, Goto K, Takemura G, et al. Morphological and biochemical characterization of basal and starvation-induced autophagy in isolated adult rat cardiomyocytes. Am J Physiol Heart Circ Physiol 2008; 295: H1599-H1607.
34. Adamson ED, Mercola D. Egr1 transcription factor: multiple roles in prostate tumor cell growth and survival. Tumour Biol 2002; 23: 93-102.
35. O'Donovan KJ, Tourtellotte WG, Millbrandt J, et al. The EGR family of transcription-regulatory factors: progress at the interface of molecular and systems neuroscience. Trends Neurosci 1999; 22: 167-173.
36. Yan SF, Fujita T, Lu J, et al. Egr-1, a master switch coordinating upregulation of divergent gene families underlying ischemic stress. Nat Med 2000; 6: 1355-1361.
37. Sureban SM, Ramalingam S, Natarajan G, et al. Translation regulatory factor RBM3 is a proto-oncogene that prevents mitotic catastrophe. Oncogene 2008; 27: 4544-4556.
38. Adams D, Larman B, Oxburgh L. Developmental expression of mouse follistatin-like 1 (Fstl1): dynamic regulation during organogenesis of the kidney and lung. Gene Expr Patterns 2007; 7: 491-500.
39. Bonapace IM, Latella L, Papait R, et al. Np95 is regulated by E1A during mitotic reactivation of terminally differentiated cells and is essential for S phase entry. J Cell Biol 2002; 157: 909-914.
40. Erdogan M, Pozzi A, Bhowmick N, et al. Signaling pathways regulating TC21-induced tumorigenesis. J Biol Chem 2007; 282: 27713-27720.
41. Sers C, Emmenegger U, Husmann K, et al. Growth-inhibitory activity and downregulation of the class II tumor-suppressor gene H-rev107 in tumor cell lines and experimental tumors. J Cell Biol 1997; 136: 935-944.