Protein composition of bronchoalveolar lavage fluid and airway surface liquid from newborn pigs

American Journal of Physiology - Lung Cellular and Molecular Physiology

Volumn 305, Issue 3, 2013, Pages

  Bartlett, Jennifer A ^a   Albertolle, Matthew E ^b   Wohlford Lenane, Christine ^a   Pezzulo, Alejandro A ^a   Zabner, Joseph ^a   Niles, Richard K ^b   Fisher, Susan J ^b   McCray, Paul B ^a   Williams, Katherine E ^b  

^a UNIVERSITY OF IOWA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Airway surface liquid; Bronchoalveolar lavage; Porcine lung; Proteomics

Indexed keywords

CYTOSKELETON PROTEIN; PROTEOME;

ADAPTIVE IMMUNITY; AIRWAY; AIRWAY CONDUCTANCE; AMINO ACID SEQUENCE; ANIMAL EXPERIMENT; ANIMAL MODEL; ARTICLE; BIOLOGICAL PHENOMENA AND FUNCTIONS CONCERNING THE ENTIRE ORGANISM; CELL COMMUNICATION; CONTROLLED STUDY; HOST RESISTANCE; LUNG DISEASE; LUNG LAVAGE; NEWBORN; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN ANALYSIS; SURFACE PROPERTY; SWINE; WILD TYPE; WORKFLOW;

EID: 84880985388     PISSN: 10400605     EISSN: 15221504     Source Type: Journal    
DOI: 10.1152/ajplung.00056.2013     Document Type: Article

References (89)

1. Admyre C, Grunewald J, Thyberg J, Gripenback S, Tornling G, Eklund A, Scheynius A, Gabrielsson S. Exosomes with major histocom-patibility complex class II and co-stimulatory molecules are present in human BAL fluid. Eur Respir J 22: 578-583, 2003.
2. Alho HS, Maasilta PK, Vainikka T, Salminen US. Platelet-derived growth factor, transforming growth factor-beta, and connective tissue growth factor in a porcine bronchial model of obliterative bronchiolitis. Exp Lung Res 33: 303-320, 2007.
3. Ali M, Lillehoj EP, Park Y, Kyo Y, Kim KC. Analysis of the proteome of human airway epithelial secretions. Proteome Sci 9: 4, 2011.
4. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 215: 403-410, 1990.
5. Ballard ST, Inglis SK. Liquid secretion properties of airway submucosal glands. J Physiol 556: 1-10, 2004.
6. Barallobre-Barreiro J, Didangelos A, Schoendube FA, Drozdov I, Yin X, Fernandez-Caggiano M, Willeit P, Puntmann VO, Aldama-Lopez G, Shah AM, Domenech N, Mayr M. Proteomics analysis of cardiac extracellular matrix remodeling in a porcine model of ischemia/reperfusion injury. Circulation 125: 789-802, 2012.
7. Bartlett JA, Fischer AJ, McCray PB Jr. Innate immune functions of the airway epithelium. Contrib Microbiol 15: 147-163, 2008.
8. Boehmer JL, Degrasse JA, Lancaster VA, McFarland MA, Callahan JH, Ward JL. Evaluation of protein expression in bovine bronchoalveolar fluid following challenge with Mannheimia haemolytica. Proteomics 11: 3685-3697, 2011.
9. Brandler MD, Powell SC, Craig DM, Quick G, McMahon TJ, Gold-berg RN, Stamler JS. A novel inhaled organic nitrate that affects pulmonary vascular tone in a piglet model of hypoxia-induced pulmonary hypertension. Pediatr Res 58: 531-536, 2005.
10. Bright LA, Mujahid N, Nanduri B, McCarthy FM, Costa LR, Burgess SC, Swiderski CE. Functional modelling of an equine bronchoalveolar lavage fluid proteome provides experimental confirmation and functional annotation of equine genome sequences. Anim Genet 42: 395-405, 2011.
11. Budas GR, Churchill EN, Mochly-Rosen D. Cardioprotective mechanisms of PKC isozyme-selective activators and inhibitors in the treatment of ischemia-reperfusion injury. Pharm Res 55: 523-536, 2007.
12. Candiano G, Bruschi M, Pedemonte N, Musante L, Ravazzolo R, Liberatori S, Bini L, Galietta LJ, Zegarra-Moran O. Proteomic anal-ysis of the airway surface liquid: modulation by proinflammatory cyto-kines. Am J Physiol Lung Cell Mol Physiol 292: L185-L198, 2007.
13. Chang CC, Chen SH, Ho SH, Yang CY, Wang HD, Tsai ML. Proteomic analysis of proteins from bronchoalveolar lavage fluid reveals the action mechanism of ultrafine carbon black-induced lung injury in mice. Proteomics 7: 4388-4397, 2007.
14. Chen J, Ryu S, Gharib SA, Goodlett DR, Schnapp LM. Exploration of the normal human bronchoalveolar lavage fluid proteome. Proteomics Clin Appl 2: 585-595, 2008.
15. Chen JH, Stoltz DA, Karp PH, Ernst SE, Pezzulo AA, Moninger TO, Rector MV, Reznikov LR, Launspach JL, Chaloner K, Zabner J, Welsh MJ. Loss of anion transport without increased sodium absorption characterizes newborn porcine cystic fibrosis airway epithelia. Cell 143: 911-923, 2010.
16. Chenau J, Michelland S, Sidibe J, Seve M. Peptides OFFGEL electro-phoresis: a suitable pre-analytical step for complex eukaryotic samples fractionation compatible with quantitative iTRAQ labeling. Proteome Sci 6: 9, 2008.
17. Chiu KH, Lee WL, Chang CC, Chen SC, Chang YC, Ho MN, Hsu JF, Liao PC. A label-free differential proteomic analysis of mouse bronchoal-veolar lavage fluid exposed to ultrafine carbon black. Anal Chim Acta 673: 160-166, 2010.
18. Cho HJ, Joo NS, Wine JJ. Defective fluid secretion from submucosal glands of nasal turbinates from CFTR / and CFTR (DeltaF508/DeltaF508) pigs. PLoS One 6: e24424, 2011.
19. Cooper JL, Quinton PM, Ballard ST. Mucociliary transport in porcine trachea: differential effects of inhibiting chloride and bicarbonate secre-tion. Am J Physiol Lung Cell Mol Physiol 304: L184-L190, 2013.
20. Cunningham S, Meng QH, Klein N, McAnulty RJ, Hart SL. Evalua-tion of a porcine model for pulmonary gene transfer using a novel synthetic vector. J Gene Med 4: 438-446, 2002.
21. 2 signaling of small airways in mouse lung slices. Am J Respir Cell Mol Biol 38: 524-531, 2008.
22. Dowell JA, Frost DC, Zhang J, Li L. Comparison of two-dimensional fractionation techniques for shotgun proteomics. Anal Chem 80: 6715-6723,2008.
23. Durairaj L, Neelakantan S, Launspach J, Watt JL, Allaman MM, Kearney WR, Veng-Pedersen P, Zabner J. Bronchoscopic assessment of airway retention time of aerosolized xylitol. Respir Res 7: 27, 2006.
24. Dwivedi RC, Spicer V, Harder M, Antonovici M, Ens W, Standing KG, Wilkins JA, Krokhin OV. Practical implementation of 2D HPLC scheme with accurate peptide retention prediction in both dimensions for high-throughput bottom-up proteomics. Anal Chem 80: 7036-7042, 2008.
25. Ernoult E, Bourreau A, Gamelin E, Guette C. A proteomic approach for plasma biomarker discovery with iTRAQ labelling and OFFGEL fractionation. J Biomed Biotechnol 2010: 927917, 2010.
26. Etherton JE, Purchase IF, Corrin B. Apocrine secretion in the terminal bronchiole of mouse lung. J Anat 129: 305-322, 1979.
27. Gauger PC, Vincent AL, Loving CL, Henningson JN, Lager KM, Janke BH, Kehrli ME Jr, Roth JA. Kinetics of lung lesion development and pro-inflammatory cytokine response in pigs with vaccine-associated enhanced respiratory disease induced by challenge with pandemic (2009) A/H1N1 influenza virus. Vet Pathol 49: 900-912, 2012.
28. Gharib SA, Nguyen E, Altemeier WA, Shaffer SA, Doneanu CE, Goodlett DR, Schnapp LM. Of mice and men: comparative proteomics of bronchoalveolar fluid. Eur Respir J 35: 1388-1395, 2010.
29. Glenny R, Bernard S, Neradilek B, Polissar N. Quantifying the genetic influence on mammalian vascular tree structure. Proc Natl Acad Sci USA 104: 6858-6863, 2007.
30. Groenen MA, Archibald AL, Uenishi H, Tuggle CK, Takeuchi Y, Rothschild MF, Rogel-Gaillard C, Park C, Milan D, Megens HJ, Li S, Larkin DM, Kim H, Frantz LA, Caccamo M, Ahn H, Aken BL, Anselmo A, Anthon C, Auvil L, Badaoui B, Beattie CW, Bendixen C, Berman D, Blecha F, Blomberg J, Bolund L, Bosse M, Botti S, Bujie Z, Bystrom M, Capitanu B, Carvalho-Silva D, Chardon P, Chen C, Cheng R, Choi SH, Chow W, Clark RC, Clee C, Crooijmans RP, Dawson HD, Dehais P, De Sapio F, Dibbits B, Drou N, Du ZQ, Eversole K, Fadista J, Fairley S, Faraut T, Faulkner GJ, Fowler KE, Fredholm M, Fritz E, Gilbert JG, Giuffra E, Gorodkin J, Griffin DK, Harrow JL, Hayward A, Howe K, Hu ZL, Humphray SJ, Hunt T, Hornshoj H, Jeon JT, Jern P, Jones M, Jurka J, Kanamori H, Kapetanovic R, Kim J, Kim JH, Kim KW, Kim TH, Larson G, Lee K, Lee KT, Leggett R, Lewin HA, Li Y, Liu W, Loveland JE, Lu Y, Lunney JK, Ma J, Madsen O, Mann K, Matthews L, McLaren S, Morozumi T, Murtaugh MP, Narayan J, Nguyen DT, Ni P, Oh SJ, Onteru S, Panitz F, Park EW, Park HS, Pascal G, Paudel Y, Perez-Enciso M, Ramirez-Gonzalez R, Reecy JM, Rodriguez-Zas S, Rohrer GA, Rund L, Sang Y, Schachtschneider K, Schraiber JG, Schwartz J, Scobie L, Scott C, Searle S, Servin B, Southey BR, Sperber G, Stadler P, Sweedler JV, Tafer H, Thomsen B, Wali R, Wang J, Wang J, White S, Xu X, Yerle M, Zhang G, Zhang J, Zhang J, Zhao S, Rogers J, Churcher C, Schook LB. Analyses of pig genomes provide insight into porcine demography and evolution. Nature 491: 393-398, 2012.
31. Guo Y, Ma SF, Grigoryev D, Van Eyk J, Garcia JG. 1-DE MS and 2-D LC-MS analysis of the mouse bronchoalveolar lavage proteome. Proteomics 5: 4608-4624, 2005.
32. Gushima Y, Ichikado K, Suga M, Okamoto T, Iyonaga K, Sato K, Miyakawa H, Ando M. Expression of matrix metalloproteinases in pigs with hyperoxia-induced acute lung injury. Eur Respir J 18: 827-837, 2001.
33. Hennig-Pauka I, Jacobsen I, Blecha F, Waldmann KH, Gerlach GF. Differential proteomic analysis reveals increased cathelicidin expression in porcine bronchoalveolar lavage fluid after an Actinobacillus pleuro-pneumoniae infection. Vet Res 37: 75-87, 2006.
34. Hubner NC, Ren S, Mann M. Peptide separation with immobilized pI strips is an attractive alternative to in-gel protein digestion for proteome analysis. Proteomics 8: 4862-4872, 2008.
35. Jiang P, Sangild PT, Siggers RH, Sit WH, Lee CL, Wan JM. Bacterial colonization affects the intestinal proteome of preterm pigs susceptible to necrotizing enterocolitis. Neonatology 99: 280-288, 2011
36. Joo NS, Cho HJ, Khansaheb M, Wine JJ. Hyposecretion of fluid from tracheal submucosal glands of CFTR-deficient pigs. J Clin Invest 120: 3161-3166, 2010.
37. Joo NS, Lee DJ, Winges KM, Rustagi A, Wine JJ. Regulation of antiprotease and antimicrobial protein secretion by airway submucosal gland serous cells. J Biol Chem 279: 38854-38860, 2004.
38. Kesimer M, Kirkham S, Pickles RJ, Henderson AG, Alexis NE, Demaria G, Knight D, Thornton DJ, Sheehan JK. Tracheobronchial air-liquid interface cell culture: a model for innate mucosal defense of the upper airways? Am J Physiol Lung Cell Mol Physiol 296: L92-L100, 2009.
39. Kesimer M, Scull M, Brighton B, DeMaria G, Burns K, O'Neal W, Pickles RJ, Sheehan JK. Characterization of exosome-like vesicles released from human tracheobronchial ciliated epithelium: a possible role in innate defense. FASEB J 23: 1858-1868, 2009.
40. Khansaheb M, Choi JY, Joo NS, Yang YM, Krouse M, Wine JJ. Properties of substance P-stimulated mucus secretion from porcine tra-cheal submucosal glands. Am J Physiol Lung Cell Mol Physiol 300: L370-L379, 2011.
41. Kim CH, Oh Y, Han K, Seo HW, Kim D, Park C, Kang I, Chae C. Expression of secreted and membrane-bound mucins in the airways of piglets experimentally infected with Mycoplasma hyopneumoniae. Vet J 192: 120-122, 2012.
42. Klinger JD, Tandler B, Liedtke CM, Boat TF. Proteinases of Pseu-domonas aeruginosa evoke mucin release by tracheal epithelium. J Clin Invest 74: 1669-1678, 1984.
43. Klymiuk N, Mundhenk L, Kraehe K, Wuensch A, Plog S, Emrich D, Langenmayer MC, Stehr M, Holzinger A, Kroner C, Richter A, Kessler B, Kurome M, Eddicks M, Nagashima H, Heinritzi K, Gruber AD, Wolf E. Sequential targeting of CFTR by BAC vectors generates a novel pig model of cystic fibrosis. J Mol Med (Berl) 90: 597-608, 2012.
44. Kosanam H, Sato M, Batruch I, Smith C, Keshavjee S, Liu M, Diamandis EP. Differential proteomic analysis of bronchoalveolar lavage fluid from lung transplant patients with and without chronic graft dysfunc-tion. Clin Biochem 45: 223-230, 2012.
45. Lacunza E, Bara J, Segal-Eiras A, Croce MV. Expression of conserved mucin domains by epithelial tissues in various mammalian species. Res Vet Sci 86: 68-77, 2009.
46. Lehtola A, Harjula A, Heikkila L, Hammainen P, Taskinen E, Kurki T, Mattila S. Single-lung allotransplantation in pigs following donor pretreatment with intravenous prostaglandin E-1. Morphologic changes after preservation and reperfusion. Scand J Thorac Cardiovasc Surg 23: 193-199, 1989.
47. Lindahl M, Ekstrom T, Sorensen J, Tagesson C. Two dimensional protein patterns of bronchoalveolar lavage fluid from non-smokers, smok-ers, and subjects exposed to asbestos. Thorax 51: 1028-1035, 1996.
48. Lindahl M, Stahlbom B, Svartz J, Tagesson C. Protein patterns of human nasal and bronchoalveolar lavage fluids analyzed with two-dimen-sional gel electrophoresis. Electrophoresis 19: 3222-3229, 1998.
49. Lindahl M, Stahlbom B, Tagesson C. Identification of a new potential airway irritation marker, palate lung nasal epithelial clone protein, in human nasal lavage fluid with two-dimensional electrophoresis and ma-trix-assisted laser desorption/ionization-time of flight. Electrophoresis 22: 1795-1800, 2001.
50. Lindahl M, Stahlbom B, Tagesson C. Two-dimensional gel electropho-resis of nasal and bronchoalveolar lavage fluids after occupational expo-sure. Electrophoresis 16: 1199-1204, 1995.
51. Loving CL, Vincent AL, Pena L, Perez DR. Heightened adaptive immune responses following vaccination with a temperature-sensitive, live-attenuated influenza virus compared with adjuvanted, whole-inacti-vated virus in pigs. Vaccine 30: 5830-5838, 2012.
52. Macris MP, Nakatani T, Myers TJ, Lammermeier DE, Igo SR, Frazier OH, Cooley DA. An experimental technique for heart-lung transplantation in subprimate models. Tex Heart Inst J 17: 228-233, 1990.
53. Magi B, Bini L, Perari MG, Fossi A, Sanchez JC, Hochstrasser D, Paesano S, Raggiaschi R, Santucci A, Pallini V, Rottoli P. Bronchoal-veolar lavage fluid protein composition in patients with sarcoidosis and idiopathic pulmonary fibrosis: a two-dimensional electrophoretic study. Electrophoresis 23: 3434-3444, 2002.
54. Magrane M, UniProt Consortium. UniProt Knowledgebase: a hub of integrated protein data. Database (Oxford) 2011: bar009, 2011.
55. Manza LL, Stamer SL, Ham AJ, Codreanu SG, Liebler DC. Sample preparation and digestion for proteomic analyses using spin filters. Pro-teomics 5: 1742-1745, 2005.
56. Martins RP, Collado-Romero M, Martinez-Gomariz M, Carvajal A, Gil C, Lucena C, Moreno A, Garrido JJ. Proteomic analysis of porcine mesenteric lymph-nodes after Salmonella typhimurium infection. J Pro-teomics 75: 4457-4470, 2012.
57. Martins S, de Perrot M, Imai Y, Yamane M, Quadri SM, Segall L, Dutly A, Sakiyama S, Chaparro A, Davidson BL, Waddell TK, Liu M, Keshavjee S. Transbronchial administration of adenoviral-mediated inter-leukin-10 gene to the donor improves function in a pig lung transplant model. Gene Ther 11: 1786-1796, 2004.
58. Merkel D, Rist W, Seither P, Weith A, Lenter MC. Proteomic study of human bronchoalveolar lavage fluids from smokers with chronic obstruc-tive pulmonary disease by combining surface-enhanced laser desorption/ ionization-mass spectrometry profiling with mass spectrometric protein identification. Proteomics 5: 2972-2980, 2005.
59. Nazari S, Prati U, Berti A, Hoffmann JW, Moncalvo F, Zonta A. Successful bronchial revascularization in experimental single lung trans-plantation. Eur J Cardiothorac Surg 4: 561-566; discussion 567, 1990.
60. Nicholas B, Skipp P, Mould R, Rennard S, Davies DE, O'Connor CD, Djukanovic R. Shotgun proteomic analysis of human-induced sputum. Proteomics 6: 4390-4401, 2006.
61. Opriessnig T, Xiao CT, Gerber PF, Halbur PG. Emergence of a novel mutant PCV2b variant associated with clinical PCVAD in two vaccinated pig farms in the U. S. concurrently infected with PPV2. Vet Microbiol 163: 177-183, 2013.
62. Ostedgaard LS, Meyerholz DK, Chen JH, Pezzulo AA, Karp PH, Rokhlina T, Ernst SE, Hanfland RA, Reznikov LR, Ludwig PS, Rogan MP, Davis GJ, Dohrn CL, Wohlford-Lenane C, Taft PJ, Rector MV, Hornick E, Nassar BS, Samuel M, Zhang Y, Richter SS, Uc A, Shilyansky J, Prather RS, McCray PB Jr, Zabner J, Welsh MJ, Stoltz DA. The F508 mutation causes CFTR misprocessing and cystic fibrosis-like disease in pigs. Sci Transl Med 3: 74ra24, 2011.
63. Pack RJ, Al-Ugaily LH, Morris G. The cells of the tracheobronchial epithelium of the mouse: a quantitative light and electron microscope study. J Anat 132: 71-84, 1981.
64. Pack RJ, Al-Ugaily LH, Morris G, Widdicombe JG. The distribution and structure of cells in the tracheal epithelium of the mouse. Cell Tissue Res 208: 65-84, 1980.
65. Park C, Oh Y, Seo HW, Han K, Chae C. Comparative effects of vaccination against porcine circovirus type 2 (PCV2) and porcine repro-ductive and respiratory syndrome virus (PRRSV) in a PCV2-PRRSV challenge model. Clin Vaccine Immunol 20: 369-376, 2013.
66. Pezzulo AA, Tang XX, Hoegger MJ, Alaiwa MH, Ramachandran S, Moninger TO, Karp PH, Wohlford-Lenane CL, Haagsman HP, van Eijk M, Banfi B, Horswill AR, Stoltz DA, McCray PB Jr, Welsh MJ, Zabner J. Reduced airway surface pH impairs bacterial killing in the porcine cystic fibrosis lung. Nature 487: 109-113, 2012.
67. Pounds JG, Flora JW, Adkins JN, Lee KM, Rana GS, Sengupta T, Smith RD, McKinney WJ. Characterization of the mouse bronchoalveo-lar lavage proteome by micro-capillary LC-FTICR mass spectrometry. J Chromatogr B Analyt Technol Biomed Life Sci 864: 95-101, 2008.
68. Qian WJ, Liu T, Monroe ME, Strittmatter EF, Jacobs JM, Kangas LJ, Petritis K, Camp DG 2nd, Smith RD. Probability-based evaluation of peptide and protein identifications from tandem mass spectrometry and SEQUEST analysis: the human proteome. J Proteome Res 4: 53-62, 2005.
69. Raiford KL, Park J, Lin KW, Fang S, Crews AL, Adler KB. Mucin granule-associated proteins in human bronchial epithelial cells: the airway goblet cell "granulome." Respir Res 12: 118, 2011.
70. Ramirez-Boo M, Garrido JJ, Ogueta S, Calvete JJ, Gomez-Diaz C, Moreno A. Analysis of porcine peripheral blood mononuclear cells proteome by 2-DE and MS: analytical and biological variability in the protein expression level and protein identification. Proteomics 6, Suppl 1: S215-S225, 2006.
71. Rogers CS, Abraham WM, Brogden KA, Engelhardt JF, Fisher JT, McCray PB Jr, McLennan G, Meyerholz DK, Namati E, Ostedgaard LS, Prather RS, Sabater JR, Stoltz DA, Zabner J, Welsh MJ. The porcine lung as a potential model for cystic fibrosis. Am J Physiol Lung Cell Mol Physiol 295: L240-L263, 2008.
72. Rogers CS, Stoltz DA, Meyerholz DK, Ostedgaard LS, Rokhlina T, Taft PJ, Rogan MP, Pezzulo AA, Karp PH, Itani OA, Kabel AC, Wohlford-Lenane CL, Davis GJ, Hanfland RA, Smith TL, Samuel M, Wax D, Murphy CN, Rieke A, Whitworth K, Uc A, Starner TD, Brogden KA, Shilyansky J, McCray PB Jr, Zabner J, Prather RS, Welsh MJ. Disruption of the CFTR gene produces a model of cystic fibrosis in newborn pigs. Science 321: 1837-1841, 2008.
73. Rogers DF. Airway goblet cells: responsive and adaptable front-line defenders. Eur Respir J 7: 1690-1706, 1994.
74. Signor L, Tigani B, Beckmann N, Falchetto R, Stoeckli M. Two-dimensional electrophoresis protein profiling and identification in rat bronchoalveolar lavage fluid following allergen and endotoxin challenge. Proteomics 4: 2101-2110, 2004.
75. Siu KW, DeSouza LV, Scorilas A, Romaschin AD, Honey RJ, Stewart R, Pace K, Youssef Y, Chow TF, Yousef GM. Differential protein expressions in renal cell carcinoma: new biomarker discovery by mass spectrometry. J Proteome Res 8: 3797-3807, 2009.
76. Sommerer D, Suss R, Hammerschmidt S, Wirtz H, Arnold K, Schiller J. Analysis of the phospholipid composition of bronchoalveolar lavage (BAL) fluid from man and minipig by MALDI-TOF mass spectrometry in combination with TLC. J Pharm Biomed Anal 35: 199-206, 2004.
77. Stoltz DA, Meyerholz DK, Pezzulo AA, Ramachandran S, Rogan MP, Davis GJ, Hanfland RA, Wohlford-Lenane CL, Dohrn CL, Bartlett JA, Nelson GA, Chang EH, Taft PJ, Ludwig PS, Estin M, Hornick EE, Launspach JL, Samuel M, Rokhlina T, Karp PH, Ostedgaard LS, Uc A, Starner TD, Horswill AR, Brogden KA, Prather RS, Richter SR, Shilyansky J, McCray PB Jr, Zabner J, Welsh MJ. Cystic fibrosis pigs develop lung disease and exhibit defective bacterial eradication at birth. Sci Transl Med 2: 29ra31, 2010.
78. Tambor V, Hunter CL, Seymour SL, Kacerovsky M, Stulik J, Lenco J. CysTRAQ - a combination of iTRAQ and enrichment of cysteinyl peptides for uncovering and quantifying hidden proteomes. J Proteomics 75: 857-867, 2012.
79. Tang WH, Shilov IV, Seymour SL. Nonlinear fitting method for deter-mining local false discovery rates from decoy database searches. J Pro-teome Res 7: 3661-3667, 2008.
80. Thomas PD, Kejariwal A, Campbell MJ, Mi H, Diemer K, Guo N, Ladunga I, Ulitsky-Lazareva B, Muruganujan A, Rabkin S, Vander-griff JA, Doremieux O. PANTHER: a browsable database of gene products organized by biological function, using curated protein family and subfamily classification. Nucleic Acids Res 31: 334-341, 2003.
81. Wang H, Qian WJ, Mottaz HM, Clauss TR, Anderson DJ, Moore RJ, Camp DG 2nd, Khan AH, Sforza DM, Pallavicini M, Smith DJ, Smith RD. Development and evaluation of a micro-and nanoscale proteomic sample preparation method. J Proteome Res 4: 2397-2403, 2005.
82. Watremez C, Liistro G, deKock M, Roeseler J, Clerbaux T, Detry B, Reynaert M, Gianello P, Jolliet P. Effects of helium-oxygen on respi-ratory mechanics, gas exchange, and ventilation-perfusion relationships in a porcine model of stable methacholine-induced bronchospasm. Intensive Care Med 29: 1560-1566, 2003.
83. Wattiez R, Hermans C, Bernard A, Lesur O, Falmagne P. Human bronchoalveolar lavage fluid: two-dimensional gel electrophoresis, amino acid microsequencing and identification of major proteins. Electrophoresis 20: 1634-1645, 1999.
84. Wattiez R, Hermans C, Cruyt C, Bernard A, Falmagne P. Human bronchoalveolar lavage fluid protein two-dimensional database: study of interstitial lung diseases. Electrophoresis 21: 2703-2712, 2000.
85. Wine JJ, Joo NS. Submucosal glands and airway defense. Proc Am Thorac Soc 1: 47-53, 2004.
86. Wisniewski JR, Zougman A, Nagaraj N, Mann M. Universal sample preparation method for proteome analysis. Nat Methods 6: 359-362, 2009.
87. Wu J, Kobayashi M, Sousa EA, Liu W, Cai J, Goldman SJ, Dorner AJ, Projan SJ, Kavuru MS, Qiu Y, Thomassen MJ. Differential proteomic analysis of bronchoalveolar lavage fluid in asthmatics following segmental antigen challenge. Mol Cell Proteomics 4: 1251-1264, 2005.
88. Xiao S, Wang Q, Jia J, Cong P, Mo D, Yu X, Qin L, Li A, Niu Y, Zhu K, Wang X, Liu X, Chen Y. Proteome changes of lungs artificially infected with H-PRRSV and N-PRRSV by two-dimensional fluorescence difference gel electrophoresis. Virol J 7: 107, 2010.
89. Zhao J, Zhu H, Wong CH, Leung KY, Wong WS. Increased lungkine and chitinase levels in allergic airway inflammation: a proteomics ap-proach. Proteomics 5: 2799-2807, 2005.