IAI Accepts, published online ahead of print on 25 August 2014 Infect. Immun. doi:10.1128/IAI.01876-14 Copyright © 2014, American Society for Microbiology. All Rights Reserved.

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Localization of Burkholderia cepacia Complex Bacteria in

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Cystic Fibrosis Lungs and Interactions with Pseudomonas aeruginosa

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in Hypoxic Mucus

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Ute Schwab1*, Lubna H. Abdullah1, Olivia S. Perlmutt1, Daniel Albert2, C. William Davis1,

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Roland R. Arnold3, James R. Yankaskas1, Peter Gilligan4, Heiner Neubauer5, Scott H. Randell1**,

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and Richard C. Boucher1**

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Cystic Fibrosis/Pulmonary Research and Treatment and Research Center1, Marine Sciences2,

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School of Dentistry3, Pathology and Laboratory Medicine, Memorial Hospital4 , University of

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North Carolina, Chapel Hill, USA; Friedrich-Loeffler-Institut, Institute of Bacterial Infections

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and Zoonoses, Naumburger Str. 96a, D-07743 Jena, Germany5.

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Running title: Burkholderia cepacia complex bacteria in the CF lung

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* Corresponding author, present address:

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Clinical Sciences-Immunology and Microbiology

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College of Veterinary Medicine

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Cornell University

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Ithaca, NY 14853

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Phone 607-229-2399

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Email: [email protected]

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** Senior authors contributed equally to this work.

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This work is dedicated to the memory of our friend and colleague Dr. Anthony Paradiso. 1

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ABSTRACT

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The localization of Burkholderia cepacia complex (Bcc) bacteria in the cystic fibrosis (CF) lung,

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alone or during co-infection with Pseudomonas (P.) aeruginosa, is poorly understood. We

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performed immunohistochemistry for Bcc and P. aeruginosa on 21 co-/or singly-infected CF

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lungs obtained at transplantation or autopsy. Parallel in vitro experiments examined growth of

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two Bcc species, Burkholderia cenocepacia and Burkholderia multivorans, in environments

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similar to those occupied by P. aeruginosa in the CF lung. Bcc was predominantly identified in

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the CF lung as single cells or small clusters within phagocytes and mucus, but not as “biofilm-

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like structures”. In contrast, P. aeruginosa was identified in biofilm-like masses, but densities

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appeared to be reduced during co-infection with Bcc. Based on chemical analyses of CF and

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non-CF respiratory secretions, a test medium was defined to study Bcc growth and interactions

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with P. aeruginosa in an environment mimicking the CF lung. When test medium was

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supplemented under anaerobic conditions with alternative electron acceptors, B. cenocepacia and

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B. multivorans used fermentation rather than anaerobic respiration to gain energy, consistent

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with the identification of fermentation products by HPLC. Both Bcc species also expressed

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mucinases that produced carbon sources from mucins for growth. In the presence of P.

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aeruginosa in vitro, both Bcc species grew anaerobically, but not aerobically. We propose that

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Bcc: 1) invades a P. aeruginosa infected CF lung when the airway lumen is anaerobic; 2)

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inhibits P. aeruginosa biofilm-like growth; and 3) expands the host bacterial niche from mucus

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to also include macrophages.

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INTRODUCTION

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Individuals with cystic fibrosis (CF) typically exhibit polymicrobial lung infections, with

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P. aeruginosa becoming highly prevalent as the disease progresses (1). A subset of CF patients

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become infected with Burkholderia cepacia complex (Bcc) bacteria (2). Bcc infected CF patients

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exhibit significantly reduced long-term survival (3), reflecting both a more rapid decline in lung

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function and, in some cases, the “Cepacia syndrome”, characterized by unrelenting pneumonia,

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sepsis, and death.

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However, there is a paucity of information on the localization of Bcc alone, or in

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conjunction with P. aeruginosa, in the CF lung. Based on the observation that both pathogens

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can be isolated from CF sputum samples, it is generally believed that Bcc and P. aeruginosa co-

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localize in macro-colonies (“biofilm-like structures”) within the lungs of chronically infected CF

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patients. This notion has been supported by in vitro studies demonstrating mixed biofilms in

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vitro (4-6) and bacterial use of the same chemical signals to control biofilm formation and

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expression of virulence factors (5). It has also been shown that growth inhibitory substances

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produced by P. aeruginosa can protect their biofilms against invasion by Bcc, but when no

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inhibitory components are produced, the two species are able to co-exist (7).

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There is evidence, however, that these organisms may not co-exist in biofilm-like

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structures within the CF lung. For example, P. aeruginosa has been shown to grow in sessile

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biofilm matrices, both in vivo and in artificial sputum medium mimicking the CF lung habitat (8-

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14). In contrast, Bcc biofilm-like structures have not yet been identified within the intraluminal

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CF mucus inhabited by P. aeruginosa. The absence of mixed biofilms in excised lung

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specimens is perplexing because Bcc isolates have been shown to form biofilms in vitro,

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regardless of species (15, 16), and we previously reported the formation of biofilm-like

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structures on the surface of well-differentiated (WD) human airway epithelial cultures (17).

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Therefore, it is unclear whether Bcc biofilms in vivo have been missed, or that the current in

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vitro systems that generate biofilms do not adequately mimic the CF lung environment.

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Other data suggest that P. aeruginosa and Bcc may occupy different niches within the CF

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lung. Several clinical and laboratory observations suggest that the niche occupied by Bcc in the

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CF lung is within pulmonary phagocytes and respiratory epithelial cells rather than in

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intraluminal mucus. These observations include clinical unresponsiveness of Bcc to

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antimicrobial therapy despite an isolate’s susceptibility in vitro, isolation of serum-sensitive

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isolates in bacteremic infection (18), and the close taxonomic relationship between Bcc and the

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intracellular pathogen B. pseudomallei (19). Intracellular survival of Bcc is reported in multiple

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pulmonary cell types, including a transformed human bronchial epithelial cell line from a CF

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patient (20), CFTR-positive and CFTR-negative bronchial epithelial cell lines (21), the

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transformed human bronchial epithelial cell line BEAS-2B (22), polarized lung epithelial cells

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(23), A549 pulmonary epithelial cells (24, 25), primary type II pneumocytes (26), and pulmonary

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macrophages (27-30). These data are complemented by a clinical and pathologic study that

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localized Bcc within macrophages in freshly excised CF lungs (31). However, because the

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observations of Sajjan et al. (31) were restricted to CF lungs infected by the transmissible clonal

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ET 12 strain of B. cenocepacia (Edinburgh-Toronto) lineage (genomovar III, cblA+) (32), it is

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not known whether the immunohistologic findings represent characteristic features of this

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species/strain or late stage pulmonary infection with Bcc in general. Importantly, the

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localization of P. aeruginosa was not investigated in CF lungs from which sputum evidence for

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P. aeruginosa and Bcc co-infection existed.

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Consequently, we designed a study to localize both Bcc and P. aeruginosa in CF lungs,

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excised at transplantation or autopsy, infected with one or both organisms. We also designed

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parallel in vitro experiments to ask whether Bcc could survive in environments similar to those

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occupied by P. aeruginosa in the CF lung. When mucus plugs and plaques exceed a certain size,

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and are adjacent to highly metabolic cells, the intraluminal CF mucus can become markedly

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anaerobic (10). Thus, the anaerobic physiology of P. aeruginosa has been studied extensively

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(10, 33-37). However, the literature on energy production by Bcc in hypoxic environments is

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sparse. Consequently, we also performed experiments using airway surface layer (ASL) material

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harvested from WD airway epithelial cultures as a relevant medium to study how Bcc gains

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energy under O2-deprived conditions, and the interspecies relationships between Bcc and P.

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aeruginosa during growth under anaerobic and aerobic conditions.

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MATERIALS AND METHODS

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CF patients and specimens. Sputum and lung tissue specimens were obtained from 21 CF

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patients under University of North Carolina (UNC) Institutional Review Board (IRB) approved

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protocols consistent with all federal and institutional requirements for informed consent and

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confidentiality. Ten were female and eleven were male (age range 13 to 48 years), 18 lungs

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were obtained at lung transplantation and 3 at autopsy (Table 1). Tissues were dissected to

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isolate bronchial and bronchiolar specimens that were fixed in neutral buffered formalin,

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embedded in paraffin, and sectioned using conventional procedures.

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Sputum samples were obtained prior to specimen procurement, consistent with routine

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patient care. Samples obtained closest to the surgical/autopsy dates were analyzed for the

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presence of Bcc, P. aeruginosa and other bacteria at the University of North Carolina Hospital

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Clinical Microbiology Laboratory. When possible, the relative bacterial densities were

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determined by a dilution streak plate method. For this semi-quantitative method, a grade of 0,

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1+, 2+, 3+, or 4+ was assigned depending on the growth seen in each dilution streak on a plate

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(0=no bacteria and 4+=bacteria present after three dilution streaks).

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We selected 2-4 tissue blocks from each lung based upon airway size and the presence of

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mucus within the airway lumen. When possible, two blocks with large airways and 2 blocks

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with small airways and alveoli were selected (Table S1).

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Rabbit antisera. Hyperimmune antisera were produced by immunizing rabbits with inactivated

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whole-cell Bcc or P. aeruginosa antigens and were stored at -20oC until further use. Specificity

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of the antisera was determined by Western blot against crude bacterial cell lysates, including 5

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CF P. aeruginosa isolates and 5 Bcc strains (i.e., B. cepacia ATCC 25416, B. cenocepacia, B.

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vietnamiensis, B. multivorans, and B. dolosa). Bacteria for lysates were grown in TSB, washed in

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PBS, and adjusted to an optical density at 600 nm of 1 (equal to ~5 × 109 bacteria/ml). Then, 2

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ml of the whole bacteria were centrifuged for 10 minutes at 5000 X G. The pellet was lysed (125

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mM TrisHCl pH 7.0, 5.0 mM NaF, 2 mM EDTA, 1% NP-40, 1 mM Na3VO4, 100 μM TPCK,

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100 μM quercetin, 1 mM PMSF, 1 μg/ml leupeptin, and 1 μg/ml pepstatin, 2% SDS, 20%

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Glycerol), boiled for 5 minutes at 100°C, sonicated for 15 seconds, and aliquots were stored at -

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20°C. For Western blots, 10 µl per lane of bacterial lysates were run on NuPage Bis-Tris gels

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(Invitrogen) and electrophoretically transferred to a polyvinylidene fluoride membrane. The

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membrane was blocked with 5% powdered milk in Tris-buffered saline with 0.1% Tween-20

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(TBST) for 1 hour. Blots were incubated with antisera at 1:50,000 and 1:100,000 dilutions in

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blocking solution overnight at 4°C, washed with TBST, and incubated for 1 hour with

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peroxidase goat-anti-rabbit secondary antibody diluted 1:100,000 in blocking solution. After

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washing with TBST, signal was detected with Immobilon Western Detection Reagent (Millipore)

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and exposure to film. A duplicate gel was silver stained to evaluate loading.

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Immunohistochemistry. Bcc and P. aeruginosa were localized in formalin fixed paraffin

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sections of CF lung tissue obtained during transplantation or autopsy (Table 1 and 2). In almost

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all cases, 4 tissue blocks were selected from each patient, 2 containing larger bronchi with

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cartilage in the airway wall and 2 containing bronchioles, in which cartilage was absent and

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alveoli were present. Sections were deparaffinized, rehydrated, and subjected to antigen retrieval

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by boiling in 0.05 M Na citrate pH 6.0. Endogenous peroxidase was inhibited by incubation in

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3% H2O2 in methanol, sections permeabilized with 0.1% Triton X-100 (in PBS), and washed in

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PBS, 0.05% Tween 20 (PBST). After blocking in 5% donkey serum, 1% fish gelatin, 1% BSA

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in PBST, sections were incubated overnight at 4oC with 1:3000 and 1:6000 dilutions of P.

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aeruginosa or Bcc antisera, respectively. Optimal dilutions for each primary antibody were

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determined using positive control sections containing easily identifiable Pseudomonas colonies

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(from a CF patient infected only with P. aeruginosa; Table 1, patient #21) or numerous intra-

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and extra-cellular B. cenocepacia bacteria (autopsy tissue from a Cepacia syndrome CF patient,

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Table 1, patient #1). These positive control sections were included in each staining run.

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Negative controls consisted of double the concentration of normal rabbit serum in place of the

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primary antibody on replicate sections of every tissue block. After washing with diluent (1:3

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blocking solution in PBST), sections were incubated with biotinylated Fab fragment donkey anti-

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rabbit secondary antibody (Jackson ImmunoResearch, West Grove, PA), washed in diluent, and

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incubated with streptavidin horseradish peroxidase (Jackson ImmunoResearch). Slides were

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washed with PBST, rinsed in 0.05 M Tris-HCl buffer, pH 7.6 and incubated with

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diaminobenzidine tetrahydrochloride (10 mg/50 ml) in the same buffer with 0.006% H2O2. After

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rinsing in water, sections were counterstained with ethyl green, dehydrated in ethanol, and

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coverslipped in Permount. A Nikon microphot SA microscope connected to a 3CC-Chilled

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Camera (Sony, Marietta, GA) interfaced to a computer was used to capture light microscopic

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images via Adobe Photoshop.

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Slides were evaluated by two independent observers and were graded as strong (+++),

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moderate (++), weak (+) staining for P. aeruginosa and/or Bcc in endobronchial mucus and

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other locations. Each slide was examined for bacterial appearance (single rods, clusters, or

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macrocolonies), location of bacteria (inside inflammatory, bronchial epithelial or alveolar cells)

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and morphology of airway epithelium (intact, partial or total denudation).

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Supernatants of mucopurulent material (SMM) and airway secretions obtained from CF

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and non-CF patients. Under UNC IRB approved protocols, mucopurulent respiratory secretions

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were harvested from CF lungs excised during transplantation (female, n=10; male, n=10; average

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age, 29.2 years), and from donor lungs that were unused for transplantation (non-CF control;

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female, n=6; male, n=4; average age, 32.6 years). Approximately 1-5 ml of mucopurulent

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material (CF) or pooled secretions (control) was directly aspirated from intrapulmonary airways

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with syringes, ultracentrifuged for 1 h at 100,000 rpm (434,902 x g, Beckman TL-100 Tabletop

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Ultracentrifuge, TLA 100.2 rotor), and the supernatants were stored at -20oC prior to analyses

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(38, 39).

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In vitro Production of Airway Surface Layer (ASL) materials. Because ASL is a relevant

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culture medium for our studies, we developed techniques to harvest large quantities of ASL from

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WD airway epithelial cell cultures prepared as previously described (40). Cells were removed

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from portions of main stem or lobar bronchi from excess donor tissue obtained at the time of

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lung transplantation or from CF lung tissue, again under UNC IRB approved protocols. Cells

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were grown on 100-mm tissue culture dishes in bronchial epithelial growth medium (BEGM).

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Passage two cells were seeded on collagen IV coated 30 mm Millicell CM membrane supports

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(Millipore) at a density of ~106 `cells/cm2 and grown in air-liquid interface (ALI) media in the

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absence of antibiotics. Upon reaching confluence (~5 days), the culture medium was only

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replaced in the serosal chamber. At ~21 days, when the apical cell surface of cultures was fully

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differentiated into ciliated and mucus producing cells (as determined by light microscopy), 200

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l of Kreb’s Bicarbonate Ringer (KBR) solution was deposited onto the apical cell surface

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followed by collection of ASL 24 h later with a pipette tip attached to a 3 cc syringe.

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Preliminary experiments revealed that KBR was conditioned by the epithelium to resemble ASL

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in vivo with respect to ionic composition within 6 to 12 h (41). After ASL collection, the apical

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cell surface of cultures was washed with endotoxin free PBS and, after 24 hours, KBR was added

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for a second harvest of ASL. The harvested ASL was stored at 4oC.

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Chemical analysis of SMM and in vitro produced ASL. The ions Na+, K+, Cl-, and Mg2+ were

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measured using the Vitros950/950AT Chemistry System by standard protocols. The electron

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acceptors nitrate and sulfate were measured in secretions and in vitro ASL by ion

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chromatography using a Dionex 2010i Ion Chromatograph. Test samples and standards were

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diluted 1:50 in sodium bicarbonate/sodium carbonate eluent, filtered (0.45 µm filters) to remove

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particulates, and 1 ml of sample injected onto the columns. Standards were run to determine

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NO3- and SO42- peaks, sample areas then compared to standards, a standard curve graphed, and

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the sample mass calculated according to the slope. Iron concentrations were measured

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spectrophotometrically using a commercial kit (MPR Iron without deproteinisation, Roche

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Diagnostics Corp., Indianapolis). Amino acids were measured by HPLC (Millipore, Waters 7R

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WISP). Osmolality was measured by using a Micro osmometer Model 3300 (Advanced

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Instruments, Inc.). The data obtained from in vivo secretions and ASL measurements were used

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to develop an artificial nutrient limited medium that was used to study bacterial growth in a

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defined, pathophysiologically-relevant microbiology system. Thus, the range of growth rates

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produced are predicted to be much slower than those obtained using nutrient-rich laboratory

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media (e.g. Luria Bertani medium) and may provide a more accurate indication of Bcc bacterial

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physiology relevant to the CF lung. P. aeruginosa growth and biofilm formation have already

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been studied in synthetic media that nutritionally mimic CF sputum (11, 12, 42).

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Purification of mucins. Commercially available mucins are poorly defined chemically and non-

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gel forming. MUC5AC and MUC5B are the major gel-forming mucins in both bovine cervical

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mucus and human respiratory mucus (43-45). To produce large volumes of purified

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Muc5AC/5B mucins, 50 mL of fresh bovine cervical mucus was solubilized in 6 M guanidinium

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chloide and mucins were purified by double isopycnic density gradient centrifugation (46).

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Fractions were collected, weighed for density, and assessed for DNA (A260), protein (A270), and

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sialic acid. Sialic acid-positive fractions were pooled and dialyzed against deionized water. The

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second gradient centrifugation yielded a sharp sialic acid peak that was well separated from

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DNA. A known volume of this fraction was dried and its weight determined on a microbalance

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(CAHN, C33) to determine the mucin content. Mucin solutions, reconstituted with PBS at

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concentrations ranging from 0.01 to 1 mg in a volume of 100L, were prepared and used for

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bacterial growth studies.

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Bacterial strains. Two Bcc species, B. cenocepacia BC-7 (genomovar III, cblA+ major CF

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lineage ET12; provided by Dr. Richard Goldstein, Boston University) and B. multivorans J-1

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(genomovar II; UNC Hospitals) and the P. aeruginosa strains PAO1 (ATCC) and Pae 33 (UNC

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Hospitals) were used in this study. Pae 33 was from an individual with severe lung disease being

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evaluated for lung transplantation. The patient had two additional mucoid strains of

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Pseudomonas and this smooth strain was resistant to many antibiotics, suggesting long standing

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infection. Stocks of the bacteria were kept at –70oC in skim milk. For all studies, bacteria were

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grown at 37oC on sheep blood agar plates.

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Inoculation of in vitro produced ASL and “pure” mucin solutions. To characterize the

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growth of B. cenocepacia BC-7 and B. multivorans J-1 in ASL produced in vitro and in mucin

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solutions, we incubated s small volume of ASL or mucin solution (30 µl) with a low number,

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(approximately 200 to 500 cfu/1 μl PBS) of bacteria (grown overnight on sheep blood agar and

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then suspended/diluted in PBS). The cultures were grown for 3 days and their growth

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monitored under aerobic and anaerobic (10% H2, 5% CO2, 85% N2, anaerobic chamber from

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Coy Laboratory Products, Inc., Ann Arbor, MI) conditions at 37oC in round bottom 96 well

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plates. All growth studies were performed in triplicate. For anaerobic growth experiments, both

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ASL and bacterial suspensions were equilibrated in the anaerobic chamber before ASL was

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inoculated with Bcc and/or P. aeruginosa. The number of viable bacteria was determined by

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serial dilutions plated onto sheep blood agar and cultured under aerobic conditions.

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To test mixed cultures for growth in ASL under aerobic/anaerobic conditions, equal

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numbers of P. aeruginosa (approximately 200 cfu/0.5 μl PBS) and Bcc (approximately 200

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cfu/0.5 μl PBS) as well as a different ratio of Bcc to P. aeruginosa ( 100:1 were co-cultured, and

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after 72 hours, serial dilutions were prepared and plated in parallel onto trypticase soy agar and

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Bcc selective agar (provided by the Microbiology/ Immunology Laboratory of UNC Hospitals)

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for bacterial enumeration.

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Preparation of bacterially conditioned test medium and in vitro ASL supernatants. In vitro

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ASL was inoculated with the two Bcc species and P. aeruginosa bacteria as described above in

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quadruplicate, and after 72 h of incubation, the four samples were pooled, filtered (0.2 µm

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Acrodisk) and ASL filtrates stored at –20oC until use.

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Measurements of organic acids in infected test medium and in vitro ASL. For these studies,

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bacteria-conditioned and non-inoculated test medium and ASL were assayed for low-molecular

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weight organic acids, e.g., acetate, lactate, or formate. These acids are fermentative products,

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which are not normally intermediary metabolites for strictly aerobic bacteria. Thus, the presence

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of these organic acids serves as an indication that Bcc was able to perform fermentation. The

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technique used for the measurement of low-molecular-weight organic acids in test medium and

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in vitro ASL was established for anoxic sediment pore-water (47). A gradient liquid

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chromatograph, combined with an UV/VIS detector and an integrator, was used to identify and

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quantitate organic acids in pre- and post-infected ASL. The column employed was a 22-cm

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cartridge with a guard column or polymeric reversed-phase guard cartridge in the sample loop as

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a concentrator. To measure organic acids, 2-nitrophenylhydrazides (NHPs) of C1 and C5 acids

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were first produced in aqueous solution through the use of a water-soluble carbodiimide-

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coupling agent. The test solutions were centrifuged, pyridine buffer added, followed by NHP,

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then 1-ethyl-3- (3-dimethylaminopropyl) carbodiimide hydrochloride, and finally 40% KOH.

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The samples were mixed and heated in a heating block at 70oC for 10 min. After centrifugation,

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the supernatant was pumped through the concentrator column in the sample loop. The

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derivatized acids adhere strongly because of the cationic quaternary ammonium pairing agents

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adhering to the stationary phase. After the samples were pumped through the pre-column, 1 ml

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of deionized water was flushed through the column to remove KOH from the concentrator prior

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to injection onto the analytical column of the gradient liquid chromatograph. The derivatives

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were then separated with acetate-buffered ion-pairing solvents and detected by absorption at 230

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or 400 nm. A standard mixture of nine acids (lactate, acetate, formate, propionate, iso-butyrate,

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butyrate, iso-valerate, valerate, and fumarate; Sigma Chemicals, St. Louis, MO) was run in

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parallel, which allowed the quantification of the organic acids.

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Detection of mucin degrading enzyme (“mucinase”) activity. To detect bacterial mucinase

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activity, we first prepared bacterial cell lysates after growth in Luria Bertani medium overnight

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at 37oC with shaking. The bacteria were then pelleted and resuspended in TE buffer (10 mM

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Tris-HCL, 1 mM EDTA, pH 8.0). The cell pellets were lysed by sonication on ice, using six 10-

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sec bursts at 4 W. Cell debris and unbroken cells were removed by centrifugation at 12,000 rpm

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for 15 min at 4oC. The supernatants were concentrated and 100-µl volumes dialyzed (Mini

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Dialysis Unit, Pierce, Rockford, IL) against water. Samples (10x conc.) were then incubated

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with 1 μg purified bovine cervical mucins for 18h at 37oC. As a positive control, bovine cervical

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mucins were incubated with trypsin (10 μg). Aliquots were then subjected to SDS/PAGE using a

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4-12% gradient polyacrylamide gel (BIO-RAD). The samples were electrophoresed at 100 V for

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1h. The resulting gels were stained with periodic acid-Schiff’s Reagent (PAS; Gelcode

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Glycoprotein Staining Kit, Pierce). In addition, aliquots were reduced and electrophoresed on

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1% agarose gels for ~3h in TAE buffer (40 mM Tris actetate, 1 mM EDTA, pH 8.0) at a constant

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80V. After electrophoresis, the gels were washed in SSC buffer (0.6M NaCl, 60 mM Na citrate,

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pH 7.0) and the resolved molecules were transferred to nitrocellulose in the same buffer for 1.5 h

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at a negative pressure of 45 mbar using a VacuGene XL vacuum-blotting apparatus as described

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(48). After washing, the nitrocellulose membranes were stained with PAS or probed with an

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antibody specific to cervical polymeric mucins (Muc5AC and Muc5B, 48) and developed with

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horseradish-conjugated secondary antibody (Jackson ImmunoResearch), in conjunction with an

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enhanced chemiluminesence kit. The developed membranes were digitized using a Lumax

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Powerlook 1000 Scanner and the integrated staining intensities of the bands in the resulting

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images were determined with MetaMorph image processing software (49).

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Statistical Analysis. Mean ± standard errors (SEM) or standard deviations (STDEV) were

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calculated for ionic, amino acid, and glucose concentrations in SMM, non-CF secretions, and in

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vitro ASL harvested from WD human airway epithelial cultures. Single parameters in CF versus

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non-CF samples were compared using Student’s t-Test and were considered significantly

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different when P

Localization of Burkholderia cepacia complex bacteria in cystic fibrosis lungs and interactions with Pseudomonas aeruginosa in hypoxic mucus.

The localization of Burkholderia cepacia complex (Bcc) bacteria in cystic fibrosis (CF) lungs, alone or during coinfection with Pseudomonas aeruginosa...
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