Bacterial microbiome of lungs in COPD

References

• TorsvikVOvreasLMicrobial diversity and function in soil: from genes to ecosystemsCurr Opin Microbiol20025324024512057676
   PubMed Web of Science ®Google Scholar
• RelmanDANew technologies, human-microbe interactions, and the search for previously unrecognized pathogensJ Infect Dis2002186Suppl 2S254S25812424706
   PubMed Web of Science ®Google Scholar
• ShanahanFThe host-microbe interface within the gutBest Pract Res Clin Gastroenterol200216691593112473298
   PubMed Web of Science ®Google Scholar
• Rodriguez-BritoBLiLWegleyLViral and microbial community dynamics in four aquatic environmentsISME J20104673975120147985
   PubMed Web of Science ®Google Scholar
• DolliveSChenYYGrunbergSFungi of the murine gut: episodic variation and proliferation during antibiotic treatmentPLoS One201388e7180623977147
   PubMed Web of Science ®Google Scholar
• TurnbaughPJLeyREHamadyMFraser-LiggettCMKnightRGordonJIThe human microbiome projectNature2007449716480481017943116
   PubMed Web of Science ®Google Scholar
• LiKBihanMYoosephSMethéBAAnalyses of the microbial diversity across the human microbiomePLoS One201276e3211822719823
   PubMed Web of Science ®Google Scholar
• HoffmannCDolliveSGrunbergSArchaea and fungi of the human gut microbiome: correlations with diet and bacterial residentsPLoS One201386e6601923799070
   PubMed Web of Science ®Google Scholar
• ScuphamAJPresleyLLWeiBAbundant and diverse fungal microbiota in the murine intestineAppl Environ Microbiol200672179380116391120
   PubMed Web of Science ®Google Scholar
• ReyesAHaynesMHansonNViruses in the faecal microbiota of monozygotic twins and their mothersNature2010466730433433820631792
   PubMed Web of Science ®Google Scholar
• de DombalFTBurchPRWatkinsonGAetiology of ulcerative colitisGut19691042702774305709
   PubMed Web of Science ®Google Scholar
• MacfarlaneGTMacfarlaneSHuman colonic microbiota: ecology, physiology and metabolic potential of intestinal bacteriaScand J Gastroenterol Suppl1997222399145437
   PubMedGoogle Scholar
• NesbittBOn the presence of cholin and neurin in the intestinal canal during its complete obstruction : a research on autointoxicationJ Exp Med189941118
   Google Scholar
• KhouryKAFlochMHHerskovicTEffects of neomycin and penicillin administration on mucosal proliferation of the mouse small intestine. With morphological and functional correlationsJ Exp Med19691295106310784388518
   PubMed Web of Science ®Google Scholar
• IchinoheTPangIKKumamotoYMicrobiota regulates immune defense against respiratory tract influenza A virus infectionProc Natl Acad Sci U S A2011108135354535921402903
   PubMed Web of Science ®Google Scholar
• FerreiraRBGillNWillingBPThe intestinal microbiota plays a role in Salmonella-induced colitis independent of pathogen colonizationPLoS One201165e2033821633507
   PubMed Web of Science ®Google Scholar
• Erb-DownwardJRThompsonDLHanMKAnalysis of the lung microbiome in the “healthy” smoker and in COPDPLoS One201162e1638421364979
   PubMed Web of Science ®Google Scholar
• PragmanAAKimHBReillyCSWendtCIsaacsonREThe lung microbiome in moderate and severe chronic obstructive pulmonary diseasePLoS One2012710110
   Web of Science ®Google Scholar
• MorrisABeckJMSchlossPDComparison of the respiratory microbiome in healthy non-smokers and smokersAm J Respir Crit Care Med2013187101067107523491408
   PubMed Web of Science ®Google Scholar
• BartlettJGChangTWGurwithMGorbachSLOnderdonkABAntibiotic-associated pseudomembranous colitis due to toxin-producing clostridiaN Engl J Med197829810531534625309
   PubMed Web of Science ®Google Scholar
• KnightsDLassenKGXavierRJAdvances in inflammatory bowel disease pathogenesis: linking host genetics and the microbiomeGut201362101505151024037875
   PubMed Web of Science ®Google Scholar
• Le ChatelierENielsenTQinJRichness of human gut microbiome correlates with metabolic markersNature2013500746454154623985870
   PubMed Web of Science ®Google Scholar
• MathersCDLoncarDProjections of global mortality and burden of disease from 2002 to 2030PLoS Med2006311e44217132052
   PubMed Web of Science ®Google Scholar
• World Health OrganizationThe global burden of disease: 2004 updateGeneva, SwitzerlandWorld Health Organization Press2008 Available from: http://www.who.int/healthinfo/global_burden_disease/2004_report_update/en/Accessed December 28, 2013
   Google Scholar
• FletcherCPetoPThe natural history of chronic airflow obstructionBMJ19771607716451648871704
   PubMed Web of Science ®Google Scholar
• HanMKAgustiACalverleyPMChronic obstructive pulmonary disease phenotypes: the future of COPDAm J Respir Crit Care Med2010182559860420522794
   PubMed Web of Science ®Google Scholar
• FranklinWLowellFCMichelsonALSchillerIWChronic obstructive pulmonary emphysema; a disease of smokersAnn Intern Med195645226827413355150
   PubMed Web of Science ®Google Scholar
• HoggJCChuFUtokaparchSThe nature of small-airway obstruction in chronic obstructive pulmonary diseaseN Engl J Med2004350262645265315215480
   PubMed Web of Science ®Google Scholar
• Di StefanoATuratoGMaestrelliPAirflow limitation in chronic bronchitis is associated with T-lymphocyte and macrophage infiltration of the bronchial mucosaAm J Respir Crit Care Med199615326296328564109
   PubMed Web of Science ®Google Scholar
• SaettaMDi StefanoAMaestrelliPActivated T-lymphocytes and macrophages in bronchial mucosa of subjects with chronic bronchitisAm Rev Respir Dis199314723013068430952
   PubMed Web of Science ®Google Scholar
• LowTBGreeneCMO’NeillSJMcElvaneyNGQuantification and evaluation of the role of antielastin autoantibodies in the emphysematous lungPulm Med2011201182616021660246
   PubMedGoogle Scholar
• SethiSEvansNGrantBJMurphyTFNew strains of bacteria and exacerbations of chronic obstructive pulmonary diseaseN Engl J Med2002347746547112181400
   PubMed Web of Science ®Google Scholar
• AnthonisenNRThe British hypothesis revisitedEur Respir J200423565765815176673
   PubMed Web of Science ®Google Scholar
• FletcherCMChronic bronchitis – its prevalence, nature, and pathogenesisAm Rev Respir Dis195980448349413823476
   PubMed Web of Science ®Google Scholar
• FletcherCPetoRTinkerCSpeizerFThe Natural History of Chronic Bronchitis and EmphysemaNew York, NY, USAOxford University Press1976
   Google Scholar
• VestboJPrescottELangePAssociation of chronic mucus hypersecretion with FEV1 decline and chronic obstructive pulmonary disease morbidity. Copenhagen City Heart Study GroupAm J Respir Crit Care Med19961535153015358630597
   PubMed Web of Science ®Google Scholar
• KannerREAnthonisenNRConnettJELung Health Study Research GroupLower respiratory illnesses promote FEV(1) decline in current smokers but not ex-smokers with mild chronic obstructive pulmonary disease: results from the Lung Health StudyAm J Respir Crit Care Med2001164335836411500333
   PubMed Web of Science ®Google Scholar
• HurstJRVestboJAnzuetoASusceptibility to exacerbation in chronic obstructive pulmonary diseaseN Engl J Med2010363121128113820843247
   PubMed Web of Science ®Google Scholar
• DonaldsonGCSeemungalTABhowmikAWedzichaJARelationship between exacerbation frequency and lung function decline in chronic obstructive pulmonary diseaseThorax2002571084785212324669
   PubMed Web of Science ®Google Scholar
• HiltyMBurkeCPedroHDisordered microbial communities in asthmatic airwaysPLoS One201051e857820052417
   PubMed Web of Science ®Google Scholar
• HuangYJKimECoxMJA persistent and diverse airway microbiota present during chronic obstructive pulmonary disease exacerbationsOMICS201014195920141328
   PubMed Web of Science ®Google Scholar
• SzeMADimitriuPAHayashiSThe lung tissue microbiome in chronic obstructive pulmonary diseaseAm J Respir Crit Care Med2012185101073108022427533
   PubMed Web of Science ®Google Scholar
• RabeKFHurdSAnzuetoAGlobal Initiative for Chronic Obstructive Lung DiseaseGlobal strategy for the diagnosis, management, and prevention of chronic obstructive pulmonary disease: GOLD executive summaryAm J Respir Crit Care Med2007176653255517507545
   PubMed Web of Science ®Google Scholar
• SegalLNAlekseyenkoAVClementeJCEnrichment of lung microbiome with supraglottic taxa is associated with increased pulmonary inflammationMicrobiome2013111224467924
   PubMed Web of Science ®Google Scholar
• GleesonKEggliDFMaxwellSLQuantitative aspiration during sleep in normal subjectsChest19971115126612729149581
   PubMed Web of Science ®Google Scholar
• SatirPSleighMAThe physiology of cilia and mucociliary interactionsAnnu Rev Physiol1990521371552184754
   PubMed Web of Science ®Google Scholar
• SibilleYReynoldsHYMacrophages and polymorphonuclear neutrophils in lung defense and injuryAm Rev Respir Dis199014124715012405761
   PubMed Web of Science ®Google Scholar
• SmithCMKulkarniHRadhakrishnanPCiliary dyskinesia is an early feature of respiratory syncytial virus infectionEur Respir J3212013 [Epub ahead of print.]
   Web of Science ®Google Scholar
• SagelSDDavisSDCampisiPDellSDUpdate of respiratory tract disease in children with primary ciliary dyskinesiaProc Am Thorac Soc20118543844321926396
   PubMedGoogle Scholar
• TambascioJLisboaRMPassarelli RdeCMartinezJAGastaldiACAdhesiveness and purulence of respiratory secretions: implications for mucociliary transport in patients with bronchiectasisJ Bras Pneumol201036554555321085819
   PubMed Web of Science ®Google Scholar
• HoggJCvan EedenSPulmonary and systemic response to atmospheric pollutionRespirology200914333634619353772
   PubMed Web of Science ®Google Scholar
• RogersGBCarrollMPSerisierDJBacterial activity in cystic fibrosis lung infectionsRespir Res200564915929792
   PubMed Web of Science ®Google Scholar
• RogersGBvan der GastCJCuthbertsonLClinical measures of disease in adult non-CF bronchiectasis correlate with airway microbiota compositionThorax201368873173723564400
   PubMed Web of Science ®Google Scholar
• GoddardAFStaudingerBJDowdSEDirect sampling of cystic fibrosis lungs indicates that DNA-based analyses of upper-airway specimens can misrepresent lung microbiotaProc Natl Acad Sci U S A201210934137691377422872870
   PubMed Web of Science ®Google Scholar
• CharlsonESBittingerKHaasARTopographical continuity of bacterial populations in the healthy human respiratory tractAm J Respir Crit Care Med2011184895796321680950
   PubMed Web of Science ®Google Scholar
• RamakrishnanVRFerrilGRSuhJDWoodsonTGreenTJKingdomTTUpper and lower airways associations in patients with chronic rhinosinusitis and bronchiectasisInt Forum Allergy Rhinol201331192192723881553
   PubMed Web of Science ®Google Scholar
• BerkhoutMCRijntjesEEl BouazzaouiLHFokkensWJBrimicombeRWHeijermanHGImportance of bacteriology in upper airways of patients with cystic fibrosisJ Cyst Fibros201312552552923357546
   PubMed Web of Science ®Google Scholar
• CharlsonESChenJCusters-AllenRDisordered microbial communities in the upper respiratory tract of cigarette smokersPLoS One2010512e1521621188149
   PubMed Web of Science ®Google Scholar
• LourençoRVKlimekMFBorowskiCJDeposition and clearance of 2 micron particles in the tracheobronchial tree of normal subjects – smokers and nonsmokersJ Clin Invest1971507141114205090057
   PubMed Web of Science ®Google Scholar
• SmaldoneGCFosterWMO’RiordanTGMessinaMSPerryRJLangenbackEGRegional impairment of mucociliary clearance in chronic obstructive pulmonary diseaseChest19931035139013968486016
   PubMed Web of Science ®Google Scholar
• FantaCHClinical aspects of mucus and mucous plugging in asthmaJ Asthma19852262953013908443
   PubMed Web of Science ®Google Scholar
• LeopoldPLO’MahonyMJLianXJTilleyAEHarveyBGCrystalRGSmoking is associated with shortened airway ciliaPLoS One2009412e815720016779
   PubMed Web of Science ®Google Scholar
• SethiSBacterial infection and the pathogenesis of COPDChest20001175 Suppl 1286S291S10843957
   PubMed Web of Science ®Google Scholar
• QuonBSGanWQSinDDContemporary management of acute exacerbations of COPD: a systematic review and metaanalysisChest2008133375676618321904
   PubMed Web of Science ®Google Scholar
• AlbertRKConnettJBaileyWCAzithromycin for prevention of exacerbations of COPDN Engl J Med2011365868969821864166
   PubMed Web of Science ®Google Scholar
• ReidDWLathamRLamontILCamaraMRoddamLFMolecular analysis of changes in Pseudomonas aeruginosa load during treatment of a pulmonary exacerbation in cystic fibrosisJ Cyst Fibros201312668869923706827
   PubMed Web of Science ®Google Scholar
• FodorAAKlemERGilpinDFThe adult cystic fibrosis airway microbiota is stable over time and infection type, and highly resilient to antibiotic treatment of exacerbationsPLoS One201279e4500123049765
   PubMed Web of Science ®Google Scholar
• SibleyCDParkinsMDRabinHRSuretteMGThe relevance of the polymicrobial nature of airway infection in the acute and chronic management of patients with cystic fibrosisCurr Opin Investig Drugs2009108787794
   Google Scholar
• TunneyMMEinarssonGGWeiLLung microbiota and bacterial abundance in patients with bronchiectasis when clinically stable and during exacerbationAm J Respir Crit Care Med2013187101118112623348972
   PubMed Web of Science ®Google Scholar
• LarsenJMSteen-JensenDBLaursenJMDivergent pro-inflammatory profile of human dendritic cells in response to commensal and pathogenic bacteria associated with the airway microbiotaPLoS One201272e3197622363778
   PubMed Web of Science ®Google Scholar
• ForsythePInmanMDBienenstockJOral treatment with live Lactobacillus reuteri inhibits the allergic airway response in miceAm J Respir Crit Care Med2007175656156917204726
   PubMed Web of Science ®Google Scholar
• KarimiKInmanMDBienenstockJForsythePLactobacillus reuteri-induced regulatory T cells protect against an allergic airway response in miceAm J Respir Crit Care Med2009179318619319029003
   PubMed Web of Science ®Google Scholar
• TurnbaughPJLeyREMahowaldMAMagriniVMardisERGordonJIAn obesity-associated gut microbiome with increased capacity for energy harvestNature200644471221027103117183312
   PubMed Web of Science ®Google Scholar
• TurnbaughPJHamadyMYatsunenkoTA core gut microbiome in obese and lean twinsNature2009457722848048419043404
   PubMed Web of Science ®Google Scholar
• ChoIYamanishiSCoxLAntibiotics in early life alter the murine colonic microbiome and adiposityNature2012488741362162622914093
   PubMed Web of Science ®Google Scholar
• RohlkeFStollmanNFecal microbiota transplantation in relapsing Clostridium difficile infectionTherap Adv Gastroenterol201256403420
   PubMed Web of Science ®Google Scholar
• SmithMIYatsunenkoTManaryMJGut microbiomes of Malawian twin pairs discordant for kwashiorkorScience2013339611954855423363771
   PubMed Web of Science ®Google Scholar
• TrehanIGoldbachHSLaGroneLNAntibiotics as part of the management of severe acute malnutritionN Engl J Med2013368542543523363496
   PubMed Web of Science ®Google Scholar
• GraesslerJQinYZhongHMetagenomic sequencing of the human gut microbiome before and after bariatric surgery in obese patients with type 2 diabetes: correlation with inflammatory and metabolic parametersPharmacogenomics J201313651452223032991
   PubMed Web of Science ®Google Scholar
• QinJLiYCaiZA metagenome-wide association study of gut microbiota in type 2 diabetesNature20124907418556023023125
   PubMed Web of Science ®Google Scholar
• MarkleJGFrankDNMortin-TothSSex differences in the gut microbiome drive hormone-dependent regulation of autoimmunityScience201333961231084108823328391
   PubMed Web of Science ®Google Scholar
• KarlssonFHFåkFNookaewISymptomatic atherosclerosis is associated with an altered gut metagenomeNat Commun20123124523212374
   PubMed Web of Science ®Google Scholar
• KorenOSporAFelinJHuman oral, gut, and plaque microbiota in patients with atherosclerosisProc Natl Acad Sci U S A2011108Suppl 14592459820937873
   PubMed Web of Science ®Google Scholar
• FloresRShiJFuhrmanBFecal microbial determinants of fecal and systemic estrogens and estrogen metabolites: a cross-sectional studyJ Transl Med20121025323259758
   PubMed Web of Science ®Google Scholar
• El AidySKunzeWBienenstockJKleerebezemMThe microbiota and the gut-brain axis: insights from the temporal and spatial mucosal alterations during colonisation of the germfree mouse intestineBenef Microbes20123425125923234727
   PubMed Web of Science ®Google Scholar
• OhlandCLKishLBellHEffects of Lactobacillus helveticus on murine behavior are dependent on diet and genotype and correlate with alterations in the gut microbiomePsychoneuroendocrinology20133891738174723566632
   PubMed Web of Science ®Google Scholar
• RussellSLGoldMJHartmannMEarly life antibiotic-driven changes in microbiota enhance susceptibility to allergic asthmaEMBO Rep201213544044722422004
   PubMed Web of Science ®Google Scholar
• Dominguez-BelloMGCostelloEKContrerasMDelivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newbornsProc Natl Acad Sci U S A201010726119711197520566857
   PubMed Web of Science ®Google Scholar
• Renz-PolsterHDavidMRBuistASCaesarean section delivery and the risk of allergic disorders in childhoodClin Exp Allergy200535111466147216297144
   PubMed Web of Science ®Google Scholar
• EkbomABrandtLGranathFLöfdahlCGEgestenAIncreased risk of both ulcerative colitis and Crohn’s disease in a population suffering from COPDLung2008186316717218330638
   PubMed Web of Science ®Google Scholar
• JessTLoftusEVJrHarmsenWSSurvival and cause specific mortality in patients with inflammatory bowel disease: a long term outcome study in Olmsted County, Minnesota, 1940–2004Gut20065591248125416423890
   PubMed Web of Science ®Google Scholar
• BiedermannLZeitzJMwinyiJSmoking cessation induces profound changes in the composition of the intestinal microbiota in humansPLoS One201383e5926023516617
   PubMed Web of Science ®Google Scholar
• NosPDomènechEManagement of Crohn’s disease in smokers: is an alternative approach necessary?World J Gastroenterol201117313567357421987601
   PubMed Web of Science ®Google Scholar
• MahidSSMinorKSSotoREHornungCAGalandiukSSmoking and inflammatory bowel disease: a meta-analysisMayo Clin Proc200681111462147117120402
   PubMed Web of Science ®Google Scholar