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Research Article

Nasal DNA Methylation is Associated with Childhood Asthma

, , , , , , , , & show all
Pages 629-641 | Received 03 Oct 2017, Accepted 19 Jan 2018, Published online: 25 Apr 2018

References

  • Akinbami LJ , SimonAE , RossenLM . Changing trends in asthma prevalence among children . Pediatrics137 ( 1 ), doi:10.1542/peds.2015-2354 ( 2016 ).
  • Lockett GA , HollowayJW . Genome-wide association studies in asthma; perhaps, the end of the beginning . Curr. Opin. Allergy Clin. Immunol.13 ( 5 ), 463 – 469 ( 2013 ).
  • Merianos AL , DixonCA , Mahabee-GittensEM . Secondhand smoke exposure, illness severity and resource utilization in pediatric emergency department patients with respiratory illnesses . J. Asthma54 ( 8 ), 798 – 806 ( 2016 ).
  • Puranik S , FornoE , BushA , CeledonJC . Predicting severe asthma exacerbations in children . Am. J. Respir. Crit. Care Med.195 ( 7 ), 854 – 859 ( 2016 ).
  • Khreis H , KellyC , TateJ , ParslowR , LucasK , NieuwenhuijsenM . Exposure to traffic-related air pollution and risk of development of childhood asthma: a systematic review and meta-analysis . Environ. Int.100 , 1 – 31 ( 2016 ).
  • Digel W , LubbertM . DNA methylation disturbances as novel therapeutic target in lung cancer: preclinical and clinical results . Crit. Rev. Oncol. Hematol.55 ( 1 ), 1 – 11 ( 2005 ).
  • Breton CV , ByunHM , WentenM , PanF , YangA , GillilandFD . Prenatal tobacco smoke exposure affects global and gene-specific DNA methylation . Am. J. Respir. Crit. Care Med.180 ( 5 ), 462 – 467 ( 2009 ).
  • Kaminsky Z , WangSC , PetronisA . Complex disease, gender and epigenetics . Ann. Med.38 ( 8 ), 530 – 544 ( 2006 ).
  • Moffatt MF , CooksonWO . The genetics of asthma. Maternal effects in atopic disease . Clin. Exp. Allergy28 ( Suppl. 1 ), 56 – 61 ; discussion 65–56 ( 1998 ).
  • Fuertes E , StandlM , Von BergAet al. Parental allergic disease before and after child birth poses similar risk for childhood allergies . Allergy70 ( 7 ), 873 – 876 ( 2015 ).
  • Ji H , Biagini MyersJM , BrandtEB , BrokampC , RyanPH , Khurana HersheyGK . Air pollution, epigenetics, and asthma . Allergy Asthma Clin. Immunol.12 , 51 ( 2016 ).
  • Harb H , Alashkar AlhamweB , GarnH , RenzH , PotaczekDP . Recent developments in epigenetics of pediatric asthma . Curr. Opin. Pediatr.28 ( 6 ), 754 – 763 ( 2016 ).
  • Begin P , NadeauKC . Epigenetic regulation of asthma and allergic disease . Allergy Asthma Clin. Immunol.10 ( 1 ), 27 ( 2014 ).
  • Rastogi D , SuzukiM , GreallyJM . Differential epigenome-wide DNA methylation patterns in childhood obesity-associated asthma . Sci. Rep.3 , 2164 ( 2013 ).
  • Nicodemus-Johnson J , NaughtonKA , SudiJet al. Genome-wide methylation study identifies an IL-13 induced epigenetic signature in asthmatic airways . Am. J. Respir. Crit. Care Med.193 ( 4 ), 376 – 385 ( 2015 ).
  • Yang IV , PedersenBS , LiuAet al. DNA methylation and childhood asthma in the inner city . J. Allergy Clin. Immunol.136 ( 1 ), 69 – 80 ( 2015 ).
  • Somineni HK , ZhangX , Biagini MyersJMet al. Ten–eleven translocation 1 (TET1) methylation is associated with childhood asthma and traffic-related air pollution . J. Allergy Clin. Immunol.137 ( 3 ), 797 – 805 ; e795 ( 2016 ).
  • Yang IV , PedersenBS , LiuAHet al. The nasal methylome and childhood atopic asthma . J. Allergy Clin. Immunol.139 ( 5 ), 1478 – 1488 ( 2016 ).
  • Yang IV , RichardsA , DavidsonEJet al. The nasal methylome: a key to understanding allergic asthma . Am. J. Respir. Crit. Care Med.195 ( 6 ), 829 – 831 ( 2017 ).
  • Nicodemus-Johnson J , MyersRA , SakabeNJet al. DNA methylation in lung cells is associated with asthma endotypes and genetic risk . JCI Insight1 ( 20 ), e90151 ( 2016 ).
  • Holgate ST . The sentinel role of the airway epithelium in asthma pathogenesis . Immunol. Rev.242 ( 1 ), 205 – 219 ( 2011 ).
  • Lambrecht BN , HammadH . Allergens and the airway epithelium response: gateway to allergic sensitization . J. Allergy Clin. Immunol.134 ( 3 ), 499 – 507 ( 2014 ).
  • Gras D , ChanezP , VachierI , PetitA , BourdinA . Bronchial epithelium as a target for innovative treatments in asthma . Pharmacol. Ther.140 ( 3 ), 290 – 305 ( 2013 ).
  • Liang L , Willis-OwenSA , LapriseCet al. An epigenome-wide association study of total serum immunoglobulin E concentration . Nature520 ( 7549 ), 670 – 674 ( 2015 ).
  • Gunawardhana LP , GibsonPG , SimpsonJL , BentonMC , LeaRA , BainesKJ . Characteristic DNA methylation profiles in peripheral blood monocytes are associated with inflammatory phenotypes of asthma . Epigenetics9 ( 9 ), 1302 – 1316 ( 2014 ).
  • Murphy TM , WongCC , ArseneaultLet al. Methylomic markers of persistent childhood asthma: a longitudinal study of asthma-discordant monozygotic twins . Clin. Epigenetics7 , 130 ( 2015 ).
  • Zhang H , TongX , HollowayJWet al. The interplay of DNA methylation over time with Th2 pathway genetic variants on asthma risk and temporal asthma transition . Clin. Epigenetics6 ( 1 ), 8 ( 2014 ).
  • Guajardo JR , SchleiferKW , DainesMOet al. Altered gene expression profiles in nasal respiratory epithelium reflect stable versus acute childhood asthma . J. Allergy Clin. Immunol.115 ( 2 ), 243 – 251 ( 2005 ).
  • Harris PA , TaylorR , ThielkeR , PayneJ , GonzalezN , CondeJG . Research electronic data capture (REDCap) – a metadata-driven methodology and workflow process for providing translational research informatics support . J. Biomed. Inform.42 ( 2 ), 377 – 381 ( 2009 ).
  • Sahu M , HuS , RyanPHet al. Chemical compositions and source identification of PM2–5 aerosols for estimation of a diesel source surrogate . Sci. Total Environ.409 ( 13 ), 2642 – 2651 ( 2011 ).
  • Ryan PH , LemastersGK , BiswasPet al. A comparison of proximity and land use regression traffic exposures and wheezing in infants . Environ. Health Perspect.115 ( 2 ), 278 – 284 ( 2007 ).
  • Barlow SE , ExpertC . Expert committee recommendations regarding the prevention, assessment, and treatment of child and adolescent overweight and obesity: summary report . Pediatrics120 ( Suppl. 4 ), S164 – S192 ( 2007 ).
  • Butsch Kovacic M , Biagini MyersJM , LindseyMet al. The greater Cincinnati pediatric clinic repository: a novel framework for childhood asthma and allergy research . Pediatr. Allergy Immunol. Pulmonol.25 ( 2 ), 104 – 113 ( 2012 ).
  • ENCODE Project Consortium . An integrated encyclopedia of DNA elements in the human genome . Nature489 ( 7414 ), 57 – 74 ( 2012 ).
  • Liu T , OrtizJA , TaingLet al. Cistrome: an integrative platform for transcriptional regulation studies . Genome Biol.12 ( 8 ), R83 ( 2011 ).
  • Portales-Casamar E , ArenillasD , LimJet al. The PAZAR database of gene regulatory information coupled to the ORCA toolkit for the study of regulatory sequences . Nucleic Acids Res.37 ( Database issue ), D54 – D60 ( 2009 ).
  • Griffon A , BarbierQ , DalinoJ , Van HeldenJ , SpicugliaS , BallesterB . Integrative analysis of public ChIP-seq experiments reveals a complex multi-cell regulatory landscape . Nucleic Acids Res.43 ( 4 ), e27 ( 2015 ).
  • Chadwick LH . The NIH Roadmap Epigenomics Program data resource . Epigenomics4 ( 3 ), 317 – 324 ( 2012 ).
  • Nguyen NM , SeniorRM . Laminin isoforms and lung development: all isoforms are not equal . Dev. Biol.294 ( 2 ), 271 – 279 ( 2006 ).
  • Saotome A , KanaiN , NagaiT , YashiroT , TokudomeS . Immunohistochemical classification of the localization of laminin in the thickened bronchial epithelial basement membrane of deceased bronchial asthma patients . Respir. Med.97 ( 6 ), 688 – 694 ( 2003 ).
  • Nguyen NM , KelleyDG , SchlueterJA , MeyerMJ , SeniorRM , MinerJH . Epithelial laminin alpha5 is necessary for distal epithelial cell maturation, VEGF production, and alveolization in the developing murine lung . Dev. Biol.282 ( 1 ), 111 – 125 ( 2005 ).
  • Lehrer RI . Immunology: peptide gets in shape for self-defence . Nature469 ( 7330 ), 309 – 310 ( 2011 ).
  • Beisswenger C , BalsR . Antimicrobial peptides in lung inflammation . Chem. Immunol. Allergy86 , 55 – 71 ( 2005 ).
  • Herr C , ShaykhievR , BalsR . The role of cathelicidin and defensins in pulmonary inflammatory diseases . Expert. Opin. Biol. Ther.7 ( 9 ), 1449 – 1461 ( 2007 ).
  • Takatsu H , BabaK , ShimaTet al. ATP9B, a P4-ATPase (a putative aminophospholipid translocase), localizes to the trans-Golgi network in a CDC50 protein-independent manner . J. Biol. Chem.286 ( 44 ), 38159 – 38167 ( 2011 ).
  • Ramirez RD , SheridanS , GirardLet al. Immortalization of human bronchial epithelial cells in the absence of viral oncoproteins . Cancer Res.64 ( 24 ), 9027 – 9034 ( 2004 ).
  • Tark-Dame M , JerabekH , MandersEM , Van Der WaterenIM , HeermannDW , Van DrielR . Depletion of the chromatin looping proteins CTCF and cohesin causes chromatin compaction: insight into chromatin folding by polymer .ling . PLoS Computational Biol.10 ( 10 ), e1003877 ( 2014 ).
  • Visel A , BlowMJ , LiZet al. ChIP-seq accurately predicts tissue-specific activity of enhancers . Nature457 ( 7231 ), 854 – 858 ( 2009 ).
  • Tompkins DH , BesnardV , LangeAWet al. Sox2 is required for maintenance and differentiation of bronchiolar Clara, ciliated, and goblet cells . PLoS ONE4 ( 12 ), e8248 ( 2009 ).
  • Kocwin M , JonakowskiM , PrzemeckaM , ZioloJ , PanekM , KunaP . The role of the TGF-SMAD signalling pathway in the etiopathogenesis of severe asthma . Pneumonol. Alergol. Pol.84 ( 5 ), 290 – 301 ( 2016 ).
  • Stritesky GL , MuthukrishnanR , SehraSet al. The transcription factor STAT3 is required for T helper 2 cell development . Immunity34 ( 1 ), 39 – 49 ( 2011 ).
  • Miglino N , RothM , TammM , BorgerP . Asthma and COPD – the C/EBP connection . Open Respir. Med. J.6 , 1 – 13 ( 2012 ).
  • Troy NM , HollamsEM , HoltPG , BoscoA . Differential gene network analysis for the identification of asthma-associated therapeutic targets in allergen-specific T-helper memory responses . BMC Med. Genomics9 , 9 ( 2016 ).
  • Amador-Arjona A , CimadamoreF , HuangCTet al. SOX2 primes the epigenetic landscape in neural precursors enabling proper gene activation during hippocampal neurogenesis . Proc. Natl Acad. Sci. USA112 ( 15 ), e1936 – e1945 ( 2015 ).
  • Guo Y , FuX , HuoBet al. GATA2 regulates GATA1 expression through LSD1-mediated histone modification . Am. J. Transl. Res.8 ( 5 ), 2265 – 2274 ( 2016 ).
  • Gokhman D , LivyatanI , SailajaBS , MelcerS , MeshorerE . Multilayered chromatin analysis reveals E2f, Smad and Zfx as transcriptional regulators of histones . Nat. Struct. Mol. Biol.20 ( 1 ), 119 – 126 ( 2013 ).
  • Ura H , UsudaM , KinoshitaKet al. STAT3 and Oct-3/4 control histone modification through induction of Eed in embryonic stem cells . J. Biol. Chem.283 ( 15 ), 9713 – 9723 ( 2008 ).
  • Guo L , LiX , HuangJXet al. Histone demethylase Kdm4b functions as a co-factor of C/EBPbeta to promote mitotic clonal expansion during differentiation of 3T3-L1 preadipocytes . Cell Death Differ.19 ( 12 ), 1917 – 1927 ( 2012 ).
  • Martinato F , CesaroniM , AmatiB , GuccioneE . Analysis of Myc-induced histone modifications on target chromatin . PLoS ONE3 ( 11 ), e3650 ( 2008 ).
  • Brunelle M , Nordell MarkovitsA , RodrigueS , LupienM , JacquesPE , GevryN . The histone variant H2A.Z is an important regulator of enhancer activity . Nucleic Acids Res.43 ( 20 ), 9742 – 9756 ( 2015 ).
  • Dalvai M , BellucciL , FleuryL , LavigneAC , MoutahirF , BystrickyK . H2A.Z-dependent crosstalk between enhancer and promoter regulates cyclin D1 expression . Oncogene32 ( 36 ), 4243 – 4251 ( 2013 ).
  • Besnard AG , GuillouN , TschoppJet al. NLRP3 inflammasome is required in murine asthma in the absence of aluminum adjuvant . Allergy66 ( 8 ), 1047 – 1057 ( 2011 ).
  • Simpson JL , PhippsS , BainesKJ , OreoKM , GunawardhanaL , GibsonPG . Elevated expression of the NLRP3 inflammasome in neutrophilic asthma . Eur. Respir. J.43 ( 4 ), 1067 – 1076 ( 2014 ).
  • Bruchard M , RebeC , DerangereVet al. The receptor NLRP3 is a transcriptional regulator of TH2 differentiation . Nat. Immunol.16 ( 8 ), 859 – 870 ( 2015 ).
  • Uh ST , KooSM , KimYet al. The activation of NLRP3-inflammsome by stimulation of diesel exhaust particles in lung tissues from emphysema model and RAW 264.7 cell line . Korean J. Intern. Med.32 ( 5 ), 865 – 874 ( 2017 ).
  • Provoost S , MaesT , PauwelsNSet al. NLRP3/caspase-1-independent IL-1beta production mediates diesel exhaust particle-induced pulmonary inflammation . J. Immunol.187 ( 6 ), 3331 – 3337 ( 2011 ).
  • Konig IR . Validation in genetic association studies . Brief Bioinform.12 ( 3 ), 253 – 258 ( 2011 ).
  • Borecki IB , ProvinceMA . Genetic and genomic discovery using family studies . Circulation118 ( 10 ), 1057 – 1063 ( 2008 ).

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