Association Between Adult Antibiotic Use, Microbial Dysbiosis and Atopic Conditions – A Systematic Review

References

• Hutchings MI, Truman AW, Wilkinson B. Antibiotics: past, present and future. Curr Opin Microbiol. 2019;51:72–80. doi:10.1016/j.mib.2019.10.008
   PubMed Web of Science ®Google Scholar
• Pacios O, Blasco L, Bleriot I, et al. Strategies to combat multidrug-resistant and persistent infectious diseases. Antibiot Basel Switz. 2020;9(2):E65. doi:10.3390/antibiotics9020065
   PubMed Web of Science ®Google Scholar
• Renz H, Skevaki C. Early life microbial exposures and allergy risks: opportunities for prevention. Nat Rev Immunol. 2021;21(3):177–191. doi:10.1038/s41577-020-00420-y
   PubMed Web of Science ®Google Scholar
• Duong QA, Pittet LF, Curtis N, Zimmermann P. Antibiotic exposure and adverse long-term health outcomes in children: a systematic review and meta-analysis. J Infect. 2022;85(3):213–300. doi:10.1016/j.jinf.2022.01.005
   PubMed Web of Science ®Google Scholar
• Koidl L, Untersmayr E. The clinical implications of the microbiome in the development of allergy diseases. Expert Rev Clin Immunol. 2021;17(2):115–126. doi:10.1080/1744666x.2021.1874353
   PubMed Web of Science ®Google Scholar
• Kogut MH, Lee A, Santin E. Microbiome and pathogen interaction with the immune system. Poult Sci. 2020;99(4):1906–1913. doi:10.1016/j.psj.2019.12.011
   PubMed Web of Science ®Google Scholar
• Houghteling PD, Walker WA. From birth to “immunohealth”, allergies and enterocolitis. J Clin Gastroenterol. 2015;49(Suppl 1):S7–S12. doi:10.1097/mcg.0000000000000355
   PubMedGoogle Scholar
• Iebba V, Totino V, Gagliardi A, et al. Eubiosis and dysbiosis: the two sides of the microbiota. New Microbiol. 2016;39(1):1–12.
   PubMed Web of Science ®Google Scholar
• Patrick DM, Sbihi H, Dai DLY, et al. Decreasing antibiotic use, the gut microbiota, and asthma incidence in children: evidence from population-based and prospective cohort studies. Lancet Respir Med. 2020;8(11):1094–1105. doi:10.1016/S2213-2600(20)30052-7
   PubMed Web of Science ®Google Scholar
• Hutton B, Salanti G, Caldwell DM, et al. The PRISMA extension statement for reporting of systematic reviews incorporating network meta-analyses of health care interventions: checklist and explanations. Ann Intern Med. 2015;162(11):777–784. doi:10.7326/M14-2385
   PubMed Web of Science ®Google Scholar
• Page MJ, McKenzie JE, Bossuyt PM, et al. The PRISMA 2020 statement: an updated guideline for reporting systematic reviews. BMJ. 2021;372:n71. doi:10.1136/bmj.n71
   PubMed Web of Science ®Google Scholar
• Dreyer NA, Bryant A, Velentgas P. The GRACE checklist: a validated assessment tool for high quality observational studies of comparative effectiveness. J Manag Care Spec Pharm. 2016;22(10):1107–1113. doi:10.18553/jmcp.2016.22.10.1107
   PubMed Web of Science ®Google Scholar
• Panzer AR, Lynch SV. Influence and effect of the human microbiome in allergy and asthma. Curr Opin Rheumatol. 2015;27(4):373–380. doi:10.1097/BOR.0000000000000191
   PubMed Web of Science ®Google Scholar
• Kozik AJ, Huang YJ. The microbiome in asthma: role in pathogenesis, phenotype, and response to treatment. Ann Allergy Asthma Immunol. 2019;122(3):270–275. doi:10.1016/j.anai.2018.12.005
   PubMed Web of Science ®Google Scholar
• Han MK, Huang YJ, Lipuma JJ, et al. Significance of the microbiome in obstructive lung disease. Thorax. 2012;67(5):456–463. doi:10.1136/thoraxjnl-2011-201183
   PubMed Web of Science ®Google Scholar
• Martinez FD. The human microbiome. Early life determinant of health outcomes. Ann Am Thorac Soc. 2014;(Suppl 11):S7–12. doi:10.1513/AnnalsATS.201306-186MG
   PubMedGoogle Scholar
• Durack J, Christian LS, Nariya S, et al. Distinct associations of sputum and oral microbiota with atopic, immunologic, and clinical features in mild asthma. J Allergy Clin Immunol. 2020;146(5):1016–1026. doi:10.1513/AnnalsATS.201306-186MG
   PubMed Web of Science ®Google Scholar
• Van Engelen TSR, Yang J, Haak BW, et al. Gut microbiome modulation by antibiotics in adult asthma: a human proof-of-concept intervention trial. Clin Gastroenterol Hepatol off Clin Pract J Am Gastroenterol Assoc. 2022;20(6):1404–1407.e4. doi:10.1016/j.cgh.2021.07.030
   PubMed Web of Science ®Google Scholar
• Cullinan P, Harris J, Mills P, et al. Early prescriptions of antibiotics and the risk of allergic disease in adults: a cohort study. Thorax. 2004;59(1):11–15.
   PubMed Web of Science ®Google Scholar
• Durack J, Huang YJ, Nariya S, et al. Bacterial biogeography of adult airways in atopic asthma. Microbiome. 2018;6(1):104. doi:10.1186/s40168-018-0487-3
   PubMedGoogle Scholar
• Okba AM, Saber SM, Abdel-Rehim AS, Amin MM, Mohamed DA. Fecal microbiota profile in atopic asthmatic adult patients. Eur Ann Allergy Clin Immunol. 2018;50(3):117–124. doi:10.23822/EurAnnACI.1764-1489.48
   PubMed Web of Science ®Google Scholar
• Lee JJ, Kim SH, Lee MJ, et al. Different upper airway microbiome and their functional genes associated with asthma in young adults and elderly individuals. Allergy. 2019;74(4):709–719. doi:10.1111/all.13608
   PubMed Web of Science ®Google Scholar
• Wang Q, Li F, Liang B, et al. A metagenome-wide association study of gut microbiota in asthma in UK adults. BMC Microbiol. 2018;18(1):114. doi:10.1186/s12866-018-1257-x
   PubMed Web of Science ®Google Scholar
• Hua X, Goedert JJ, Pu A, Yu G, Shi J. Allergy associations with the adult fecal microbiota: analysis of the American Gut Project. EBioMedicine. 2016;3:172–179. doi:10.1016/j.ebiom.2015.11.038
   PubMed Web of Science ®Google Scholar
• Marri PR, Stern DA, Wright AL, Billheimer D, Martinez FD. Asthma-associated differences in microbial composition of induced sputum. J Allergy Clin Immunol. 2013;131(2). doi:10.1016/j.jaci.2012.11.013
   PubMed Web of Science ®Google Scholar
• Turturice BA, McGee HS, Oliver B, et al. Atopic asthmatic immune phenotypes associated with airway microbiota and airway obstruction. PLoS One. 2017;12(10):e0184566. doi:10.1371/journal.pone.0184566
   PubMed Web of Science ®Google Scholar
• Huang YJ, Nelson CE, Brodie EL, et al. Airway microbiota and bronchial hyperresponsiveness in patients with suboptimally controlled asthma. J Allergy Clin Immunol. 2011;127(2):372–381.e1–3. doi:10.1016/j.jaci.2010.10.048
   Web of Science ®Google Scholar
• Turek EM, Cox MJ, Hunter M, et al. Airway microbial communities, smoking and asthma in a general population sample. EBioMedicine. 2021;71:103538. doi:10.1016/j.ebiom.2021.103538
   PubMed Web of Science ®Google Scholar
• Buendía E, Zakzuk J, San-Juan-Vergara H, Zurek E, Ajami NJ, Caraballo L. Gut microbiota components are associated with fixed airway obstruction in asthmatic patients living in the tropics. Sci Rep. 2018;8(1):9582. doi:10.1038/s41598-018-27964-3
   PubMedGoogle Scholar
• Simpson JL, Daly J, Baines KJ, et al. Airway dysbiosis: Haemophilus influenzae and Tropheryma in poorly controlled asthma. Eur Respir J. 2016;47(3):792–800. doi:10.1183/13993003.00405-2015
   PubMed Web of Science ®Google Scholar
• Hosoki K, Nakamura A, Kainuma K, et al. Differential activation of eosinophils by bacteria associated with asthma. Int Arch Allergy Immunol. 2013;161(Suppl 2):16–22. doi:10.1159/000350338
   PubMedGoogle Scholar
• Mashiah J, Fliss-Isakov N, Sprecher E, et al. Clinical efficacy of fecal microbial transplantation treatment in adults with moderate-to-severe atopic dermatitis. Immun Inflamm Dis. 2022;10(3). doi:10.1002/iid3.570
   PubMed Web of Science ®Google Scholar
• Yang SI, Lee E, Jung YH, et al. Effect of antibiotic use and mold exposure in infancy on allergic rhinitis in susceptible adolescents. Ann Allergy Asthma Immunol. 2014;113(2):160–165.e1. doi:10.1016/j.anai.2014.05.019
   PubMed Web of Science ®Google Scholar
• Collins English Dictionary. Bacterial Load. HarperCollins Publishers. Available from: https://www.collinsdictionary.com/us/dictionary/english/bacterial-load. Accessed December 26, 2022.
   Google Scholar
• Bisgaard H, Hermansen MN, Buchvald F, et al. Childhood asthma after bacterial colonization of the airway in neonates. N Engl J Med. 2007;357(15):1487–1495. doi:10.1056/nejmoa052632
   PubMed Web of Science ®Google Scholar
• Pascal M, Perez-Gordo M, Caballero T, et al. Microbiome and allergic diseases. Front Immunol. 2018;9:1584. doi:10.3389/fimmu.2018.01584
   PubMed Web of Science ®Google Scholar
• Ahmed B, Cox MJ, Cuthbertson L, et al. Comparison of the upper and lower airway microbiota in children with chronic lung diseases. PLoS One. 2018;13(8):e0201156. doi:10.1371/journal.pone.0201156
   PubMed Web of Science ®Google Scholar
• An SQ, Warris A, Turner S. Microbiome characteristics of induced sputum compared to bronchial fluid and upper airway samples. Pediatr Pulmonol. 2018;53(7):921–928. doi:10.1002/ppul.24037
   PubMed Web of Science ®Google Scholar
• Pérez-Losada M, Crandall KA, Freishtat RJ. Two sampling methods yield distinct microbial signatures in the nasopharynges of asthmatic children. Microbiome. 2016;4(1):25. doi:10.1186/s40168-016-0170-5
   PubMedGoogle Scholar
• Gómez-Martín M, Saturio S, Arboleya S, et al. Association between diet and fecal microbiota along the first year of life. Food Res Int. 2022;162:111994. doi:10.1016/j.foodres.2022.111994
   PubMed Web of Science ®Google Scholar
• Hilty M, Burke C, Pedro H, et al. Disordered microbial communities in asthmatic airways. PLoS One. 2010;5(1):e8578. doi:10.1371/journal.pone.0008578
   PubMed Web of Science ®Google Scholar
• Björkstén B, Sepp E, Julge K, Voor T, Mikelsaar M. Allergy development and the intestinal microflora during the first year of life. J Allergy Clin Immunol. 2001;108(4):516–520. doi:10.1067/mai.2001.118130
   PubMed Web of Science ®Google Scholar
• Chung KF. Airway microbial dysbiosis in asthmatic patients: a target for prevention and treatment? J Allergy Clin Immunol. 2017;139(4):1071–1081. doi:10.1016/j.jaci.2017.02.004
   PubMed Web of Science ®Google Scholar
• Green BJ, Wiriyachaiporn S, Grainge C, et al. Potentially pathogenic airway bacteria and neutrophilic inflammation in treatment resistant severe asthma. PLoS One. 2014;9(6):e100645. doi:10.1371/journal.pone.0100645
   PubMed Web of Science ®Google Scholar
• Ipci K, Altıntoprak N, Muluk NB, Senturk M, Cingi C. The possible mechanisms of the human microbiome in allergic diseases. Head Neck Surg. 2017;274(2):617–626. doi:10.1007/s00405-016-4058-6
   Google Scholar
• Lunjani N, Satitsuksanoa P, Lukasik Z, Sokolowska M, Eiwegger T, O’Mahony L. Recent developments and highlights in mechanisms of allergic diseases: microbiome. Allergy. 2018;73(12):2314–2327. doi:10.1111/all.13634
   PubMed Web of Science ®Google Scholar
• Dethlefsen L, Relman DA. Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation. Proc Natl Acad Sci USA. 2011;108(Suppl 1):4554–4561. doi:10.1073/pnas.1000087107
   PubMed Web of Science ®Google Scholar
• Dethlefsen L, Huse S, Sogin ML, Relman DA. The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing. PLoS Biol. 2008;6(11):e280. doi:10.1371/journal.pbio.0060280
   PubMed Web of Science ®Google Scholar
• Marra F, Lynd L, Coombes M, et al. Does antibiotic exposure during infancy lead to development of asthma?: a systematic review and meta analysis. Chest. 2006;129(3):610–618. doi:10.1378/chest.129.3.610
   PubMed Web of Science ®Google Scholar
• Celedón JC, Fuhlbrigge A, Rifas-Shiman S, Weiss ST, Finkelstein JA. Antibiotic use in the first year of life and asthma in early childhood. Clin Exp Allergy J Br Soc Allergy Clin Immunol. 2004;34(7):1011–1016. doi:10.1111/j.1365-2222.2004.01994.x
   PubMed Web of Science ®Google Scholar
• Yamamoto-Hanada K, Yang L, Narita M, Saito H, Ohya Y. Influence of antibiotic use in early childhood on asthma and allergic diseases at age 5. Ann Allergy Asthma Immunol off Publ Am Coll Allergy Asthma Immunol. 2017;119(1):54–58. doi:10.1016/j.anai.2017.05.013
   PubMed Web of Science ®Google Scholar
• Donovan BM, Abreo A, Ding T, et al. Dose, Timing, and Type of Infant Antibiotic Use and the Risk of Childhood Asthma. Clin Infect Dis. 2020;70(8):1658–1665. doi:10.1093/cid/ciz448
   PubMed Web of Science ®Google Scholar
• Eftekharivash L, Hamedi J, Zarrini G, Bakhtiari R. Acidophilic and acid tolerant actinobacteria as new sources of antimicrobial agents against Helicobacter pylori. Arch Razi Inst. 2021;76(2):261–272. doi:10.22092/ari.2019.128039.1401
   PubMedGoogle Scholar
• Stewardson AJ, Gaïa N, François P, et al. Collateral damage from oral ciprofloxacin versus nitrofurantoin in outpatients with urinary tract infections: a culture-free analysis of gut microbiota. Clin Microbiol Infect off Publ Eur Soc Clin Microbiol Infect Dis. 2015;21(4):344.e1–11. doi:10.1016/j.cmi.2014.11.016
   PubMed Web of Science ®Google Scholar
• Slater M, Rivett DW, Williams L, et al. The impact of azithromycin therapy on the airway microbiota in asthma. Thorax. 2014;69(7):673–674. doi:10.1136/thoraxjnl-2013-204517
   PubMed Web of Science ®Google Scholar
• Taylor SL, Leong LEX, Mobegi FM, et al. Long-term azithromycin reduces Haemophilus influenzae and increases antibiotic resistance in severe asthma. Am J Respir Crit Care Med. 2019;200(3):309–317. doi:10.1164/rccm.201809-1739OC
   PubMed Web of Science ®Google Scholar
• Jakobsson HE, Jernberg C, Andersson AF, Sjölund-Karlsson M, Jansson JK, Engstrand L. Short-term antibiotic treatment has differing long-term impacts on the human throat and gut microbiome. PLoS One. 2010;5(3):e9836. doi:10.1371/journal.pone.0009836
   PubMed Web of Science ®Google Scholar
• De La Cochetière MF, Durand T, Lepage P, Bourreille A, Galmiche JP, Doré J. Resilience of the dominant human fecal microbiota upon short-course antibiotic challenge. J Clin Microbiol. 2005;43(11):5588–5592. doi:10.1128/JCM.43.11.5588-5592.2005
   PubMed Web of Science ®Google Scholar
• Zimmermann P, Curtis N. The effect of antibiotics on the composition of the intestinal microbiota - A systematic review. J Infect. 2019;79(6):471–489. doi:10.1016/j.jinf.2019.10.008
   PubMed Web of Science ®Google Scholar
• Legatzki A, Rösler B, von Mutius E. Microbiome diversity and asthma and allergy risk. Curr Allergy Asthma Rep. 2014;14(10):466. doi:10.1007/s11882-014-0466-0
   PubMed Web of Science ®Google Scholar
• Kuo CH, Kuo HF, Huang CH, Yang SN, Lee MS, Hung CH. Early life exposure to antibiotics and the risk of childhood allergic diseases: an update from the perspective of the hygiene hypothesis. J Microbiol Immunol Infect Wei Mian Yu Gan Ran Za Zhi. 2013;46(5):320–329. doi:10.1016/j.jmii.2013.04.005
   PubMed Web of Science ®Google Scholar
• Belkaid Y, Harrison OJ. Homeostatic immunity and the microbiota. Immunity. 2017;46(4):562. doi:10.1016/j.immuni.2017.04.008
   PubMed Web of Science ®Google Scholar
• Parkin J, Cohen B. An overview of the immune system. Lancet Lond Engl. 2001;357:9270. doi:10.1016/S0140-6736(00)04904-7
   Web of Science ®Google Scholar
• Marchesi JR, Adams DH, Fava F, et al. The gut microbiota and host health: a new clinical frontier. Gut. 2016;65(2):330–339. doi:10.1136/gutjnl-2015-309990
   PubMed Web of Science ®Google Scholar
• Levy M, Blacher E, Elinav E. Microbiome, metabolites and host immunity. Curr Opin Microbiol. 2017;35:8–15. doi:10.1016/j.mib.2016.10.003
   PubMed Web of Science ®Google Scholar
• Rackaityte E, Lynch SV. The human microbiome in the 21st century. Nat Commun. 2020;11(1):5256. doi:10.1038/s41467-020-18983-8
   PubMed Web of Science ®Google Scholar
• Kumari M, Kozyrskyj AL. Gut microbial metabolism defines host metabolism: an emerging perspective in obesity and allergic inflammation. Obes Rev off J Int Assoc Study Obes. 2017;18(1):18–31. doi:10.1111/obr.12484
   Google Scholar
• Roduit C, Frei R, Depner M, et al. Increased food diversity in the first year of life is inversely associated with allergic diseases. J Allergy Clin Immunol. 2014;133(4):1056–1064. doi:10.1016/j.jaci.2013.12.1044
   PubMed Web of Science ®Google Scholar
• Fujimura KE, Sitarik AR, Havstad S, et al. Neonatal gut microbiota associates with childhood multisensitized atopy and T cell differentiation. Nat Med. 2016;22(10):1187–1191. doi:10.1038/nm.4176
   PubMed Web of Science ®Google Scholar
• Lozupone CA, Stombaugh J, Gonzalez A, et al. Meta-analyses of studies of the human microbiota. Genome Res. 2013;23(10):1704–1714. doi:10.1101/gr.151803.112
   PubMed Web of Science ®Google Scholar
• Sunagawa S, Schloissnig S, Arumugam M, et al. Individuality and temporal stability of the human gut microbiome. Cent Asian J Glob Health. 2013;2(Suppl):120. doi:10.5195/cajgh.2013.120
   PubMedGoogle Scholar
• Stiemsma LT, Turvey SE. Asthma and the microbiome: defining the critical window in early life. Allergy Asthma Clin Immunol off J Can Soc Allergy Clin Immunol. 2017;13:3. doi:10.1186/s13223-016-0173-6
   Web of Science ®Google Scholar
• Arrieta MC, Stiemsma LT, Dimitriu PA, et al. Early infancy microbial and metabolic alterations affect risk of childhood asthma. Sci Transl Med. 2015;7(307):307ra152. doi:10.1126/scitranslmed.aab2271
   PubMed Web of Science ®Google Scholar
• Abrahamsson TR, Jakobsson HE, Andersson AF, Björkstén B, Engstrand L, Jenmalm MC. Low gut microbiota diversity in early infancy precedes asthma at school age. Clin Exp Allergy J Br Soc Allergy Clin Immunol. 2014;44(6):842–850. doi:10.1111/cea.12253
   PubMed Web of Science ®Google Scholar
• Cahenzli J, Köller Y, Wyss M, Geuking MB, McCoy KD. Intestinal microbial diversity during early-life colonization shapes long-term IgE levels. Cell Host Microbe. 2013;14(5):559–570. doi:10.1016/j.chom.2013.10.004
   PubMed Web of Science ®Google Scholar
• Pérez-Losada M, Alamri L, Crandall KA, Freishtat RJ. Nasopharyngeal microbiome diversity changes over time in children with asthma. PLoS One. 2017;12(1):e0170543. doi:10.1371/journal.pone.0170543
   PubMed Web of Science ®Google Scholar
• Stiemsma LT, Arrieta MC, Dimitriu PA, et al. Shifts in Lachnospira and Clostridium sp. in the 3-month stool microbiome are associated with preschool age asthma. Clin Sci Lond Engl. 2016;130(23):2199–2207. doi:10.1042/CS20160349
   PubMed Web of Science ®Google Scholar
• Santacroce L, Man A, Charitos IA, Haxhirexha K, Topi S. Current knowledge about the connection between health status and gut microbiota from birth to elderly. A narrative review. Front Biosci Landmark Ed. 2021;26(6):135–148. doi:10.52586/4930
   PubMed Web of Science ®Google Scholar
• Nash MJ, Frank DN, Friedman JE. Early microbes modify immune system development and metabolic homeostasis—the “restaurant” hypothesis revisited. Front Endocrinol. 2017;8:349. doi:10.3389/fendo.2017.00349
   PubMed Web of Science ®Google Scholar
• Ouwehand A, Isolauri E, Salminen S. The role of the intestinal microflora for the development of the immune system in early childhood. Eur J Nutr. 2002;41(Suppl 1):I32–37. doi:10.1007/s00394-002-1105-4
   PubMedGoogle Scholar
• Durack J, Lynch SV, Nariya S, et al. Features of the bronchial bacterial microbiome associated with atopy, asthma, and responsiveness to inhaled corticosteroid treatment. J Allergy Clin Immunol. 2017;140(1):63–75. doi:10.1016/j.jaci.2016.08.055
   PubMed Web of Science ®Google Scholar
• Huang C, Yu Y, Du W, et al. Insights into gut microbiome and its functional pathways in asthma patients through high-throughput sequencing. Future Microbiol. 2021;16:421–438. doi:10.2217/fmb-2020-0101
   PubMed Web of Science ®Google Scholar
• Toraldo DM, Rizzo E, Conte L. Effects of inhaled corticosteroids (ICS) on lung microbiota and local immune response in long-term treatment of chronic obstructive pulmonary disease (COPD): utility of titration and therapeutic index. Naunyn Schmiedebergs Arch Pharmacol. 2022;395(7):849–858. doi:10.1007/s00210-022-02237-z
   PubMed Web of Science ®Google Scholar
• Anderson M, Clift C, Schulze K, et al. Averting the AMR crisis: what are the avenues for policy action for countries in Europe? European Observatory on Health Systems and Policies; 2019. Available from: http://www.ncbi.nlm.nih.gov/books/NBK543406/. Accessed November 9, 2022.
   Google Scholar
• Versporten A, Zarb P, Caniaux I, et al. Antimicrobial consumption and resistance in adult hospital inpatients in 53 countries: results of an internet-based global point prevalence survey. Lancet Glob Health. 2018;6(6):e619–e629. doi:10.1016/S2214-109X(18)30186-4
   PubMed Web of Science ®Google Scholar
• Wensel CR, Pluznick JL, Salzberg SL, Sears CL. Next-generation sequencing: insights to advance clinical investigations of the microbiome. J Clin Invest. 2022;132(7):e154944. doi:10.1172/JCI154944
   PubMed Web of Science ®Google Scholar