2018 Section 5 - Rhinology and Allergic Disorders

Bacterial microbiota in healthy, AR and CRS Subjects

31. Aurora R, Chatterjee D, Hentzleman J, Prasad G, Sindwani R, Sanford T. Contrasting the microbiomes from healthy volunteers and patients with chronic rhinosinusitis. JAMA Otolaryngol Head Neck Surg . 2013;139:1328–1338. 32. Brook I. Bacteriology of chronic sinusitis and acute exacerbation of chronic sinusitis. Arch Otolaryngol Head Neck Surg . 2006;132:1099–1101. 33. Brook I. Microbiology of chronic rhinosinusitis. Eur J Clin Microbiol Infect Dis . 2016;35:1059–1068. 34. Liu Q, Lu X, Bo M, Qing H, Wang X, Zhang L. The microbiology of chronic rhinosinusitis with and with- out nasal polyps. Acta Otolaryngol . 2014;134:1251– 1258. 35. Van Zele T, Gevaert P, Watelet J-B, et al. Staphylococ- cus aureus colonization and IgE antibody formation to enterotoxins is increased in nasal polyposis. J Allergy Clin Immunol . 2004;114:981–983. 36. Joss TV, Burke CM, Hudson BJ, et al. Bacterial com- munities vary between sinuses in chronic rhinosinusitis patients. Front Microbiol . 2016;6:1–11. 37. Teo SM, Mok D, Pham K, et al. The infant nasopha- ryngeal microbiome impacts severity of lower respi- ratory infection and risk of asthma development. Cell Host Microbe . 2015;17:704–715. 38. Kalcioglu MT, Durmaz B, Aktas E, Ozturan O, Durmaz R. Bacteriology of chronic maxillary sinusi- tis and normal maxillary sinuses: using culture and multiplex polymerase chain reaction. Am J Rhinol . 2003;17:143–147. 39. Choi CH, Poroyko V, Watanabe S, et al. Seasonal allergic rhinitis affects sinonasal microbiota. Am J Rhinol Allergy . 2014;28:281–286. 40. Tomassen P, Vandeplas G, Van Zele T, et al. In- flammatory endotypes of chronic rhinosinusitis based on cluster analysis of biomarkers. J Allergy Clin Im- munol . 2016;137:1449–1456.e4. 41. Kozarewa I, Turner D. 96-Plex molecular barcod- ing for the Illumina Genome Analyzer. In: Kwon YM, Ricke SC, eds. High-Throughput Next Genera- tion Sequencing . Vol 733. New York: Humana Press; 2011:279–298. Methods in Molecular Biology.

19. Thompson GR, Tuscano JM, Dennis M, et al. A mi- crobiome assessment of medical marijuana. Clin Mi- crobiol Infect . 2017;23(4):269–270. 20. St John J. SeqPrep tool for stripping adaptors and/or merging paired reads with overlap into single reads. https://github.com/jstjohn/SeqPrep. Accessed February 28, 2017. 21. Caporaso JG, Kuczynski J, Stombaugh J, et al. QI- IME allows analysis of high-throughput community sequencing data. Nat Methods . 2010;7:335–336. 22. Caporaso JG, Bittinger K, Bushman FD, DeSantis TZ, Andersen GL, Knight R. PyNAST: a flexible tool for aligning sequences to a template alignment. Bioinfor- matics . 2010;26:266–267. 23. Caporaso JG, Kuczynski J, Stombaugh J, et al. QI- IME allows analysis of high-throughput commu- nity sequencing data intensity normalization improves color calling in SOLiD sequencing. Nat Methods . 2010;7:335–336. 24. V´azquez-Baeza Y, Pirrung M, Gonzalez A, et al. EM- Peror: a tool for visualizing high-throughput microbial community data. Gigascience . 2013;2:16. 25. Dixon P. VEGAN, a package of R functions for com- munity ecology. J Veg Sci . 2003;14:927–930. 26. Anderson MJ. A new method for non-parametric multivariate analysis of variance. Austral Ecol . 2001;26:32–46. 27. Gonzalez A, Stombaugh J, Lauber CL, Fierer N, Knight R. SitePainter: a tool for exploring bio- geographical patterns. Bioinformatics . 2012;28:436- 438. 28. Storey JD. A direct approach to false discovery rates. J R Stat Soc Series B Stat Methodol . 2002;64:479- 498. 29. Bose S, Grammer LC, Peters AT. Infectious chronic rhinosinusitis. J Allergy Clin Immunol Pract . 2016;4:584–589. 30. Cleland EJ, Bassiouni A, Vreugde S, Wormald PJ. The bacterial microbiome in chronic rhinosinusitis: rich- ness, diversity, postoperative changes, and patient out- comes. Am J Rhinol Allergy . 2016;30:37–43.

8. Ramakrishnan VR, Hauser LJ, Feazel LM, Ir D, Robertson CE, Frank DN. Sinus microbiota varies among chronic rhinosinusitis phenotypes and pre- dicts surgical outcome. J Allergy Clin Immunol . 2015; 136:334–342.e1. 9. Hoggard M, Biswas K, Zoing M, Wagner Mackenzie B, Taylor MW, Douglas RG. Evidence of microbiota dysbiosis in chronic rhinosinusitis. Int Forum Allergy Rhinol . 2017;7(3):230–239. 10. Wagenmann M, Naclerio RM. Anatomic and physi- ologic considerations in sinusitis. J Allergy Clin Im- munol . 1992;90:419–423. 11. Chandra RK, Pearlman A, Conley DB, Kern RC, Chang D. Significance of osteomeatal complex ob- struction. J Otolaryngol Head Neck Surg . 2010; 39:171–174. 12. Bassiouni A, Cleland EJ, Psaltis AJ, Vreugde S, Wormald PJ. Sinonasal microbiome sampling: a com- parison of techniques. PLoS One . 2015;10:1–13. 13. Rosenfeld R, Andes D, Bhattacharyya N, et al. Clinical practice guideline: adult sinusitis. Otolaryngol Head Neck Surg . 2007;137:S1–S31. 14. Lund VJ, Kennedy DW. Quantification for staging si- nusitis. The Staging and Therapy Group. Ann Otol Rhinol Laryngol Suppl . 1995;167:17–21. 15. Hopkins C, Gillett S, Slack R, Lund VJ, Browne JP. Psychometric validity of the 22-item Sinonasal Outcome Test. Clin Otolaryngol . 2009;34:447- 454. 16. Liu CM, Soldanova K, Nordstrom L, et al. Medical therapy reduces microbiota diversity and evenness in surgically recalcitrant chronic rhinosinusitis. Int Fo- rum Allergy Rhinol . 2013;3:775–781. 17. Klindworth A, Pruesse E, Schweer T, et al. Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diver- sity studies. Nucleic Acids Res . 2013;41:e1. 18. Colman RE, Schupp JM, Hicks ND, et al. Detection of low-level mixed-population drug resistance in My- cobacterium tuberculosis using high fidelity amplicon sequencing. PLoS One . 2015;10:e0126626.

International Forum of Allergy & Rhinology, Vol. 00, No. 0, xxxx 2017

60