Molecular Mapping to Species Level of the Tonsillar Crypt Microbiota Associated with Health and Recurrent Tonsillitis

PLoS ONE

Volumn 8, Issue 2, 2013, Pages

  Jensen, Anders ^a   Fagö Olsen, Helena ^b   Sørensen, Christian Hjort ^b   Kilian, Mogens ^a  

^a AARHUS UNIVERSITY   (Denmark)

^b GENTOFTE UNIVERSITY HOSPITAL   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

RNA 16S;

ADULT; ARTICLE; CHILD; CLINICAL ARTICLE; CONTROLLED STUDY; DISEASE ASSOCIATION; FEMALE; FUSOBACTERIUM NECROPHORUM; GENE MAPPING; HAEMOPHILUS INFLUENZAE; HUMAN; HYPERPLASIA; MALE; MICROFLORA; NEISSERIA; PHYLOGENY; PORPHYROMONAS ENDODONTALIS; PRESCHOOL CHILD; PREVOTELLA; PREVOTELLA HISTICOLA; PREVOTELLA MELANINOGENICA; PYROSEQUENCING; RECURRENT DISEASE; RNA GENE; SEQUENCE ANALYSIS; SPECIES DIVERSITY; STAPHYLOCOCCUS AUREUS; STREPTOCOCCUS INTERMEDIUS; STREPTOCOCCUS PNEUMONIAE; TANNERELLA FORSYTHENSIS; TONSILLAR CRYPT; TONSILLITIS;

ADOLESCENT; ADULT; BASE SEQUENCE; BIODIVERSITY; CHILD, PRESCHOOL; FEMALE; GENETIC VARIATION; HEALTH; HUMANS; MALE; METAGENOME; PALATINE TONSIL; PRINCIPAL COMPONENT ANALYSIS; RECURRENCE; SPECIES SPECIFICITY; TONSILLITIS; YOUNG ADULT;

EID: 84874292052     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0056418     Document Type: Article

References (64)

1. Gill SR, Pop M, Deboy RT, Eckburg PB, Turnbaugh PJ, et al. (2006) Metagenomic analysis of the human distal gut microbiome. Science 312: 1355-1359.
2. Mazmanian SK, Liu CH, Tzianabos AO, Kasper DL, (2005) An immunomodulatory molecule of symbiotic bacteria directs maturation of the host immune system. Cell 122: 107-118.
3. Pamer EG, (2007) Immune responses to commensal and environmental microbes. Nat Immunol 8: 1173-1178.
4. Xu J, Mahowald MA, Ley RE, Lozupone CA, Hamady M, et al. (2007) Evolution of symbiotic bacteria in the distal human intestine. PLoS Biol 5: e156.
5. Gebert A, Pabst R, (1999) M cells at locations outside the gut. Semin Immunol 11: 165-170.
6. Perry M, Whyte A, (1998) Immunology of the tonsils. Immunol Today 19: 414-421.
7. Carapetis JR, Steer AC, Mulholland EK, Weber M, (2005) The global burden of group A streptococcal diseases. Lancet Infect Dis 5: 685-694.
8. Turner JC, Hayden FG, Lobo MC, Ramirez CE, Murren D, (1997) Epidemiologic evidence for Lancefield group C beta-hemolytic streptococci as a cause of exudative pharyngitis in college students. J Clin Microbiol 35: 1-4.
9. Batty A, Wren MW, (2005) Prevalence of Fusobacterium necrophorum and other upper respiratory tract pathogens isolated from throat swabs. Br J Biomed Sci 62: 66-70.
10. Jensen A, Hagelskjaer Kristensen L, Prag J, (2007) Detection of Fusobacterium necrophorum subsp. funduliforme in tonsillitis in young adults by real-time PCR. Clin Microbiol Infect 13: 695-701.
11. Brook I, (2002) Anaerobic bacteria in upper respiratory tract and other head and neck infections. Ann Oto Rhinol Laryn 111: 430-440.
12. Chole RA, Faddis BT, (2003) Anatomical evidence of microbial biofilms in tonsillar tissues: a possible mechanism to explain chronicity. Arch Otolaryngol Head Neck Surg 129: 634-636.
13. Gaffney RJ, Cafferkey MT, (1998) Bacteriology of normal and diseased tonsils assessed by fine-needle aspiration: Haemophilus influenzae and the pathogenesis of recurrent acute tonsillitis. Clin Otolaryngol Allied Sci 23: 181-185.
14. Jeong JH, Lee DW, Ryu RA, Lee YS, Lee SH, et al. (2007) Bacteriologic comparison of tonsil core in recurrent tonsillitis and tonsillar hypertrophy. Laryngoscope 117: 2146-2151.
15. Kuhn JJ, Brook I, Waters CL, Church LW, Bianchi DA, et al. (1995) Quantitative bacteriology of tonsils removed from children with tonsillitis hypertrophy and recurrent tonsillitis with and without hypertrophy. Ann Otol Rhinol Laryngol 104: 646-652.
16. Stjernquist-Desatnik A, Holst E, (1999) Tonsillar microbial flora: comparison of recurrent tonsillitis and normal tonsils. Acta Otolaryngol 119: 102-106.
17. Sogin ML, Morrison HG, Huber JA, Mark Welch D, Huse SM, et al. (2006) Microbial diversity in the deep sea and the underexplored "rare biosphere". Proc Natl Acad Sci U S A 103: 12115-12120.
18. Keijser BJ, Zaura E, Huse SM, van der Vossen JM, Schuren FH, et al. (2008) Pyrosequencing analysis of the oral microflora of healthy adults. J Dent Res 87: 1016-1020.
19. Turnbaugh PJ, Hamady M, Yatsunenko T, Cantarel BL, Duncan A, et al. (2009) A core gut microbiome in obese and lean twins. Nature 457: 480-484.
20. Wu GD, Lewis JD, Hoffmann C, Chen YY, Knight R, et al. (2010) Sampling and pyrosequencing methods for characterizing bacterial communities in the human gut using 16S sequence tags. BMC Microbiology 10: 206.
21. Zaura E, Keijser BJF, Huse SM, Crielaard W (2009) Defining the healthy "core microbiome" of oral microbial communities. BMC Microbiology 9.
22. Larsen N, Vogensen FK, van den Berg FW, Nielsen DS, Andreasen AS, et al. (2010) Gut microbiota in human adults with type 2 diabetes differs from non-diabetic adults. Plos One 5: e9085.
23. Larsen N, Vogensen FK, Gobel R, Michaelsen KF, Abu Al-Soud W, et al. (2011) Predominant genera of fecal microbiota in children with atopic dermatitis are not altered by intake of probiotic bacteria Lactobacillus acidophilus NCFM and Bifidobacterium animalis subsp. lactis Bi-07. FEMS Microbiol Ecol 75: 482-496.
24. Claesson MJ, Wang Q, O'Sullivan O, Greene-Diniz R, Cole JR, et al. (2010) Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions. Nucleic Acids Res 38: e200.
25. Schloss P, Gevers D, Westcott S, (2011) Reducing the Effects of PCR Amplification and Sequencing Artifacts on 16S rRNA-Based Studies. PloS One 6(12): e27310.
26. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, et al. (2009) Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75: 7537-7541.
27. Quince C, Lanzen A, Davenport RJ, Turnbaugh PJ, (2011) Removing noise from pyrosequenced amplicons. BMC Bioinformatics 12: 38.
28. Huse SM, Welch DM, Morrison HG, Sogin ML, (2010) Ironing out the wrinkles in the rare biosphere through improved OTU clustering. Environ Microbiol 12: 1889-1898.
29. Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R, (2011) UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27: 2194-2200.
30. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, et al. (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28: 2731-2739.
31. Scholz CF, Poulsen K, Kilian M, (2012) Novel molecular method for identification of Streptococcus pneumoniae applicable to clinical microbiology and 16S rRNA sequence-based microbiome studies. J Clin Microbiol 50: 1968-1973.
32. Dewhirst FE, Chen T, Izard J, Paster BJ, Tanner AC, et al. (2010) The human oral microbiome. J. Bacteriol. 192: 5002-5017.
33. White JR, Nagarajan N, Pop M, (2009) Statistical methods for detecting differentially abundant features in clinical metagenomic samples. PLoS computational biology 5: e1000352.
34. Quince C, Lanzen A, Curtis TP, Davenport RJ, Hall N, et al. (2009) Accurate determination of microbial diversity from 454 pyrosequencing data. Nat Methods 6: 639-641.
35. Brook I, Foote PA Jr, (1986) Comparison of the microbiology of recurrent tonsillitis between children and adults. Laryngoscope 96: 1385-1388.
36. Holt SC, Ebersole JL, (2005) Porphyromonas gingivalis, Treponema denticola, and Tannerella forsythia: the "red complex". a prototype polybacterial pathogenic consortium in periodontitis. Periodontol 2000 38: 72-122.
37. Costello EK, Lauber CL, Hamady M, Fierer N, Gordon JI, et al. (2009) Bacterial community variation in human body habitats across space and time. Science 326: 1694-1697.
38. Grice EA, Segre JA, (2011) The skin microbiome. Nat Rev Microbiol 9: 244-253.
39. Liu CM, Cosetti MK, Aziz M, Buchhagen JL, Contente-Cuomo TL, et al. (2011) The otologic microbiome: a study of the bacterial microbiota in a pediatric patient with chronic serous otitis media using 16SrRNA gene-based pyrosequencing. Arch Otolaryngol Head Neck Surg 137: 664-668.
40. Turnbaugh PJ, Ley RE, Hamady M, Fraser-Liggett CM, Knight R, et al. (2007) The human microbiome project. Nature 449: 804-810.
41. Dewhirst FE, Chen T, Izard J, Paster BJ, Tanner AC, et al. (2010) The human oral microbiome. J Bacteriol 192: 5002-5017.
42. Centor RM, (2009) Expand the pharyngitis paradigm for adolescents and young adults. Ann Intern Med 151: 812-815.
43. Sinave CP, Hardy GJ, Fardy PW, (1989) The Lemierre syndrome: suppurative thrombophlebitis of the internal jugular vein secondary to oropharyngeal infection. Medicine 68: 85-94.
44. Hagelskjaer LH, Prag J, Malczynski J, Kristensen JH, (1998) Incidence and clinical epidemiology of necrobacillosis, including Lemierre's syndrome, in Denmark 1990-1995. Eur J Clin Microbiol Infect Dis 17: 561-565.
45. Hagelskjaer Kristensen L, Prag J, (2008) Lemierre's syndrome and other disseminated Fusobacterium necrophorum infections in Denmark: a prospective epidemiological and clinical survey. Eur J Clin Microbiol Infect Dis 27: 779-789.
46. Riordan T, (2007) Human infection with Fusobacterium necrophorum (Necrobacillosis), with a focus on Lemierre's syndrome. Clin Microbiol Rev 20: 622-659.
47. Klug TE, Henriksen JJ, Fuursted K, Ovesen T, (2011) Similar recovery rates of Fusobacterium necrophorum from recurrently infected and non-infected tonsils. Dan Med Bull 58: A4295.
48. Gul M, Okur E, Ciragil P, Yildirim I, Aral M, et al. (2007) The comparison of tonsillar surface and core cultures in recurrent tonsillitis. Am J Otolaryngol 28: 173-176.
49. Stjernquist-Desatnik A, Prellner K, Schalen C, (1990) Colonization by Haemophilus influenzae and group A streptococci in recurrent acute tonsillitis and in tonsillar hypertrophy. Acta Otolaryngol 109: 314-319.
50. Murphy TF, Brauer AL, Sethi S, Kilian M, Cai X, et al. (2007) Haemophilus haemolyticus: a human respiratory tract commensal to be distinguished from Haemophilus influenzae. J Infect Dis 195: 81-89.
51. Vaughan AT, Brackenbury LS, Massari P, Davenport V, Gorringe A, et al. (2010) Neisseria lactamica selectively induces mitogenic proliferation of the naive B cell pool via cell surface Ig. J Immunol 185: 3652-3660.
52. Vaughan AT, Gorringe A, Davenport V, Williams NA, Heyderman RS, (2009) Absence of mucosal immunity in the human upper respiratory tract to the commensal bacteria Neisseria lactamica but not pathogenic Neisseria meningitidis during the peak age of nasopharyngeal carriage. J Immunol 182: 2231-2240.
53. Van Cauwenberge P, (1976) De betekenis van de "fusospirillaire associatie" (Plaut-Vincent). Acta Otorhinolaryngol Belg 30: 334-345.
54. Bik EM, Long CD, Armitage GC, Loomer P, Emerson J, et al. (2010) Bacterial diversity in the oral cavity of 10 healthy individuals. ISME J 4: 962-974.
55. Harris JK, De Groote MA, Sagel SD, Zemanick ET, Kapsner R, et al. (2007) Molecular identification of bacteria in bronchoalveolar lavage fluid from children with cystic fibrosis. Proc Natl Acad Sci U S A 104: 20529-20533.
56. Nasidze I, Li J, Quinque D, Tang K, Stoneking M, (2009) Global diversity in the human salivary microbiome. Genome Res 19: 636-643.
57. Kononen E, (2000) Development of oral bacterial flora in young children. Ann Med 32: 107-112.
58. Crielaard W, Zaura E, Schuller AA, Huse SM, Montijn RC, et al. (2011) Exploring the oral microbiota of children at various developmental stages of their dentition in the relation to their oral health. BMC Med Genomics 4.
59. de Lillo A, Booth V, Kyriacou L, Weightman AJ, Wade WG, (2004) Culture-independent identification of periodontitis-associated Porphyromonas and Tannerella populations by targeted molecular analysis. J Clin Microbiol 42: 5523-5527.
60. Brook I, Foote PA Jr, Slots J, Jackson W, (1993) Immune response to Prevotella intermedia in patients with recurrent nonstreptococcal tonsillitis. Ann Otol Rhinol Laryngol 102: 113-116.
61. Brook I, (2005) The role of anaerobic bacteria in tonsillitis. Int J Pediatr Otorhinolaryngol 69: 9-19.
62. Nord CE, (1986) Mechanisms of beta-lactam resistance in anaerobic bacteria. Rev Infect Dis 8Suppl 5: S543-548.
63. Tuner K, Nord CE (1983) Betalactamase-producing microorganisms in recurrent tonsillitis. Scand J Infect Dis Suppl 39: 83-85.
64. Brook I, (1984) The role of beta-lactamase-producing bacteria in the persistence of streptococcal tonsillar infection. Rev Infect Dis 6: 601-607.