메뉴 건너뛰기




Volumn 9, Issue 5, 2014, Pages

Erratum: Microbial community profiling of human saliva using shotgun metagenomic sequencing (PLoS ONE (2014) 9, 5, (e97699) DOI:10.1371/journal.pone.0097699);Microbial community profiling of human saliva using shotgun metagenomic sequencing

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ADULT; ARTICLE; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; COMPUTER PROGRAM; CONTROLLED STUDY; GAMMAPROTEOBACTERIA; HAEMOPHILUS INFLUENZAE; HUMAN; INTERMETHOD COMPARISON; METAGENOMICS; MICROBIAL COMMUNITY; MICROBIOME; NEISSERIA MENINGITIDIS; NONHUMAN; NORMAL HUMAN; SALIVA ANALYSIS; SEQUENCE ANALYSIS; SPECIES COMPOSITION; STREPTOCOCCUS PNEUMONIAE; WHOLE GENOME SHOTGUN SEQUENCING; CLINICAL TRIAL; DNA SEQUENCE; FEMALE; GENETICS; MALE; METAGENOME; MICROBIOLOGY; MICROFLORA; PROCEDURES; SALIVA;

EID: 84901332690     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0106124     Document Type: Erratum
Times cited : (151)

References (73)
  • 1
    • 0023444018 scopus 로고
    • Difficulties encountered in the search for the etiologic agents of destructive periodontal diseases
    • Socransky SS, Haffajee AD, Smith GL, Dzink JL (1987) Difficulties encountered in the search for the etiologic agents of destructive periodontal diseases. J Clin Periodontol 14: 588-593.
    • (1987) J Clin Periodontol , vol.14 , pp. 588-593
    • Socransky, S.S.1    Haffajee, A.D.2    Smith, G.L.3    Dzink, J.L.4
  • 2
    • 0028457308 scopus 로고
    • Microbial etiological agents of destructive periodontal diseases
    • Haffajee AD, Socransky SS (1994) Microbial etiological agents of destructive periodontal diseases. Periodontol 2000 5: 78-111.
    • (1994) Periodontol 2000 , vol.5 , pp. 78-111
    • Haffajee, A.D.1    Socransky, S.S.2
  • 3
  • 4
    • 84866174523 scopus 로고    scopus 로고
    • Genomic approaches to studying the human microbiota
    • Weinstock GM (2012) Genomic approaches to studying the human microbiota. Nature 489: 250-256.
    • (2012) Nature , vol.489 , pp. 250-256
    • Weinstock, G.M.1
  • 5
  • 6
    • 84863022950 scopus 로고    scopus 로고
    • Genomic analysis identifies association of Fusobacterium with colorectal carcinoma
    • Kostic AD, Gevers D, Pedamallu CS, Michaud M, Duke F, et al. (2012) Genomic analysis identifies association of Fusobacterium with colorectal carcinoma. Genome Res 22: 292-298.
    • (2012) Genome Res , vol.22 , pp. 292-298
    • Kostic, A.D.1    Gevers, D.2    Pedamallu, C.S.3    Michaud, M.4    Duke, F.5
  • 7
    • 79953733693 scopus 로고    scopus 로고
    • Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease
    • Wang Z, Klipfell E, Bennett BJ, Koeth R, Levison BS, et al. (2011) Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease. Nature 472: 57-63.
    • (2011) Nature , vol.472 , pp. 57-63
    • Wang, Z.1    Klipfell, E.2    Bennett, B.J.3    Koeth, R.4    Levison, B.S.5
  • 8
    • 77950353786 scopus 로고    scopus 로고
    • Homeostasis and inflammation in the intestine
    • Garrett WS, Gordon JI, Glimcher LH (2010) Homeostasis and inflammation in the intestine. Cell 140: 859-870.
    • (2010) Cell , vol.140 , pp. 859-870
    • Garrett, W.S.1    Gordon, J.I.2    Glimcher, L.H.3
  • 9
    • 33845874101 scopus 로고    scopus 로고
    • An obesity-associated gut microbiome with increased capacity for energy harvest
    • DOI 10.1038/nature05414, PII NATURE05414
    • Turnbaugh PJ, Ley RE, Mahowald MA, Magrini V, Mardis ER, et al. (2006) An obesity-associated gut microbiome with increased capacity for energy harvest. Nature 444: 1027-1031. (Pubitemid 46018515)
    • (2006) Nature , vol.444 , Issue.7122 , pp. 1027-1031
    • Turnbaugh, P.J.1    Ley, R.E.2    Mahowald, M.A.3    Magrini, V.4    Mardis, E.R.5    Gordon, J.I.6
  • 10
    • 84880860692 scopus 로고    scopus 로고
    • Intestinal bacteria modify lymphoma incidence and latency by affecting systemic inflammatory state, oxidative stress, and leukocyte genotoxicity
    • Yamamoto ML, Maier I, Dang AT, Berry D, Liu J, et al. (2013) Intestinal bacteria modify lymphoma incidence and latency by affecting systemic inflammatory state, oxidative stress, and leukocyte genotoxicity. Cancer Res 73: 4222-4232.
    • (2013) Cancer Res , vol.73 , pp. 4222-4232
    • Yamamoto, M.L.1    Maier, I.2    Dang, A.T.3    Berry, D.4    Liu, J.5
  • 12
    • 84873708523 scopus 로고    scopus 로고
    • The oral microbiome in health and disease
    • Wade WG (2013) The oral microbiome in health and disease. Pharmacol Res 69: 137-143.
    • (2013) Pharmacol Res , vol.69 , pp. 137-143
    • Wade, W.G.1
  • 15
    • 27344434131 scopus 로고    scopus 로고
    • The salivary microbiota as a diagnostic indicator of oral cancer: A descriptive, non-randomized study of cancer-free and oral squamous cell carcinoma subjects
    • Mager DL, Haffajee AD, Devlin PM, Norris CM, Posner MR, et al. (2005) The salivary microbiota as a diagnostic indicator of oral cancer: a descriptive, non-randomized study of cancer-free and oral squamous cell carcinoma subjects. J Transl Med 3: 27.
    • (2005) J Transl Med , vol.3 , pp. 27
    • Mager, D.L.1    Haffajee, A.D.2    Devlin, P.M.3    Norris, C.M.4    Posner, M.R.5
  • 16
    • 78650059352 scopus 로고    scopus 로고
    • Bacterial and viral pathogens in saliva: Disease relationship and infectious risk
    • Slots J, Slots H (2011) Bacterial and viral pathogens in saliva: disease relationship and infectious risk. Periodontol 2000 55: 48-69.
    • (2011) Periodontol 2000 , vol.55 , pp. 48-69
    • Slots, J.1    Slots, H.2
  • 18
    • 0031726159 scopus 로고    scopus 로고
    • Detection of Mycoplasma salivarium and Mycoplasma fermentans in synovial fluids of temporomandibular joints of patients with disorders in the joints
    • DOI 10.1016/S0928-8244(98)00095-9, PII S0928824498000959
    • Watanabe T, Shibata K, Yoshikawa T, Dong L, Hasebe A, et al. (1998) Detection of Mycoplasma salivarium and Mycoplasma fermentans in synovial fluids of temporomandibular joints of patients with disorders in the joints. FEMS Immunol Med Microbiol 22: 241-246. (Pubitemid 28535073)
    • (1998) FEMS Immunology and Medical Microbiology , vol.22 , Issue.3 , pp. 241-246
    • Watanabe, T.1    Shibata, K.-I.2    Yoshikawa, T.3    Dong, L.4    Hasebe, A.5    Domon, H.6    Kobayashi, T.7    Totsuka, Y.8
  • 19
    • 0034626423 scopus 로고    scopus 로고
    • Periodontal disease and risk of cerebrovascular disease: The first national health and nutrition examination survey and its follow-up study
    • Wu T, Trevisan M, Genco RJ, Dorn JP, Falkner KL, et al. (2000) Periodontal disease and risk of cerebrovascular disease: the first national health and nutrition examination survey and its follow-up study. Arch Intern Med 160: 2749-2755.
    • (2000) Arch Intern Med , vol.160 , pp. 2749-2755
    • Wu, T.1    Trevisan, M.2    Genco, R.J.3    Dorn, J.P.4    Falkner, K.L.5
  • 22
    • 69949120119 scopus 로고    scopus 로고
    • Comparisons of subgingival microbial profiles of refractory periodontitis, severe periodontitis, and periodontal health using the human oral microbe identification microarray
    • Colombo AP, Boches SK, Cotton SL, Goodson JM, Kent R, et al. (2009) Comparisons of subgingival microbial profiles of refractory periodontitis, severe periodontitis, and periodontal health using the human oral microbe identification microarray. J Periodontol 80: 1421-1432.
    • (2009) J Periodontol , vol.80 , pp. 1421-1432
    • Colombo, A.P.1    Boches, S.K.2    Cotton, S.L.3    Goodson, J.M.4    Kent, R.5
  • 23
    • 79952201936 scopus 로고    scopus 로고
    • Exploring the oral microbiota of children at various developmental stages of their dentition in the relation to their oral health
    • 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: 22.
    • (2011) BMC Med Genomics , vol.4 , pp. 22
    • Crielaard, W.1    Zaura, E.2    Schuller, A.A.3    Huse, S.M.4    Montijn, R.C.5
  • 27
    • 9344222124 scopus 로고    scopus 로고
    • Brain metastasis of hepatocellular carcinoma detected after liver transplantation
    • Franca AV, Martinelli A, Silva OC Jr (2004) Brain metastasis of hepatocellular carcinoma detected after liver transplantation. Arq Gastroenterol 41: 199-201. (Pubitemid 40030140)
    • (2004) Arquivos de Gastroenterologia , vol.41 , Issue.3 , pp. 199-201
    • Franca, A.V.C.1    Martinelli, A.2    Silva Jr., O.C.E.3
  • 28
    • 0037226509 scopus 로고    scopus 로고
    • Periodontal disease, tooth loss, and incidence of ischemic stroke
    • DOI 10.1161/01.STR.0000052974.79428.0C
    • Joshipura KJ, Hung HC, Rimm EB, Willett WC, Ascherio A (2003) Periodontal disease, tooth loss, and incidence of ischemic stroke. Stroke 34: 47-52. (Pubitemid 36070799)
    • (2003) Stroke , vol.34 , Issue.1 , pp. 47-52
    • Joshipura, K.J.1    Hung, H.-C.2    Rimm, E.B.3    Willett, W.C.4    Ascherio, A.5
  • 29
    • 28644450804 scopus 로고    scopus 로고
    • A proposed model linking inflammation to obesity, diabetes, and periodontal infections
    • DOI 10.1902/jop.2005.76.11-S.2075
    • Genco RJ, Grossi SG, Ho A, Nishimura F, Murayama Y (2005) A proposed model linking inflammation to obesity, diabetes, and periodontal infections. J Periodontol 76: 2075-2084. (Pubitemid 41748956)
    • (2005) Journal of Periodontology , vol.76 , Issue.11 SUPPL. , pp. 2075-2084
    • Genco, R.J.1    Grossi, S.G.2    Ho, A.3    Nishimura, F.4    Murayama, Y.5
  • 31
    • 42449126712 scopus 로고    scopus 로고
    • Oral health and mortality risk from pneumonia in the elderly
    • Awano S, Ansai T, Takata Y, Soh I, Akifusa S, et al. (2008) Oral health and mortality risk from pneumonia in the elderly. J Dent Res 87: 334-339.
    • (2008) J Dent Res , vol.87 , pp. 334-339
    • Awano, S.1    Ansai, T.2    Takata, Y.3    Soh, I.4    Akifusa, S.5
  • 34
    • 84988012964 scopus 로고    scopus 로고
    • The salivary microbiome, assessed by a high-throughput and culture-independent approach
    • Lazarevic V, Whiteson K, François P, Schrenzel J (2010) The salivary microbiome, assessed by a high-throughput and culture-independent approach. Journal of Integrated OMICS 1: 28-35.
    • (2010) Journal of Integrated OMICS , vol.1 , pp. 28-35
    • Lazarevic, V.1    Whiteson, K.2    François, P.3    Schrenzel, J.4
  • 35
    • 80051514697 scopus 로고    scopus 로고
    • Comparative analysis of salivary bacterial microbiome diversity in edentulous infants and their mothers or primary care givers using pyrosequencing
    • Cephas KD, Kim J, Mathai RA, Barry KA, Dowd SE, et al. (2011) Comparative analysis of salivary bacterial microbiome diversity in edentulous infants and their mothers or primary care givers using pyrosequencing. PLoS One 6: e23503.
    • (2011) PLoS One , vol.6
    • Cephas, K.D.1    Kim, J.2    Mathai, R.A.3    Barry, K.A.4    Dowd, S.E.5
  • 37
    • 34548324635 scopus 로고    scopus 로고
    • Human saliva proteome analysis and disease biomarker discovery
    • DOI 10.1586/14789450.4.4.531
    • Hu S, Loo JA, Wong DT (2007) Human saliva proteome analysis and disease biomarker discovery. Expert Rev Proteomics 4: 531-538. (Pubitemid 47347600)
    • (2007) Expert Review of Proteomics , vol.4 , Issue.4 , pp. 531-538
    • Hu, S.1    Loo, J.A.2    Wong, D.T.3
  • 38
    • 78649404957 scopus 로고    scopus 로고
    • Saliva as a diagnostic fluid
    • Malamud D (2011) Saliva as a diagnostic fluid. Dent Clin North Am 55: 159-178.
    • (2011) Dent Clin North Am , vol.55 , pp. 159-178
    • Malamud, D.1
  • 40
    • 0034237830 scopus 로고    scopus 로고
    • Similarity in saliva cortisol measures in monozygotic twins and the influence of past major depression
    • DOI 10.1016/S0006-3223(00)00842-8, PII S0006322300008428
    • Young EA, Aggen SH, Prescott CA, Kendler KS (2000) Similarity in saliva cortisol measures in monozygotic twins and the influence of past major depression. Biol Psychiatry 48: 70-74. (Pubitemid 30407152)
    • (2000) Biological Psychiatry , vol.48 , Issue.1 , pp. 70-74
    • Young, E.A.1    Aggen, S.H.2    Prescott, C.A.3    Kendler, K.S.4
  • 41
    • 67349244102 scopus 로고    scopus 로고
    • Comparative analysis of human saliva microbiome diversity by barcoded pyrosequencing and cloning approaches
    • Nasidze I, Quinque D, Li J, Li M, Tang K, et al. (2009) Comparative analysis of human saliva microbiome diversity by barcoded pyrosequencing and cloning approaches. Anal Biochem 391: 64-68.
    • (2009) Anal Biochem , vol.391 , pp. 64-68
    • Nasidze, I.1    Quinque, D.2    Li, J.3    Li, M.4    Tang, K.5
  • 42
    • 82555183004 scopus 로고    scopus 로고
    • The Human Oral Microbiome Database: A web accessible resource for investigating oral microbe taxonomic and genomic information
    • Oxford
    • Chen T, Yu WH, Izard J, Baranova OV, Lakshmanan A, et al. (2010) The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information. Database (Oxford) 2010: baq013.
    • (2010) Database , vol.2010
    • Chen, T.1    Yu, W.H.2    Izard, J.3    Baranova, O.V.4    Lakshmanan, A.5
  • 45
    • 69549112742 scopus 로고    scopus 로고
    • Accurate determination of microbial diversity from 454 pyrosequencing data
    • 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.
    • (2009) Nat Methods , vol.6 , pp. 639-641
    • Quince, C.1    Lanzen, A.2    Curtis, T.P.3    Davenport, R.J.4    Hall, N.5
  • 46
    • 80054852473 scopus 로고    scopus 로고
    • Comparing bacterial communities inferred from 16S rRNA gene sequencing and shotgun metagenomics
    • Shah N, Tang H, Doak TG, Ye Y (2011) Comparing bacterial communities inferred from 16S rRNA gene sequencing and shotgun metagenomics. Pac Symp Biocomput: 165-176.
    • (2011) Pac Symp Biocomput , pp. 165-176
    • Shah, N.1    Tang, H.2    Doak, T.G.3    Ye, Y.4
  • 50
    • 84862989346 scopus 로고    scopus 로고
    • Metagenomics - A guide from sampling to data analysis
    • Thomas T, Gilbert J, Meyer F (2012) Metagenomics - a guide from sampling to data analysis. Microb Inform Exp 2: 3.
    • (2012) Microb Inform Exp , vol.2 , pp. 3
    • Thomas, T.1    Gilbert, J.2    Meyer, F.3
  • 52
    • 84862189439 scopus 로고    scopus 로고
    • Optimizing read mapping to reference genomes to determine composition and species prevalence in microbial communities
    • Martin J, Sykes S, Young S, Kota K, Sanka R, et al. (2012) Optimizing read mapping to reference genomes to determine composition and species prevalence in microbial communities. PLoS One 7: e36427.
    • (2012) PLoS One , vol.7
    • Martin, J.1    Sykes, S.2    Young, S.3    Kota, K.4    Sanka, R.5
  • 53
    • 33847702910 scopus 로고    scopus 로고
    • MEGAN analysis of metagenomic data
    • DOI 10.1101/gr.5969107
    • Huson DH, Auch AF, Qi J, Schuster SC (2007) MEGAN analysis of metagenomic data. Genome Res 17: 377-386. (Pubitemid 46376747)
    • (2007) Genome Research , vol.17 , Issue.3 , pp. 377-386
    • Huson, D.H.1    Auch, A.F.2    Qi, J.3    Schuster, S.C.4
  • 54
    • 53549118607 scopus 로고    scopus 로고
    • The metagenomics RAST server - A public resource for the automatic phylogenetic and functional analysis of metagenomes
    • Meyer F, Paarmann D, D'Souza M, Olson R, Glass EM, et al. (2008) The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 9: 386.
    • (2008) BMC Bioinformatics , vol.9 , pp. 386
    • Meyer, F.1    Paarmann, D.2    D'Souza, M.3    Olson, R.4    Glass, E.M.5
  • 55
  • 59
    • 34147182303 scopus 로고    scopus 로고
    • A detailed analysis of 16S ribosomal RNA gene segments for the diagnosis of pathogenic bacteria
    • DOI 10.1016/j.mimet.2007.02.005, PII S0167701207000565
    • Chakravorty S, Helb D, Burday M, Connell N, Alland D (2007) A detailed analysis of 16S ribosomal RNA gene segments for the diagnosis of pathogenic bacteria. J Microbiol Methods 69: 330-339. (Pubitemid 46566457)
    • (2007) Journal of Microbiological Methods , vol.69 , Issue.2 , pp. 330-339
    • Chakravorty, S.1    Helb, D.2    Burday, M.3    Connell, N.4    Alland, D.5
  • 60
    • 84878647680 scopus 로고    scopus 로고
    • Comparative metagenomic and rRNA microbial diversity characterization using archaeal and bacterial synthetic communities
    • Shakya M, Quince C, Campbell JH, Yang ZK, Schadt CW, et al. (2013) Comparative metagenomic and rRNA microbial diversity characterization using archaeal and bacterial synthetic communities. Environ Microbiol 15: 1882-1899.
    • (2013) Environ Microbiol , vol.15 , pp. 1882-1899
    • Shakya, M.1    Quince, C.2    Campbell, J.H.3    Yang, Z.K.4    Schadt, C.W.5
  • 61
    • 0030844080 scopus 로고    scopus 로고
    • Frequency of formation of chimeric molecules as a consequence of PCR coamplification of 16S rRNA genes from mixed bacterial genomes
    • Wang GC, Wang Y (1997) Frequency of formation of chimeric molecules as a consequence of PCR coamplification of 16S rRNA genes from mixed bacterial genomes. Appl Environ Microbiol 63: 4645-4650. (Pubitemid 27524192)
    • (1997) Applied and Environmental Microbiology , vol.63 , Issue.12 , pp. 4645-4650
    • Wang, G.C.-Y.1    Wang, Y.2
  • 64
    • 77958056493 scopus 로고    scopus 로고
    • Analysis of oral microbiota in children with dental caries by PCR-DGGE and barcoded pyrosequencing
    • Ling Z, Kong J, Jia P, Wei C, Wang Y, et al. (2010) Analysis of oral microbiota in children with dental caries by PCR-DGGE and barcoded pyrosequencing. Microb Ecol 60: 677-690.
    • (2010) Microb Ecol , vol.60 , pp. 677-690
    • Ling, Z.1    Kong, J.2    Jia, P.3    Wei, C.4    Wang, Y.5
  • 65
    • 84355163063 scopus 로고    scopus 로고
    • Saliva microbiomes distinguish caries-active from healthy human populations
    • Yang F, Zeng X, Ning K, Liu KL, Lo CC, et al. (2012) Saliva microbiomes distinguish caries-active from healthy human populations. ISME J 6: 1-10.
    • (2012) ISME J , vol.6 , pp. 1-10
    • Yang, F.1    Zeng, X.2    Ning, K.3    Liu, K.L.4    Lo, C.C.5
  • 66
    • 84876427116 scopus 로고    scopus 로고
    • Investigation of the effect of type 2 diabetes mellitus on subgingival plaque microbiota by high-throughput 16S rDNA pyrosequencing
    • Zhou M, Rong R, Munro D, Zhu C, Gao X, et al. (2013) Investigation of the effect of type 2 diabetes mellitus on subgingival plaque microbiota by high-throughput 16S rDNA pyrosequencing. PLoS One 8: e61516.
    • (2013) PLoS One , vol.8
    • Zhou, M.1    Rong, R.2    Munro, D.3    Zhu, C.4    Gao, X.5
  • 67
    • 33748038463 scopus 로고    scopus 로고
    • Porphyromonas gingivalis vesicles enhance attachment, and the leucine-rich repeat BspA protein is required for invasion of epithelial cells by "Tannerella forsythia"
    • DOI 10.1128/IAI.00062-06
    • Inagaki S, Onishi S, Kuramitsu HK, Sharma A (2006) Porphyromonas gingivalis vesicles enhance attachment, and the leucine-rich repeat BspA protein is required for invasion of epithelial cells by "Tannerella forsythia". Infect Immun 74: 5023-5028. (Pubitemid 44300420)
    • (2006) Infection and Immunity , vol.74 , Issue.9 , pp. 5023-5028
    • Inagaki, S.1    Onishi, S.2    Kuramitsu, H.K.3    Sharma, A.4
  • 68
    • 0034305059 scopus 로고    scopus 로고
    • Aetiology and pathogenesis of periodontal disease
    • Kinane DF (2000) Aetiology and pathogenesis of periodontal disease. Ann R Australas Coll Dent Surg 15: 42-50.
    • (2000) Ann R Australas Coll Dent Surg , vol.15 , pp. 42-50
    • Kinane, D.F.1
  • 71
    • 80052559596 scopus 로고    scopus 로고
    • Aggregatibacter aphrophilus in a patient with recurrent empyema: A case report
    • Ratnayake L, Olver WJ, Fardon T (2011) Aggregatibacter aphrophilus in a patient with recurrent empyema: a case report. J Med Case Rep 5: 448.
    • (2011) J Med Case Rep , vol.5 , pp. 448
    • Ratnayake, L.1    Olver, W.J.2    Fardon, T.3
  • 72
    • 0017346958 scopus 로고
    • Haemophilus parainfluenzae and influenzae endocarditis: A review of forty cases
    • Lynn DJ, Kane JG, Parker RH (1977) Haemophilus parainfluenzae and influenzae endocarditis: a review of forty cases. Medicine (Baltimore) 56: 115-128. (Pubitemid 8079606)
    • (1977) Medicine , vol.56 , Issue.2 , pp. 115-128
    • Lynn, D.J.1    Kane, J.G.2    Parker, R.H.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.