{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,22]],"date-time":"2025-10-22T10:41:32Z","timestamp":1761129692754,"version":"3.37.3"},"reference-count":24,"publisher":"Springer Science and Business Media LLC","issue":"3","license":[{"start":{"date-parts":[[2019,12,3]],"date-time":"2019-12-03T00:00:00Z","timestamp":1575331200000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"},{"start":{"date-parts":[[2019,12,3]],"date-time":"2019-12-03T00:00:00Z","timestamp":1575331200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"funder":[{"name":"National Major Scientific and Technological Special Project for \u201cSignificant New Drugs Development","award":["2017ZX09304029"],"award-info":[{"award-number":["2017ZX09304029"]}]},{"name":"Beijing Hospitals Authority Youth Programme","award":["QML 20181207"],"award-info":[{"award-number":["QML 20181207"]}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Eur J Clin Microbiol Infect Dis"],"published-print":{"date-parts":[[2020,3]]},"DOI":"10.1007\/s10096-019-03750-5","type":"journal-article","created":{"date-parts":[[2019,12,3]],"date-time":"2019-12-03T02:03:54Z","timestamp":1575338634000},"page":"501-507","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":7,"title":["Abundance of the nasopharyngeal microbiome effects pertussis diagnosis and explains the sensitivity difference between bacterial culture and real-time PCR"],"prefix":"10.1007","volume":"39","author":[{"given":"Yijun","family":"Ding","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Qing","family":"Wang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dongfang","family":"Li","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1548-8670","authenticated-orcid":false,"given":"Kaihu","family":"Yao","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tianyou","family":"Wang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2019,12,3]]},"reference":[{"issue":"4","key":"3750_CR1","doi-asserted-by":"publisher","first-page":"274","DOI":"10.1038\/nrmicro3235","volume":"12","author":"JA Melvin","year":"2014","unstructured":"Melvin JA, Scheller EV, Miller JF, Cotter PA (2014) Bordetella pertussis pathogenesis: current and future challenges. Nat Rev Microbiol 12(4):274\u2013288. https:\/\/doi.org\/10.1038\/nrmicro3235","journal-title":"Nat Rev Microbiol"},{"key":"3750_CR2","doi-asserted-by":"publisher","unstructured":"Cimolai N, Trombley C, O'Neill D (1996) Diagnosis of whooping cough: a new era with rapid molecular diagnostics. Pediatric emergency care 12 (2):91-93. Doi:org\/https:\/\/doi.org\/10.1097\/00006565-199604000-00006","DOI":"10.1097\/00006565-199604000-00006"},{"key":"3750_CR3","doi-asserted-by":"publisher","unstructured":"Edelman K, Nikkari S, Ruuskanen O, He Q, Viljanen M, Mertsola J (1996) Detection of Bordetella pertussis by polymerase chain reaction and culture in the nasopharynx of erythromycin-treated infants with pertussis. The pediatric infectious disease journal 15 (1):54-57. Doi:org\/https:\/\/doi.org\/10.1097\/00006454-199601000-00012","DOI":"10.1097\/00006454-199601000-00012"},{"issue":"9","key":"3750_CR4","doi-asserted-by":"publisher","first-page":"942","DOI":"10.1097\/INF.0b013e3182947ef8","volume":"32","author":"KM Tatti","year":"2013","unstructured":"Tatti KM, Martin SW, Boney KO, Brown K, Clark TA, Tondella ML (2013) Qualitative assessment of pertussis diagnostics in United States laboratories. Pediatr Infect Dis J 32(9):942\u2013945. https:\/\/doi.org\/10.1097\/INF.0b013e3182947ef8","journal-title":"Pediatr Infect Dis J"},{"issue":"2","key":"3750_CR5","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0032486","volume":"7","author":"S Bousbia","year":"2012","unstructured":"Bousbia S, Papazian L, Saux P, Forel JM, Auffray JP, Martin C, Raoult D, La Scola B (2012) Repertoire of intensive care unit pneumonia microbiota. PLoS One 7(2):e32486. https:\/\/doi.org\/10.1371\/journal.pone.0032486","journal-title":"PLoS One"},{"key":"3750_CR6","doi-asserted-by":"publisher","first-page":"7","DOI":"10.1186\/s40168-016-0151-8","volume":"4","author":"BJ Kelly","year":"2016","unstructured":"Kelly BJ, Imai I, Bittinger K, Laughlin A, Fuchs BD, Bushman FD, Collman RG (2016) Composition and dynamics of the respiratory tract microbiome in intubated patients. Microbiome 4:7. https:\/\/doi.org\/10.1186\/s40168-016-0151-8","journal-title":"Microbiome"},{"key":"3750_CR7","doi-asserted-by":"publisher","unstructured":"Chinese Medical Association Pediatrics Infectious Group. Chinese children\u2019s pertussis diagnosis and treatment recommendations (2017). Chin J Pediatr 55 (8):568\u2013572. doi:https:\/\/doi.org\/10.3760\/cma.j.issn.0578-1310.2017.08.004","DOI":"10.3760\/cma.j.issn.0578-1310.2017.08.004"},{"issue":"4","key":"3750_CR8","doi-asserted-by":"publisher","first-page":"1005","DOI":"10.1128\/CMR.00031-15","volume":"28","author":"A van der Zee","year":"2015","unstructured":"van der Zee A, Schellekens JF, Mooi FR (2015) Laboratory diagnosis of pertussis. Clin Microbiol Rev 28(4):1005\u20131026. https:\/\/doi.org\/10.1128\/CMR.00031-15","journal-title":"Clin Microbiol Rev"},{"key":"3750_CR9","doi-asserted-by":"publisher","unstructured":"Domenech de Celles M, Magpantay FM, King AA, Rohani P (2016) The pertussis enigma: reconciling epidemiology, immunology and evolution. Proceedings Biological sciences 283(1822). https:\/\/doi.org\/10.1098\/rspb.2015.2309","DOI":"10.1098\/rspb.2015.2309"},{"issue":"6","key":"3750_CR10","doi-asserted-by":"publisher","first-page":"857","DOI":"10.1586\/14737159.6.6.857","volume":"6","author":"AM Wendelboe","year":"2006","unstructured":"Wendelboe AM, Van Rie A (2006) Diagnosis of pertussis: a historical review and recent developments. Expert Rev Mol Diagn 6(6):857\u2013864. https:\/\/doi.org\/10.1586\/14737159.6.6.857","journal-title":"Expert Rev Mol Diagn"},{"issue":"11","key":"3750_CR11","doi-asserted-by":"publisher","first-page":"3798","DOI":"10.1128\/JCM.01551-08","volume":"46","author":"JL Guthrie","year":"2008","unstructured":"Guthrie JL, Seah C, Brown S, Tang P, Jamieson F, Drews SJ (2008) Use of Bordetella pertussis BP3385 to establish a cutoff value for an IS481-targeted real-time PCR assay. J Clin Microbiol 46(11):3798\u20133799. https:\/\/doi.org\/10.1128\/JCM.01551-08","journal-title":"J Clin Microbiol"},{"issue":"7","key":"3750_CR12","doi-asserted-by":"publisher","first-page":"2186","DOI":"10.1128\/JCM.00612-12","volume":"50","author":"M Loeffelholz","year":"2012","unstructured":"Loeffelholz M (2012) Towards improved accuracy of Bordetella pertussis nucleic acid amplification tests. J Clin Microbiol 50(7):2186\u20132190. https:\/\/doi.org\/10.1128\/JCM.00612-12","journal-title":"J Clin Microbiol"},{"issue":"9","key":"3750_CR13","doi-asserted-by":"publisher","first-page":"2761","DOI":"10.1128\/JCM.01228-07","volume":"45","author":"JM Janda","year":"2007","unstructured":"Janda JM, Abbott SL (2007) 16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls. J Clin Microbiol 45(9):2761\u20132764. https:\/\/doi.org\/10.1128\/JCM.01228-07","journal-title":"J Clin Microbiol"},{"issue":"2","key":"3750_CR14","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0117617","volume":"10","author":"R Srinivasan","year":"2015","unstructured":"Srinivasan R, Karaoz U, Volegova M, MacKichan J, Kato-Maeda M, Miller S, Nadarajan R, Brodie EL, Lynch SV (2015) Use of 16S rRNA gene for identification of a broad range of clinically relevant bacterial pathogens. PLoS One 10(2):e0117617. https:\/\/doi.org\/10.1371\/journal.pone.0117617","journal-title":"PLoS One"},{"key":"3750_CR15","unstructured":"CDC Best practices for healthcare professionals on the use of polymerase chain reaction (PCR) for diagnosing pertussis 2019[updated 2\/21\/2019. https:\/\/www.cdc.gov\/pertussis\/clinical\/diagnostic-testing\/ diagnosis-pcr-bestpractices.html. Accessed 21 February 2019"},{"issue":"4","key":"3750_CR16","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0195979","volume":"13","author":"AD Lee","year":"2018","unstructured":"Lee AD, Cassiday PK, Pawloski LC, Tatti KM, Martin MD, Briere EC, Tondella ML, Martin SW, Clinical Validation Study G (2018) Clinical evaluation and validation of laboratory methods for the diagnosis of Bordetella pertussis infection: culture, polymerase chain reaction (PCR) and anti-pertussis toxin IgG serology (IgG-PT). PLoS One 13(4):e0195979. https:\/\/doi.org\/10.1371\/journal.pone.0195979","journal-title":"PLoS One"},{"issue":"6","key":"3750_CR17","doi-asserted-by":"publisher","first-page":"E260","DOI":"10.1111\/1469-0691.12161","volume":"19","author":"Q Zhang","year":"2013","unstructured":"Zhang Q, Li M, Wang L, Xin T, He Q (2013) High-resolution melting analysis for the detection of two erythromycin-resistant Bordetella pertussis strains carried by healthy schoolchildren in China. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 19(6):E260\u2013E262. https:\/\/doi.org\/10.1111\/1469-0691.12161","journal-title":"Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases"},{"issue":"10","key":"3750_CR18","doi-asserted-by":"publisher","first-page":"5193","DOI":"10.1128\/AAC.01081-13","volume":"57","author":"Z Wang","year":"2013","unstructured":"Wang Z, Li Y, Hou T, Liu X, Liu Y, Yu T, Chen Z, Gao Y, Li H, He Q (2013) Appearance of macrolide-resistant Bordetella pertussis strains in China. Antimicrob Agents Chemother 57(10):5193\u20135194. https:\/\/doi.org\/10.1128\/AAC.01081-13","journal-title":"Antimicrob Agents Chemother"},{"key":"3750_CR19","doi-asserted-by":"publisher","unstructured":"Bourgeois N, Ghnassia JC, Doucet-Populaire F (2003) In vitro activity of fluoroquinolones against erythromycin-susceptible and -resistant Bordetella pertussis. The journal of antimicrobial chemotherapy 51 (3):742-743. Doi:org\/https:\/\/doi.org\/10.1093\/jac\/dkg145","DOI":"10.1093\/jac\/dkg145"},{"key":"3750_CR20","doi-asserted-by":"publisher","unstructured":"Guillot S, Descours G, Gillet Y, Etienne J, Floret D, Guiso N (2012) Macrolide-resistant Bordetella pertussis infection in newborn girl, France. Emerg Infect Dis 18 (6):966\u2013968. doi:https:\/\/doi.org\/10.3201\/eid1806.120091","DOI":"10.3201\/eid1806.120091"},{"issue":"9","key":"3750_CR21","doi-asserted-by":"publisher","first-page":"1183","DOI":"10.1007\/s10096-010-0976-1","volume":"29","author":"NK Fry","year":"2010","unstructured":"Fry NK, Duncan J, Vaghji L, George RC, Harrison TG (2010) Antimicrobial susceptibility testing of historical and recent clinical isolates of Bordetella pertussis in the United Kingdom using the Etest method. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 29(9):1183\u20131185. https:\/\/doi.org\/10.1007\/s10096-010-0976-1","journal-title":"European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology"},{"issue":"5","key":"3750_CR22","doi-asserted-by":"publisher","first-page":"1178","DOI":"10.1093\/jac\/dkm343","volume":"60","author":"V Sintchenko","year":"2007","unstructured":"Sintchenko V, Brown M, Gilbert GL (2007) Is Bordetella pertussis susceptibility to erythromycin changing? MIC trends among Australian isolates 1971-2006. J Antimicrob Chemother 60(5):1178\u20131179. https:\/\/doi.org\/10.1093\/jac\/dkm343","journal-title":"J Antimicrob Chemother"},{"issue":"11","key":"3750_CR23","doi-asserted-by":"publisher","first-page":"O825","DOI":"10.1111\/1469-0691.12671","volume":"20","author":"Z Wang","year":"2014","unstructured":"Wang Z, Cui Z, Li Y, Hou T, Liu X, Xi Y, Liu Y, Li H, He Q (2014) High prevalence of erythromycin-resistant Bordetella pertussis in Xi\u2019an, China. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 20(11):O825\u2013O830. https:\/\/doi.org\/10.1111\/1469-0691.12671","journal-title":"Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases"},{"issue":"2","key":"3750_CR24","doi-asserted-by":"publisher","first-page":"326","DOI":"10.1128\/CMR.18.2.326-382.2005","volume":"18","author":"S Mattoo","year":"2005","unstructured":"Mattoo S, Cherry JD (2005) Molecular pathogenesis, epidemiology, and clinical manifestations of respiratory infections due to Bordetella pertussis and other Bordetella subspecies. Clin Microbiol Rev 18(2):326\u2013382. https:\/\/doi.org\/10.1128\/CMR.18.2.326-382.2005","journal-title":"Clin Microbiol Rev"}],"container-title":["European Journal of Clinical Microbiology &amp; Infectious Diseases"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/s10096-019-03750-5.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1007\/s10096-019-03750-5\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/s10096-019-03750-5.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,12,1]],"date-time":"2020-12-01T19:35:52Z","timestamp":1606851352000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/s10096-019-03750-5"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,12,3]]},"references-count":24,"journal-issue":{"issue":"3","published-print":{"date-parts":[[2020,3]]}},"alternative-id":["3750"],"URL":"https:\/\/doi.org\/10.1007\/s10096-019-03750-5","relation":{},"ISSN":["0934-9723","1435-4373"],"issn-type":[{"type":"print","value":"0934-9723"},{"type":"electronic","value":"1435-4373"}],"subject":[],"published":{"date-parts":[[2019,12,3]]},"assertion":[{"value":"26 August 2019","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"24 October 2019","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"3 December 2019","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Compliance with ethical standards"}},{"value":"The authors declare that they have no conflict of interest.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Conflicts of interest"}},{"value":"This study was approved by the Ethics Committee of Beijing Children\u2019s Hospital Affiliated to Capital Medical University. The committee exempted request for informed consent because this study only focused on bacteria and did not affect patients. All procedures performed in studies involving human participants were in accordance with the ethical standards of the institutional and with the 1964 Helsinki declaration and its later amendments or comparable ethical standards.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics approval"}}]}}