{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,19]],"date-time":"2026-08-19T18:44:38Z","timestamp":1787165078412,"version":"build-2736575974"},"reference-count":77,"publisher":"Microbiology Society","issue":"10","license":[{"start":{"date-parts":[[2021,11,1]],"date-time":"2021-11-01T00:00:00Z","timestamp":1635724800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100015756","name":"Sociedad Espa\u00f1ola de Enfermedades Infecciosas y Microbiolog\u00eda Cl\u00ednica","doi-asserted-by":"crossref","award":["Ayuda SEIMC"],"award-info":[{"award-number":["Ayuda SEIMC"]}],"id":[{"id":"10.13039\/501100015756","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100004587","name":"Instituto de Salud Carlos III","doi-asserted-by":"crossref","award":["PI16\/00174"],"award-info":[{"award-number":["PI16\/00174"]}],"id":[{"id":"10.13039\/501100004587","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100004587","name":"Instituto de Salud Carlos III","doi-asserted-by":"crossref","award":["FI17\/00248"],"award-info":[{"award-number":["FI17\/00248"]}],"id":[{"id":"10.13039\/501100004587","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Sant Joan de Deu Foundation","award":["AFR2015"],"award-info":[{"award-number":["AFR2015"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,11,1]]},"abstract":"\n Acute respiratory infections (ARIs) constitute one of the leading causes of antibiotic administration, hospitalization and death among children <5 years old. The upper respiratory tract microbiota has been suggested to explain differential susceptibility to ARIs and modulate ARI severity. The aim of the present study was to investigate the relation of nasopharyngeal microbiota and other microbiological parameters with respiratory health and disease, and to assess nasopharyngeal microbiota diagnostic utility for discriminating between different respiratory health statuses. We conducted a prospective case\u2013control study at Hospital Sant Joan de Deu (\n Barcelona<\/jats:named-content>\n ,\n Spain<\/jats:named-content>\n ) from 2014 to 2018. This study included three groups of children <18 years with gradual decrease of ARI severity: cases with invasive pneumococcal disease (IPD) (representative of lower respiratory tract infections and systemic infections), symptomatic controls with mild viral upper respiratory tract infections (URTI), and healthy\/asymptomatic controls according to an approximate case\u2013control ratio 1:2. Nasopharyngeal samples were collected from participants for detection, quantification and serotyping of pneumococcal DNA, viral DNA\/RNA detection and 16S rRNA gene sequencing. Microbiological parameters were included on case\u2013control classification models. A total of 140 subjects were recruited (IPD=27, URTI=48, healthy\/asymptomatic control=65). Children\u2019s nasopharyngeal microbiota composition varied according to respiratory health status and infection severity. The IPD group was characterized by overrepresentation of\n \n \n Streptococcus pneumoniae<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic>\n , higher frequency of invasive pneumococcal serotypes, increased rate of viral infection and underrepresentation of potential protective bacterial species such as\n \n \n Dolosigranulum pigrum<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic>\n and\n \n \n Moraxella lincolnii<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic>\n . Microbiota-based classification models differentiated cases from controls with moderately high accuracy. These results demonstrate the close relationship existing between a child\u2019s nasopharyngeal microbiota and respiratory health, and provide initial evidence of the potential of microbiota-based diagnostics for differential diagnosis of severe ARIs using non-invasive samples.\n <\/jats:p>","DOI":"10.1099\/mgen.0.000661","type":"journal-article","created":{"date-parts":[[2021,10,26]],"date-time":"2021-10-26T13:15:53Z","timestamp":1635254153000},"source":"Crossref","is-referenced-by-count":17,"title":["Differential nasopharyngeal microbiota composition in children according to respiratory health status"],"prefix":"10.1099","volume":"7","author":[{"given":"Desiree","family":"Henares","sequence":"first","affiliation":[{"name":"CIBER Center for Epidemiology and Public Health (CIBERESP), Instituto de Salud Carlos III, Madrid, Spain"},{"name":"Institut de Recerca Sant Joan de Deu, Hospital Sant Joan de Deu, Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pedro","family":"Brotons","sequence":"additional","affiliation":[{"name":"School of Medicine, Universitat Internacional de Catalunya, Barcelona, Spain"},{"name":"CIBER Center for Epidemiology and Public Health (CIBERESP), Instituto de Salud Carlos III, Madrid, Spain"},{"name":"Institut de Recerca Sant Joan de Deu, Hospital Sant Joan de Deu, Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mariona F.","family":"de Sevilla","sequence":"additional","affiliation":[{"name":"Pediatric Department, Hospital Sant Joan de Deu, Barcelona, Spain"},{"name":"CIBER Center for Epidemiology and Public Health (CIBERESP), Instituto de Salud Carlos III, Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ana","family":"Fernandez-Lopez","sequence":"additional","affiliation":[{"name":"Pediatric Department, Hospital Sant Joan de Deu, Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Susanna","family":"Hernandez-Bou","sequence":"additional","affiliation":[{"name":"Pediatric Emergency Department, Hospital Sant Joan de Deu, Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Amaresh","family":"Perez-Arg\u00fcello","sequence":"additional","affiliation":[{"name":"Institut de Recerca Sant Joan de Deu, Hospital Sant Joan de Deu, Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alex","family":"Mira","sequence":"additional","affiliation":[{"name":"Department of Health and Genomics, Center for Advanced Research in Public Health, FISABIO, Valencia, Spain"},{"name":"CIBER Center for Epidemiology and Public Health (CIBERESP), Instituto de Salud Carlos III, Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Carmen","family":"Mu\u00f1oz-Almagro","sequence":"additional","affiliation":[{"name":"CIBER Center for Epidemiology and Public Health (CIBERESP), Instituto de Salud Carlos III, Madrid, Spain"},{"name":"Institut de Recerca Sant Joan de Deu, Hospital Sant Joan de Deu, Barcelona, Spain"},{"name":"School of Medicine, Universitat Internacional de Catalunya, Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Raul","family":"Cabrera-Rubio","sequence":"additional","affiliation":[{"name":"APC Microbiome Institute, University College Cork, County Cork, Ireland"},{"name":"Teagasc Food Research Centre (TEAGASC), Moorepark, Fermoy, Cork, Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"345","reference":[{"key":"R1","article-title":"Supplementary material. Figshare","author":"Henares","year":"2021"},{"key":"R2","article-title":"Global Health Observatory | by category | number of deaths by region - acute lower respiratory infections"},{"key":"R3","article-title":"Global Health Observatory | by category | number of deaths (thousands) - data by WHO region"},{"key":"R4","doi-asserted-by":"publisher","DOI":"10.2471\/BLT.16.176123"},{"key":"R5","doi-asserted-by":"publisher","DOI":"10.1098\/rstb.2014.0294"},{"key":"R6","doi-asserted-by":"publisher","DOI":"10.1099\/0022-1317-51-2-98"},{"key":"R7","doi-asserted-by":"publisher","DOI":"10.1016\/j.jinf.2018.06.004"},{"key":"R8","doi-asserted-by":"publisher","DOI":"10.1164\/rccm.201703-0554OC"},{"key":"R9","doi-asserted-by":"publisher","DOI":"10.1111\/j.1753-4887.2012.00489.x"},{"key":"R10","doi-asserted-by":"publisher","DOI":"10.1164\/rccm.201407-1240OC"},{"key":"R11","doi-asserted-by":"publisher","DOI":"10.1016\/j.ebiom.2016.05.031"},{"key":"R12","doi-asserted-by":"publisher","DOI":"10.1164\/rccm.201401-0073OC"},{"key":"R13","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-017-0302-6"},{"key":"R14","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0180630"},{"key":"R15","doi-asserted-by":"publisher","DOI":"10.1038\/nm.4272"},{"key":"R16","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0005975"},{"key":"R17","doi-asserted-by":"publisher","DOI":"10.1186\/s12866-018-1154-3"},{"key":"R18","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01051-12"},{"key":"R19","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2018.02640"},{"key":"R20","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-020-16429-9"},{"key":"R21","doi-asserted-by":"publisher","DOI":"10.1007\/s10096-018-03454-2"},{"key":"R22","doi-asserted-by":"publisher","DOI":"10.1016\/S2213-2600(18)30449-1"},{"key":"R23","doi-asserted-by":"publisher","DOI":"10.1016\/j.chom.2015.03.008"},{"key":"R24","doi-asserted-by":"publisher","DOI":"10.1164\/rccm.201302-0215OC"},{"key":"R25","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2019.00011"},{"key":"R26","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0095476"},{"key":"R27","volume-title":"The Green Book of Immunisation","author":"Ramsay","year":"2020"},{"key":"R28","doi-asserted-by":"publisher","DOI":"10.1086\/374624"},{"key":"R29","doi-asserted-by":"publisher","DOI":"10.1086\/505710"},{"key":"R30","doi-asserted-by":"publisher","DOI":"10.1007\/s10096-014-2280-y"},{"key":"R31","volume-title":"Laboratory Methods for the Diagnosis of Meningitis","year":"2020"},{"key":"R32","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btr026"},{"key":"R33","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btr507"},{"key":"R34","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.2604"},{"key":"R35","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00062-07"},{"key":"R36","doi-asserted-by":"publisher","DOI":"10.1186\/s12859-015-0747-1"},{"key":"R37","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp636"},{"key":"R38","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.f.303"},{"key":"R39","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-018-0605-2"},{"key":"R40","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2016.04.007"},{"key":"R41","doi-asserted-by":"publisher","DOI":"10.1186\/s12915-014-0087-z"},{"key":"R42","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2020.607325"},{"key":"R43","year":"2018"},{"key":"R44","author":"Oksanen","year":"2020"},{"key":"R45","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro.2017.14"},{"key":"R46","doi-asserted-by":"publisher","DOI":"10.3201\/eid2002.131220"},{"key":"R47","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2011-12-6-r60"},{"key":"R48","doi-asserted-by":"publisher","DOI":"10.1183\/09031936.00203013"},{"key":"R49","doi-asserted-by":"publisher","DOI":"10.1128\/JB.00542-10"},{"key":"R50","doi-asserted-by":"publisher","DOI":"10.3390\/molecules22081255"},{"key":"R51","doi-asserted-by":"publisher","DOI":"10.1038\/nrgastro.2010.117"},{"key":"R52","first-page":"678698","article-title":"Dolosigranulum pigrum cooperation and competition in human nasal microbiota","author":"Brugger","year":"2019","journal-title":"bioRxiv"},{"key":"R53","doi-asserted-by":"publisher","DOI":"10.1097\/INF.0000000000001607"},{"key":"R54","doi-asserted-by":"crossref","first-page":"28","DOI":"10.1099\/00207713-32-1-28","article-title":"Taxonomy of the genus Veillonella Pr\u00e9vot","volume":"32","author":"Mays","year":"1982","journal-title":"Int J Syst Bacteriol"},{"key":"R55","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.03280-13"},{"key":"R56","doi-asserted-by":"publisher","DOI":"10.1097\/INF.0000000000001500"},{"key":"R57","doi-asserted-by":"publisher","DOI":"10.1038\/ismej.2016.183"},{"key":"R58","doi-asserted-by":"publisher","DOI":"10.1097\/MPG.0b013e31826f2bc6"},{"key":"R59","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0063103"},{"key":"R60","doi-asserted-by":"publisher","DOI":"10.2334\/josnusd.18-0239"},{"key":"R61","doi-asserted-by":"publisher","DOI":"10.1111\/jcpe.12679"},{"key":"R62","doi-asserted-by":"publisher","DOI":"10.1164\/rccm.201602-0220OC"},{"key":"R63","doi-asserted-by":"publisher","DOI":"10.1007\/s10096-018-3305-8"},{"key":"R64","doi-asserted-by":"publisher","DOI":"10.1080\/14787210.2017.1349609"},{"key":"R65","doi-asserted-by":"publisher","DOI":"10.1586\/ers.11.76"},{"key":"R66","doi-asserted-by":"publisher","DOI":"10.1164\/rccm.201810-1993OC"},{"key":"R67","doi-asserted-by":"publisher","DOI":"10.1080\/14787210.2019.1621168"},{"key":"R68","doi-asserted-by":"publisher","DOI":"10.1136\/thoraxjnl-2011-200598"},{"key":"R69","doi-asserted-by":"publisher","DOI":"10.1097\/00006454-199902000-00004"},{"key":"R70","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.01318-17"},{"key":"R71","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.02452-13"},{"key":"R72","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0191047"},{"key":"R73","doi-asserted-by":"publisher","DOI":"10.1002\/2211-5463.12590"},{"key":"R74","doi-asserted-by":"publisher","DOI":"10.1001\/archinte.164.6.637"},{"key":"R75","doi-asserted-by":"publisher","DOI":"10.1177\/2042098614554919"},{"key":"R76","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bty113"},{"key":"R77","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-018-30515-5"}],"container-title":["Microbial Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.microbiologyresearch.org\/content\/journal\/mgen\/10.1099\/mgen.0.000661?crawler=true&mimetype=application\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,12,14]],"date-time":"2023-12-14T19:29:49Z","timestamp":1702582189000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.microbiologyresearch.org\/content\/journal\/mgen\/10.1099\/mgen.0.000661"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,11,1]]},"references-count":77,"journal-issue":{"issue":"10","published-print":{"date-parts":[[2021,11,1]]}},"URL":"https:\/\/doi.org\/10.1099\/mgen.0.000661","relation":{},"ISSN":["2057-5858"],"issn-type":[{"value":"2057-5858","type":"electronic"}],"subject":[],"published":{"date-parts":[[2021,11,1]]}}}