Pathogen transcriptional profile in nasopharyngeal aspirates of children with acute respiratory tract infection
Highlights • nCounter enables detection of pathogen transcripts in NPA with low RNA input. • nCounter detects, in a single reaction, the presence of multiple pathogens in NPA. • nCounter displayed a good agreement with Real-Time PCR for RSV.
Saved in:
| Published in | Journal of clinical virology Vol. 69; pp. 190 - 196 |
|---|---|
| Main Authors | , , , , , , , , , , , , |
| Format | Journal Article |
| Language | English |
| Published |
Netherlands
Elsevier B.V
01.08.2015
|
| Subjects | |
| Online Access | Get full text |
Cover
Loading…
| Abstract | Highlights • nCounter enables detection of pathogen transcripts in NPA with low RNA input. • nCounter detects, in a single reaction, the presence of multiple pathogens in NPA. • nCounter displayed a good agreement with Real-Time PCR for RSV. |
|---|---|
| AbstractList | •
nCounter enables detection of pathogen transcripts in NPA with low RNA input.
•
nCounter detects, in a single reaction, the presence of multiple pathogens in NPA.
•
nCounter displayed a good agreement with Real-Time PCR for RSV. BACKGROUNDAcute respiratory tract infections (ARI) present a significant morbidity and pose a global health burden. Patients are frequently treated with antibiotics although ARI are most commonly caused by virus, strengthening the need for improved diagnostic methods. OBJECTIVESDetect viral and bacterial RNA in nasopharyngeal aspirates (NPA) from children aged 6-23 months with ARI using nCounter. STUDY DESIGNA custom-designed nCounter probeset containing viral and bacterial targets was tested in NPA of ARI patients. RESULTSInitially, spiked control viral RNAs were detectable in ≥6.25 ng input RNA, indicating absence of inhibitors in NPA. nCounter applied to a larger NPA sample (n=61) enabled the multiplex detection of different pathogens: RNA viruses Parainfluenza virus (PIV 1-3) and RSV A-B in 21%, Human metapneumovirus (hMPV) in 5%, Bocavirus (BoV), CoV, Influenza virus (IV) A in 3% and, Rhinovirus (RV) in 2% of samples, respectively. RSV A-B was confirmed by Real Time PCR (86.2-96.9% agreement). DNA virus (AV) was detected at RNA level, reflecting viral replication, in 10% of samples. Bacterial transcripts from Staphylococcus aureus, Haemophilus influenzae, Streptococcus pneumoniae, Moraxella catarrhalis, Mycoplasma pneumoniae and Chlamydophila pneumoniae were detected in 77, 69, 26, 8, 3 and 2% of samples, respectively. CONCLUSIONnCounter is robust and sensitive for the simultaneous detection of viral (both RNA and DNA) and bacterial transcripts in NPA with low RNA input (<10 ng). This medium-throughput technique will increase our understanding of ARI pathogenesis and may provide an evidence-based approach for the targeted and rational use of antibiotics in pediatric ARI. Highlights • nCounter enables detection of pathogen transcripts in NPA with low RNA input. • nCounter detects, in a single reaction, the presence of multiple pathogens in NPA. • nCounter displayed a good agreement with Real-Time PCR for RSV. •nCounter enables detection of pathogen transcripts in NPA with low RNA input.•nCounter detects, in a single reaction, the presence of multiple pathogens in NPA.•nCounter displayed a good agreement with Real-Time PCR for RSV. Acute respiratory tract infections (ARI) present a significant morbidity and pose a global health burden. Patients are frequently treated with antibiotics although ARI are most commonly caused by virus, strengthening the need for improved diagnostic methods. Detect viral and bacterial RNA in nasopharyngeal aspirates (NPA) from children aged 6–23 months with ARI using nCounter. A custom-designed nCounter probeset containing viral and bacterial targets was tested in NPA of ARI patients. Initially, spiked control viral RNAs were detectable in ≥6.25ng input RNA, indicating absence of inhibitors in NPA. nCounter applied to a larger NPA sample (n=61) enabled the multiplex detection of different pathogens: RNA viruses Parainfluenza virus (PIV 1–3) and RSV A-B in 21%, Human metapneumovirus (hMPV) in 5%, Bocavirus (BoV), CoV, Influenza virus (IV) A in 3% and, Rhinovirus (RV) in 2% of samples, respectively. RSV A-B was confirmed by Real Time PCR (86.2–96.9% agreement). DNA virus (AV) was detected at RNA level, reflecting viral replication, in 10% of samples. Bacterial transcripts from Staphylococcus aureus, Haemophilus influenzae, Streptococcus pneumoniae, Moraxella catarrhalis, Mycoplasma pneumoniae and Chlamydophila pneumoniae were detected in 77, 69, 26, 8, 3 and 2% of samples, respectively. nCounter is robust and sensitive for the simultaneous detection of viral (both RNA and DNA) and bacterial transcripts in NPA with low RNA input (<10ng). This medium-throughput technique will increase our understanding of ARI pathogenesis and may provide an evidence-based approach for the targeted and rational use of antibiotics in pediatric ARI. Acute respiratory tract infections (ARI) present a significant morbidity and pose a global health burden. Patients are frequently treated with antibiotics although ARI are most commonly caused by virus, strengthening the need for improved diagnostic methods. Detect viral and bacterial RNA in nasopharyngeal aspirates (NPA) from children aged 6-23 months with ARI using nCounter. A custom-designed nCounter probeset containing viral and bacterial targets was tested in NPA of ARI patients. Initially, spiked control viral RNAs were detectable in ≥6.25 ng input RNA, indicating absence of inhibitors in NPA. nCounter applied to a larger NPA sample (n=61) enabled the multiplex detection of different pathogens: RNA viruses Parainfluenza virus (PIV 1-3) and RSV A-B in 21%, Human metapneumovirus (hMPV) in 5%, Bocavirus (BoV), CoV, Influenza virus (IV) A in 3% and, Rhinovirus (RV) in 2% of samples, respectively. RSV A-B was confirmed by Real Time PCR (86.2-96.9% agreement). DNA virus (AV) was detected at RNA level, reflecting viral replication, in 10% of samples. Bacterial transcripts from Staphylococcus aureus, Haemophilus influenzae, Streptococcus pneumoniae, Moraxella catarrhalis, Mycoplasma pneumoniae and Chlamydophila pneumoniae were detected in 77, 69, 26, 8, 3 and 2% of samples, respectively. nCounter is robust and sensitive for the simultaneous detection of viral (both RNA and DNA) and bacterial transcripts in NPA with low RNA input (<10 ng). This medium-throughput technique will increase our understanding of ARI pathogenesis and may provide an evidence-based approach for the targeted and rational use of antibiotics in pediatric ARI. Background Acute respiratory tract infections (ARI) present a significant morbidity and pose a global health burden. Patients are frequently treated with antibiotics although ARI are most commonly caused by virus, strengthening the need for improved diagnostic methods. Objectives Detect viral and bacterial RNA in nasopharyngeal aspirates (NPA) from children aged 6-23 months with ARI using nCounter. Study design A custom-designed nCounter probeset containing viral and bacterial targets was tested in NPA of ARI patients. Results Initially, spiked control viral RNAs were detectable in greater than or equal to 6.25ng input RNA, indicating absence of inhibitors in NPA. nCounter applied to a larger NPA sample (n =61) enabled the multiplex detection of different pathogens: RNA viruses Parainfluenza virus (PIV 1-3) and RSV A-B in 21%, Human metapneumovirus (hMPV) in 5%, Bocavirus (BoV), CoV, Influenza virus (IV) A in 3% and, Rhinovirus (RV) in 2% of samples, respectively. RSV A-B was confirmed by Real Time PCR (86.2-96.9% agreement). DNA virus (AV) was detected at RNA level, reflecting viral replication, in 10% of samples. Bacterial transcripts from Staphylococcus aureus, Haemophilus influenzae, Streptococcus pneumoniae, Moraxella catarrhalis, Mycoplasma pneumoniae and Chlamydophila pneumoniae were detected in 77, 69, 26, 8, 3 and 2% of samples, respectively. Conclusion nCounter is robust and sensitive for the simultaneous detection of viral (both RNA and DNA) and bacterial transcripts in NPA with low RNA input (<10ng). This medium-throughput technique will increase our understanding of ARI pathogenesis and may provide an evidence-based approach for the targeted and rational use of antibiotics in pediatric ARI. |
| Author | Barral, Aldina Fukutani, Kiyoshi F Nascimento-Carvalho, Cristiana M Dierckx, Tim Van Ranst, Marc Bouzas, Maiara L Oliveira, Juliana R Khouri, Ricardo Van Weyenbergh, Johan de Oliveira, Camila I Houspie, Lieselot Van der Gucht, Winke Wollants, Elke |
| Author_xml | – sequence: 1 fullname: Fukutani, Kiyoshi F – sequence: 2 fullname: Nascimento-Carvalho, Cristiana M – sequence: 3 fullname: Van der Gucht, Winke – sequence: 4 fullname: Wollants, Elke – sequence: 5 fullname: Khouri, Ricardo – sequence: 6 fullname: Dierckx, Tim – sequence: 7 fullname: Van Ranst, Marc – sequence: 8 fullname: Houspie, Lieselot – sequence: 9 fullname: Bouzas, Maiara L – sequence: 10 fullname: Oliveira, Juliana R – sequence: 11 fullname: Barral, Aldina – sequence: 12 fullname: Van Weyenbergh, Johan – sequence: 13 fullname: de Oliveira, Camila I |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/26209405$$D View this record in MEDLINE/PubMed |
| BookMark | eNqFkl2L1DAUhoOsuB_6A7yRXnrTmjRN2iAsyOIXLCio1yGTnkxTO0lNOrPMv_eUWRf1Qq-SkPd9OOe855KchRiAkOeMVowy-WqsRnuoaspERWVFqXhELljX8lIo2Z7hnXeylILX5-Qy55GikDftE3Jey5qqhooLEj-bZYhbCMWSTMg2-XnxMZipmFN0foLChyKYHOfBpGPYAv6YPPtkFshFdIUd_NQn9N_5ZSiM3S9QJDgpYjquWLsgxIFdwU_JY2emDM_uzyvy7d3brzcfyttP7z_evLktreBqKTmWJ0zDHHVto8DKrheKSQVNY5nkHTQbA9TZDT6pAb6BHiRIB8w40yvgV-T6xJ33mx30FgIWMuk5-R32oaPx-s-f4Ae9jQfdMooTkwh4eQ9I8cce8qJ3PluYJhMg7rNmbSO7VtWK_V8qVadkI8VKZSepTTHnBO6hIkb1mqkeNWaq10w1lRozRc-L31t5cPwKEQWvTwLAgR48JJ2th2Ch9wmnrvvo_4m__sttJx-8NdN3OEIe4z7hOmAXOtea6i_rUq07xQTuk6KU_wQ4T81j |
| CitedBy_id | crossref_primary_10_1016_j_cmi_2016_11_001 crossref_primary_10_1080_23744235_2018_1463451 crossref_primary_10_1128_mBio_01235_16 crossref_primary_10_1007_s42770_020_00229_w crossref_primary_10_1126_scitranslmed_aad9922 crossref_primary_10_1038_s41467_021_26500_8 crossref_primary_10_1016_j_jcv_2018_07_003 crossref_primary_10_1016_j_vaccine_2017_06_048 crossref_primary_10_1080_21505594_2018_1504561 crossref_primary_10_3389_fmicb_2018_02475 |
| Cites_doi | 10.1038/nbt1385 10.1136/adc.2004.049551 10.1371/journal.pone.0029695 10.1073/pnas.1119540109 10.1371/journal.pone.0060416 10.1136/thx.2005.048397 10.1186/1743-422X-9-171 10.1128/JCM.01186-11 10.1128/CMR.00037-07 10.1111/j.1651-2227.2007.00226.x 10.1590/0074-0276140273 10.1007/s10156-010-0097-x 10.1261/rna.034710.112 10.1172/JCI38248 10.1136/adc.79.3.225 10.1093/pch/9.1.21 10.1016/S1473-3099(04)01044-8 10.4049/jimmunol.1100381 10.1111/pai.12141 10.1093/cid/cir043 10.1093/bioinformatics/bts188 |
| ContentType | Journal Article |
| Copyright | Elsevier B.V. 2015 Elsevier B.V. Copyright © 2015 Elsevier B.V. All rights reserved. Copyright © 2015 Elsevier B.V. All rights reserved. 2015 Elsevier B.V. |
| Copyright_xml | – notice: Elsevier B.V. – notice: 2015 Elsevier B.V. – notice: Copyright © 2015 Elsevier B.V. All rights reserved. – notice: Copyright © 2015 Elsevier B.V. All rights reserved. 2015 Elsevier B.V. |
| DBID | CGR CUY CVF ECM EIF NPM AAYXX CITATION 7X8 7U9 H94 5PM |
| DOI | 10.1016/j.jcv.2015.06.005 |
| DatabaseName | Medline MEDLINE MEDLINE (Ovid) MEDLINE MEDLINE PubMed CrossRef MEDLINE - Academic Virology and AIDS Abstracts AIDS and Cancer Research Abstracts PubMed Central (Full Participant titles) |
| DatabaseTitle | MEDLINE Medline Complete MEDLINE with Full Text PubMed MEDLINE (Ovid) CrossRef MEDLINE - Academic AIDS and Cancer Research Abstracts Virology and AIDS Abstracts |
| DatabaseTitleList | MEDLINE - Academic MEDLINE AIDS and Cancer Research Abstracts |
| Database_xml | – sequence: 1 dbid: NPM name: PubMed url: https://proxy.k.utb.cz/login?url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed sourceTypes: Index Database – sequence: 2 dbid: EIF name: MEDLINE url: https://proxy.k.utb.cz/login?url=https://www.webofscience.com/wos/medline/basic-search sourceTypes: Index Database |
| DeliveryMethod | fulltext_linktorsrc |
| Discipline | Biology |
| EISSN | 1873-5967 |
| EndPage | 196 |
| ExternalDocumentID | 10_1016_j_jcv_2015_06_005 26209405 S1386653215001900 1_s2_0_S1386653215001900 |
| Genre | Research Support, Non-U.S. Gov't Journal Article |
| GroupedDBID | --- --K --M .1- .FO .GJ .~1 0R~ 1B1 1P~ 1RT 1~. 1~5 29K 4.4 457 4CK 4G. 53G 5GY 5VS 7-5 71M 8P~ AAAJQ AABNK AACTN AAEDT AAEDW AAIKJ AAKOC AALRI AAOAW AAQFI AAQXK AARKO AAXKI AAXUO ABBQC ABFNM ABFRF ABJNI ABMAC ABMZM ABXDB ACDAQ ACGFO ACGFS ACIUM ACRLP ADBBV ADEZE ADMUD ADVLN AEBSH AEFWE AEKER AENEX AEVXI AFCTW AFJKZ AFKWA AFRHN AFTJW AFXIZ AGEKW AGHFR AGUBO AGYEJ AIEXJ AIKHN AITUG AJOXV AJRQY AJUYK AKRWK ALMA_UNASSIGNED_HOLDINGS AMFUW AMRAJ ANZVX ASPBG AVWKF AXJTR AZFZN BKOJK BLXMC BNPGV CJTIS CS3 D-I DU5 EBS EFJIC EJD EO8 EO9 EP2 EP3 F5P FDB FEDTE FGOYB FIRID FNPLU FYGXN G-Q GBLVA HVGLF HX~ HZ~ IHE J1W KOM LUGTX M41 MO0 N9A O-L O9- OAUVE OD- OO. OZT P-8 P-9 P2P PC. Q38 R2- RIG ROL RPZ SCC SDF SDG SDP SEL SES SEW SPCBC SSH SSI SSZ T5K UNMZH Z5R ~G- AAIAV ABLVK ABYKQ AJBFU EFLBG LCYCR CGR CUY CVF ECM EIF NPM AAYXX CITATION 7X8 7U9 H94 5PM |
| ID | FETCH-LOGICAL-c539t-30945a41f0f749ec68d59169e44c1638e4bae0fcb4c10ae3bede6e6fe1afad9e3 |
| IEDL.DBID | AIKHN |
| ISSN | 1386-6532 |
| IngestDate | Tue Sep 17 20:48:44 EDT 2024 Sun Sep 29 07:34:41 EDT 2024 Fri Oct 25 15:10:39 EDT 2024 Thu Sep 26 17:48:05 EDT 2024 Sat Sep 28 08:28:40 EDT 2024 Fri Feb 23 02:30:38 EST 2024 Tue Oct 15 22:57:34 EDT 2024 |
| IsDoiOpenAccess | true |
| IsOpenAccess | true |
| IsPeerReviewed | true |
| IsScholarly | true |
| Keywords | ARI Diagnostics RSV nCounter |
| Language | English |
| License | Copyright © 2015 Elsevier B.V. All rights reserved. Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active. |
| LinkModel | DirectLink |
| MergedId | FETCHMERGED-LOGICAL-c539t-30945a41f0f749ec68d59169e44c1638e4bae0fcb4c10ae3bede6e6fe1afad9e3 |
| Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 |
| ORCID | 0000-0002-7868-5164 |
| OpenAccessLink | https://pubmed.ncbi.nlm.nih.gov/PMC7106536 |
| PMID | 26209405 |
| PQID | 1698964656 |
| PQPubID | 23479 |
| PageCount | 7 |
| ParticipantIDs | pubmedcentral_primary_oai_pubmedcentral_nih_gov_7106536 proquest_miscellaneous_1746879291 proquest_miscellaneous_1698964656 crossref_primary_10_1016_j_jcv_2015_06_005 pubmed_primary_26209405 elsevier_sciencedirect_doi_10_1016_j_jcv_2015_06_005 elsevier_clinicalkeyesjournals_1_s2_0_S1386653215001900 |
| PublicationCentury | 2000 |
| PublicationDate | 2015-08-01 |
| PublicationDateYYYYMMDD | 2015-08-01 |
| PublicationDate_xml | – month: 08 year: 2015 text: 2015-08-01 day: 01 |
| PublicationDecade | 2010 |
| PublicationPlace | Netherlands |
| PublicationPlace_xml | – name: Netherlands |
| PublicationTitle | Journal of clinical virology |
| PublicationTitleAlternate | J Clin Virol |
| PublicationYear | 2015 |
| Publisher | Elsevier B.V |
| Publisher_xml | – name: Elsevier B.V |
| References | Hishiki, Ishiwada, Fukasawa, Abe, Hoshino, Aizawa (bib0080) 2011; 17 Moens, Pannecouque, Lopez, Talledo, Gotuzzo, Khouri (bib0105) 2012; 9 Barczak, Gomez, Kaufmann, Hinson, Cosimi, Borowsky (bib0055) 2012; 109 Thorburn, Harigopal, Reddy, Taylor, van Saene (bib0090) 2006; 61 Bouzas, Cardoso, Sole, Barral, Nascimento-Carvalho, Acute Respiratory (bib0030) 2014; 25 Prokopec, Watson, Waggott, Smith, Wu, Okey (bib0045) 2013; 19 Resch, Gusenleitner, Mueller (bib0075) 2007; 96 Segovia, Sabbah, Mgbemena, Tsai, Chang, Berton (bib0095) 2012; 7 Houspie, Lemey, Keyaerts, Reijmen, Vergote, Vankeerberghen (bib0035) 2013; 8 Fang, Tsuchiya, Kawamura, Shen, Hara, Sakai (bib0100) 2011; 187 Waggott, Chu, Yin, Wouters, Liu, Boutros (bib0040) 2012; 28 Pavia (bib0005) 2011; 52 Mahony (bib0010) 2008; 21 Payton, Grieselhuber, Chang, Murakami, Geiss, Link (bib0050) 2009; 119 Geiss, Bumgarner, Birditt, Dahl, Dowidar, Dunaway (bib0025) 2008; 26 Fahey, Stocks, Thomas (bib0015) 1998; 79 Yang, Rothman (bib0020) 2004; 4 Pettigrew, Gent, Pyles, Miller, Nokso-Koivisto, Chonmaitree (bib0070) 2011; 49 Robinson (bib0060) 2004; 9 Duttweiler, Nadal, Frey (bib0085) 2004; 89 Silva Rde, Siqueira, Netto, Bastos, Nascimento-Carvalho, Vilas-Boas (bib0065) 2014; 109 Bouzas (10.1016/j.jcv.2015.06.005_bib0030) 2014; 25 Robinson (10.1016/j.jcv.2015.06.005_bib0060) 2004; 9 Barczak (10.1016/j.jcv.2015.06.005_bib0055) 2012; 109 Houspie (10.1016/j.jcv.2015.06.005_bib0035) 2013; 8 Fahey (10.1016/j.jcv.2015.06.005_bib0015) 1998; 79 Fang (10.1016/j.jcv.2015.06.005_bib0100) 2011; 187 Waggott (10.1016/j.jcv.2015.06.005_bib0040) 2012; 28 Payton (10.1016/j.jcv.2015.06.005_bib0050) 2009; 119 Hishiki (10.1016/j.jcv.2015.06.005_bib0080) 2011; 17 Mahony (10.1016/j.jcv.2015.06.005_bib0010) 2008; 21 Yang (10.1016/j.jcv.2015.06.005_bib0020) 2004; 4 Prokopec (10.1016/j.jcv.2015.06.005_bib0045) 2013; 19 Resch (10.1016/j.jcv.2015.06.005_bib0075) 2007; 96 Segovia (10.1016/j.jcv.2015.06.005_bib0095) 2012; 7 Moens (10.1016/j.jcv.2015.06.005_bib0105) 2012; 9 Duttweiler (10.1016/j.jcv.2015.06.005_bib0085) 2004; 89 Silva Rde (10.1016/j.jcv.2015.06.005_bib0065) 2014; 109 Pettigrew (10.1016/j.jcv.2015.06.005_bib0070) 2011; 49 Pavia (10.1016/j.jcv.2015.06.005_bib0005) 2011; 52 Thorburn (10.1016/j.jcv.2015.06.005_bib0090) 2006; 61 Geiss (10.1016/j.jcv.2015.06.005_bib0025) 2008; 26 |
| References_xml | – volume: 96 start-page: 495 year: 2007 end-page: 498 ident: bib0075 article-title: Risk of concurrent bacterial infection in preterm infants hospitalized due to respiratory syncytial virus infection publication-title: Acta Paediatr. contributor: fullname: Mueller – volume: 28 start-page: 1546 year: 2012 end-page: 1548 ident: bib0040 article-title: NanoStringNormn: an extensible R package for the pre-processing of NanoString mRNA and miRNA data publication-title: Bioinformatics contributor: fullname: Boutros – volume: 19 start-page: 51 year: 2013 end-page: 62 ident: bib0045 article-title: Systematic evaluation of medium-throughput mRNA abundance platforms publication-title: RNA contributor: fullname: Okey – volume: 119 start-page: 1714 year: 2009 end-page: 1726 ident: bib0050 article-title: High throughput digital quantification of mRNA abundance in primary human acute myeloid leukemia samples publication-title: J. Clin. Invest. contributor: fullname: Link – volume: 109 start-page: 6217 year: 2012 end-page: 6222 ident: bib0055 article-title: RNA signatures allow rapid identification of pathogens and antibiotic susceptibilities publication-title: Proc. Natl. Acad. Sci. U. S. A. contributor: fullname: Borowsky – volume: 52 start-page: S284 year: 2011 end-page: 9 ident: bib0005 article-title: Viral infections of the lower respiratory tract: old viruses, new viruses, and the role of diagnosis publication-title: Clin. Infect Dis. contributor: fullname: Pavia – volume: 25 start-page: 198 year: 2014 end-page: 200 ident: bib0030 article-title: Validating report of first episode of wheezing with pediatrician-detected wheezing among children publication-title: Pediatr. Allergy Immunol. contributor: fullname: Acute Respiratory – volume: 79 start-page: 225 year: 1998 end-page: 230 ident: bib0015 article-title: Systematic review of the treatment of upper respiratory tract infection publication-title: Arch. Dis. Child contributor: fullname: Thomas – volume: 21 start-page: 716 year: 2008 end-page: 747 ident: bib0010 article-title: Detection of respiratory viruses by molecular methods publication-title: Clin. Microbiol. Rev. contributor: fullname: Mahony – volume: 4 start-page: 337 year: 2004 end-page: 348 ident: bib0020 article-title: PCR-based diagnostics for infectious diseases: uses, limitations, and future applications in acute-care settings publication-title: Lancet Infect. Dis. contributor: fullname: Rothman – volume: 187 start-page: 4890 year: 2011 end-page: 4899 ident: bib0100 article-title: Critical roles of ASC inflammasomes in caspase-1 activation and host innate resistance to publication-title: J. Immunol. contributor: fullname: Sakai – volume: 49 start-page: 3750 year: 2011 end-page: 3755 ident: bib0070 article-title: Viral-bacterial interactions and risk of acute otitis media complicating upper respiratory tract infection publication-title: J. Clin. Microbiol. contributor: fullname: Chonmaitree – volume: 7 start-page: e29695 year: 2012 ident: bib0095 article-title: TLR2/MyD88/NF-kappaB pathway, reactive oxygen species, potassium efflux activates NLRP3/ASC inflammasome during respiratory syncytial virus infection publication-title: PLoS One contributor: fullname: Berton – volume: 26 start-page: 317 year: 2008 end-page: 325 ident: bib0025 article-title: Direct multiplexed measurement of gene expression with color-coded probe pairs publication-title: Nat. Biotechnol. contributor: fullname: Dunaway – volume: 9 start-page: 171 year: 2012 ident: bib0105 article-title: Simultaneous RNA quantification of human and retroviral genomes reveals intact interferon signaling in HTLV-1-infected CD4+ T cell lines publication-title: Virol. J. contributor: fullname: Khouri – volume: 61 start-page: 611 year: 2006 end-page: 615 ident: bib0090 article-title: High incidence of pulmonary bacterial co-infection in children with severe respiratory syncytial virus (RSV) bronchiolitis publication-title: Thorax contributor: fullname: van Saene – volume: 89 start-page: 1155 year: 2004 end-page: 1157 ident: bib0085 article-title: Pulmonary and systemic bacterial co-infections in severe RSV bronchiolitis publication-title: Arch. Dis. Child contributor: fullname: Frey – volume: 8 start-page: e60416 year: 2013 ident: bib0035 article-title: Circulation of HRSV in Belgium: from multiple genotype circulation to prolonged circulation of predominant genotypes publication-title: PLoS One contributor: fullname: Vankeerberghen – volume: 109 start-page: 229 year: 2014 end-page: 235 ident: bib0065 article-title: Epidemiological aspects of influenza A related to climatic conditions during and after a pandemic period in the city of Salvador, Northeastern Brazil publication-title: Mem Inst. Oswaldo Cruz. contributor: fullname: Vilas-Boas – volume: 17 start-page: 87 year: 2011 end-page: 90 ident: bib0080 article-title: Incidence of bacterial coinfection with respiratory syncytial virus bronchopulmonary infection in pediatric inpatients publication-title: J. Infect. Chemother. contributor: fullname: Aizawa – volume: 9 start-page: 21 year: 2004 end-page: 24 ident: bib0060 article-title: Colonization and infection of the respiratory tract: what do we know publication-title: Paediatr. Child Health contributor: fullname: Robinson – volume: 26 start-page: 317 year: 2008 ident: 10.1016/j.jcv.2015.06.005_bib0025 article-title: Direct multiplexed measurement of gene expression with color-coded probe pairs publication-title: Nat. Biotechnol. doi: 10.1038/nbt1385 contributor: fullname: Geiss – volume: 89 start-page: 1155 year: 2004 ident: 10.1016/j.jcv.2015.06.005_bib0085 article-title: Pulmonary and systemic bacterial co-infections in severe RSV bronchiolitis publication-title: Arch. Dis. Child doi: 10.1136/adc.2004.049551 contributor: fullname: Duttweiler – volume: 7 start-page: e29695 year: 2012 ident: 10.1016/j.jcv.2015.06.005_bib0095 article-title: TLR2/MyD88/NF-kappaB pathway, reactive oxygen species, potassium efflux activates NLRP3/ASC inflammasome during respiratory syncytial virus infection publication-title: PLoS One doi: 10.1371/journal.pone.0029695 contributor: fullname: Segovia – volume: 109 start-page: 6217 year: 2012 ident: 10.1016/j.jcv.2015.06.005_bib0055 article-title: RNA signatures allow rapid identification of pathogens and antibiotic susceptibilities publication-title: Proc. Natl. Acad. Sci. U. S. A. doi: 10.1073/pnas.1119540109 contributor: fullname: Barczak – volume: 8 start-page: e60416 year: 2013 ident: 10.1016/j.jcv.2015.06.005_bib0035 article-title: Circulation of HRSV in Belgium: from multiple genotype circulation to prolonged circulation of predominant genotypes publication-title: PLoS One doi: 10.1371/journal.pone.0060416 contributor: fullname: Houspie – volume: 61 start-page: 611 year: 2006 ident: 10.1016/j.jcv.2015.06.005_bib0090 article-title: High incidence of pulmonary bacterial co-infection in children with severe respiratory syncytial virus (RSV) bronchiolitis publication-title: Thorax doi: 10.1136/thx.2005.048397 contributor: fullname: Thorburn – volume: 9 start-page: 171 year: 2012 ident: 10.1016/j.jcv.2015.06.005_bib0105 article-title: Simultaneous RNA quantification of human and retroviral genomes reveals intact interferon signaling in HTLV-1-infected CD4+ T cell lines publication-title: Virol. J. doi: 10.1186/1743-422X-9-171 contributor: fullname: Moens – volume: 49 start-page: 3750 year: 2011 ident: 10.1016/j.jcv.2015.06.005_bib0070 article-title: Viral-bacterial interactions and risk of acute otitis media complicating upper respiratory tract infection publication-title: J. Clin. Microbiol. doi: 10.1128/JCM.01186-11 contributor: fullname: Pettigrew – volume: 21 start-page: 716 year: 2008 ident: 10.1016/j.jcv.2015.06.005_bib0010 article-title: Detection of respiratory viruses by molecular methods publication-title: Clin. Microbiol. Rev. doi: 10.1128/CMR.00037-07 contributor: fullname: Mahony – volume: 96 start-page: 495 year: 2007 ident: 10.1016/j.jcv.2015.06.005_bib0075 article-title: Risk of concurrent bacterial infection in preterm infants hospitalized due to respiratory syncytial virus infection publication-title: Acta Paediatr. doi: 10.1111/j.1651-2227.2007.00226.x contributor: fullname: Resch – volume: 109 start-page: 229 year: 2014 ident: 10.1016/j.jcv.2015.06.005_bib0065 article-title: Epidemiological aspects of influenza A related to climatic conditions during and after a pandemic period in the city of Salvador, Northeastern Brazil publication-title: Mem Inst. Oswaldo Cruz. doi: 10.1590/0074-0276140273 contributor: fullname: Silva Rde – volume: 17 start-page: 87 year: 2011 ident: 10.1016/j.jcv.2015.06.005_bib0080 article-title: Incidence of bacterial coinfection with respiratory syncytial virus bronchopulmonary infection in pediatric inpatients publication-title: J. Infect. Chemother. doi: 10.1007/s10156-010-0097-x contributor: fullname: Hishiki – volume: 19 start-page: 51 year: 2013 ident: 10.1016/j.jcv.2015.06.005_bib0045 article-title: Systematic evaluation of medium-throughput mRNA abundance platforms publication-title: RNA doi: 10.1261/rna.034710.112 contributor: fullname: Prokopec – volume: 119 start-page: 1714 year: 2009 ident: 10.1016/j.jcv.2015.06.005_bib0050 article-title: High throughput digital quantification of mRNA abundance in primary human acute myeloid leukemia samples publication-title: J. Clin. Invest. doi: 10.1172/JCI38248 contributor: fullname: Payton – volume: 79 start-page: 225 year: 1998 ident: 10.1016/j.jcv.2015.06.005_bib0015 article-title: Systematic review of the treatment of upper respiratory tract infection publication-title: Arch. Dis. Child doi: 10.1136/adc.79.3.225 contributor: fullname: Fahey – volume: 9 start-page: 21 year: 2004 ident: 10.1016/j.jcv.2015.06.005_bib0060 article-title: Colonization and infection of the respiratory tract: what do we know publication-title: Paediatr. Child Health doi: 10.1093/pch/9.1.21 contributor: fullname: Robinson – volume: 4 start-page: 337 year: 2004 ident: 10.1016/j.jcv.2015.06.005_bib0020 article-title: PCR-based diagnostics for infectious diseases: uses, limitations, and future applications in acute-care settings publication-title: Lancet Infect. Dis. doi: 10.1016/S1473-3099(04)01044-8 contributor: fullname: Yang – volume: 187 start-page: 4890 year: 2011 ident: 10.1016/j.jcv.2015.06.005_bib0100 article-title: Critical roles of ASC inflammasomes in caspase-1 activation and host innate resistance to Streptococcus pneumoniae infection publication-title: J. Immunol. doi: 10.4049/jimmunol.1100381 contributor: fullname: Fang – volume: 25 start-page: 198 year: 2014 ident: 10.1016/j.jcv.2015.06.005_bib0030 article-title: Validating report of first episode of wheezing with pediatrician-detected wheezing among children publication-title: Pediatr. Allergy Immunol. doi: 10.1111/pai.12141 contributor: fullname: Bouzas – volume: 52 start-page: S284 issue: Suppl. 4 year: 2011 ident: 10.1016/j.jcv.2015.06.005_bib0005 article-title: Viral infections of the lower respiratory tract: old viruses, new viruses, and the role of diagnosis publication-title: Clin. Infect Dis. doi: 10.1093/cid/cir043 contributor: fullname: Pavia – volume: 28 start-page: 1546 year: 2012 ident: 10.1016/j.jcv.2015.06.005_bib0040 article-title: NanoStringNormn: an extensible R package for the pre-processing of NanoString mRNA and miRNA data publication-title: Bioinformatics doi: 10.1093/bioinformatics/bts188 contributor: fullname: Waggott |
| SSID | ssj0015347 |
| Score | 2.2216082 |
| Snippet | Highlights • nCounter enables detection of pathogen transcripts in NPA with low RNA input. • nCounter detects, in a single reaction, the presence of multiple... •nCounter enables detection of pathogen transcripts in NPA with low RNA input.•nCounter detects, in a single reaction, the presence of multiple pathogens in... Acute respiratory tract infections (ARI) present a significant morbidity and pose a global health burden. Patients are frequently treated with antibiotics... BACKGROUNDAcute respiratory tract infections (ARI) present a significant morbidity and pose a global health burden. Patients are frequently treated with... Background Acute respiratory tract infections (ARI) present a significant morbidity and pose a global health burden. Patients are frequently treated with... • nCounter enables detection of pathogen transcripts in NPA with low RNA input. • nCounter detects, in a single reaction, the presence of multiple pathogens in... |
| SourceID | pubmedcentral proquest crossref pubmed elsevier |
| SourceType | Open Access Repository Aggregation Database Index Database Publisher |
| StartPage | 190 |
| SubjectTerms | Allergy and Immunology ARI Bacteria - classification Bacteria - genetics Bacteria - isolation & purification Bacterial Infections - diagnosis Chlamydophila pneumoniae Diagnostics Gene Expression Profiling - methods Haemophilus influenzae Human metapneumovirus Humans Infant Infectious Disease Influenza virus Moraxella catarrhalis Multiplex Polymerase Chain Reaction - methods Mycoplasma pneumoniae Nasopharynx - microbiology nCounter Parainfluenza virus Phylogeny Respiratory Tract Infections - diagnosis Respiratory Tract Infections - microbiology Rhinovirus RNA, Bacterial - analysis RNA, Viral - analysis RSV Sensitivity and Specificity Staphylococcus aureus Streptococcus pneumoniae Virus Diseases - diagnosis Viruses - classification Viruses - genetics Viruses - isolation & purification |
| Title | Pathogen transcriptional profile in nasopharyngeal aspirates of children with acute respiratory tract infection |
| URI | https://www.clinicalkey.es/playcontent/1-s2.0-S1386653215001900 https://dx.doi.org/10.1016/j.jcv.2015.06.005 https://www.ncbi.nlm.nih.gov/pubmed/26209405 https://search.proquest.com/docview/1698964656 https://search.proquest.com/docview/1746879291 https://pubmed.ncbi.nlm.nih.gov/PMC7106536 |
| Volume | 69 |
| hasFullText | 1 |
| inHoldings | 1 |
| isFullTextHit | |
| isPrint | |
| link | http://utb.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwnV1Lb9QwELZKKyQuiPJcHpWROCGFtWM72RyrimoLokKCSr1ZjjOG7cGpdrNIvfDbmUnihaVVDz06sZOMPZ75nHkx9q4Qqpw53Gkgcp_pJpisAh8yLT00IVcAfbjYl9NifqY_nZvzHXaUYmHIrXKU_YNM76X1eGU6zub0crGYfpOKcrUp1FmEUwSe2_dQHeXI2nuHJ5_npxtjglF9nTHqn9GAZNzs3bwu_C9y8DJ9Fk8qYnezeroOP__3ovxHLR0_Yg9HPMkPh0_eZzsQH7P7Q4XJqyes_YoIr0Um4R0ppSQicMRYrJsvIo-Oahm45VX8gbCRu8H4DiveBp6CvTn9sOXOrzvgy7_meXqs73hy6YpP2dnxx-9H82yssZB5o6ouU3i8M07LIEKpcZWKWWMQMVagtSeoBrp2IIKvsSkcqBoaKKAIIF1wTQXqGduNbYQXjLucks3VIQhZa4rINa4xunTC-zCTXk_Y-zS19nJIpWGTj9mFxXWwtA6297MzE1amybcpRhSlGqzGLbay0q5yK-w1NpgwvRm5xUkWlcRtL3ybltjiDiOziYvQrvFFVGOzoLxyt_QpdTErEWrKCXs-sMWGRkr5X-mepC2G2XSgDN_bd-LiZ5_pG-Efkla8vBtJr9gDag3uiq_ZbrdcwxuEUF19wO59-C0Pxo3yB4r_H4w |
| link.rule.ids | 230,315,783,787,888,4510,24129,27937,27938,45598,45692 |
| linkProvider | Elsevier |
| linkToHtml | http://utb.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwnV1LT9wwELYQqGovVelzW6CuxKlSus7GTjZHhEBLeagSIHGzHGfcLgcH7WYrceG3M-PES7dUHHpM4jxsz-Nz_M0MY7u5yIqxQU0DMbKJrJ1KSrAukamF2o0ygBAudnqWTy7l9yt1tcb2YywM0Sp729_Z9GCt-zPDfjSHN9Pp8DzNKFdbhj6LcIrAdfuGpHTjKNTf7pY8D9ToUGWMWifUPG5tBpLXtf1N9C4VcnhSCbt_O6fH4PNvDuUfTunwFXvZo0m-133wJlsD_5o96-pL3r5hzQ_Edw2KCG_JJUUDgXf0pbr51HNvqJKBmd36nwgauem23mHOG8djqDen37Xc2EULfPawOU-PtS2PhC7_ll0eHlzsT5K-wkJiVVa2SYaLO2Vk6oQrJM5RPq4V4sUSpLQE1EBWBoSzFR4KA1kFNeSQO0iNM3UJ2Tu27hsPHxg3I0o1Vzkn0kpSPK4ytZKFEda6cWrlgH2NQ6tvukQaOjLMrjXOg6Z50IFlpwasiIOvY4Qo2jSY9wo216mej7TQj4RgwOTyzhU50uginnrhlzjFGvWLNk2Mh2aBL6IKmzlllXuiTSHzcYFAMx2w951YLPtICf9LGbq0IjDLBpTfe_WKn_4Keb4R_GHX8o__16XP7Pnk4vREnxydHX9iL-hKR1zcYuvtbAHbCKbaaicoyz0zTSBl |
| openUrl | ctx_ver=Z39.88-2004&ctx_enc=info%3Aofi%2Fenc%3AUTF-8&rfr_id=info%3Asid%2Fsummon.serialssolutions.com&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rft.genre=article&rft.atitle=Pathogen+transcriptional+profile+in+nasopharyngeal+aspirates+of+children+with+acute+respiratory+tract+infection&rft.jtitle=Journal+of+clinical+virology&rft.au=Fukutani%2C+Kiyoshi+F&rft.au=Nascimento-Carvalho%2C+Cristiana+M&rft.au=Van+der+Gucht%2C+Winke&rft.au=Wollants%2C+Elke&rft.date=2015-08-01&rft.eissn=1873-5967&rft.volume=69&rft.spage=190&rft_id=info:doi/10.1016%2Fj.jcv.2015.06.005&rft_id=info%3Apmid%2F26209405&rft.externalDocID=26209405 |
| thumbnail_m | http://utb.summon.serialssolutions.com/2.0.0/image/custom?url=https%3A%2F%2Fcdn.clinicalkey.com%2Fck-thumbnails%2F13866532%2FS1386653215X00072%2Fcov150h.gif |