Comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing

Abstract Bloodstream infection (BSI) is a severe complication in immunocompromised patients. Next-generation sequencing (NGS) allows us to analyze comprehensively and quantitatively all microorganisms present in a clinical sample. Thirty-five pediatric patients (12 with BSI and 23 with suspected BSI...

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Autores principales:	Kazuhiro Horiba, Jun-ichi Kawada, Yusuke Okuno, Nobuyuki Tetsuka, Takako Suzuki, Shotaro Ando, Yasuko Kamiya, Yuka Torii, Tetsuya Yagi, Yoshiyuki Takahashi, Yoshinori Ito
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/d50e3ff26ba844f8ba6fcb9f6963151c
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spelling	oai:doaj.org-article:d50e3ff26ba844f8ba6fcb9f6963151c2021-12-02T15:08:05ZComprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing10.1038/s41598-018-22133-y2045-2322https://doaj.org/article/d50e3ff26ba844f8ba6fcb9f6963151c2018-02-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-22133-yhttps://doaj.org/toc/2045-2322Abstract Bloodstream infection (BSI) is a severe complication in immunocompromised patients. Next-generation sequencing (NGS) allows us to analyze comprehensively and quantitatively all microorganisms present in a clinical sample. Thirty-five pediatric patients (12 with BSI and 23 with suspected BSI/negative blood culture) were enrolled. Plasma/serum samples were used for sequencing and the results were compared with those from blood culture. Sequencing reads of bacteria isolated in blood culture were identified by NGS in all plasma/serum samples at disease onset. Bacteria isolated in blood culture were identical to the dominant bacteria by NGS in 8 of 12 patients. Bacterial reads per million reads of the sequence depth (BR) > 200 and relative importance values of the dominant bacteria (P1) > 0.5 were employed to determine causative pathogens. Causative pathogens were detected using these criteria in 7 of 12 patients with BSI. Additionally, causative bacteria were detected in the plasma/serum at 7 days before disease onset in two patients with catheter-related BSI. Causative pathogens, including virus, were identified in three patients with suspected BSI. Lastly, a total of 62 resistance genes were detected by NGS. In conclusion, NGS is a new method to identify causative microorganisms in BSI and may predict BSI in some patients.Kazuhiro HoribaJun-ichi KawadaYusuke OkunoNobuyuki TetsukaTakako SuzukiShotaro AndoYasuko KamiyaYuka ToriiTetsuya YagiYoshiyuki TakahashiYoshinori ItoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-9 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Kazuhiro Horiba Jun-ichi Kawada Yusuke Okuno Nobuyuki Tetsuka Takako Suzuki Shotaro Ando Yasuko Kamiya Yuka Torii Tetsuya Yagi Yoshiyuki Takahashi Yoshinori Ito Comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing
description	Abstract Bloodstream infection (BSI) is a severe complication in immunocompromised patients. Next-generation sequencing (NGS) allows us to analyze comprehensively and quantitatively all microorganisms present in a clinical sample. Thirty-five pediatric patients (12 with BSI and 23 with suspected BSI/negative blood culture) were enrolled. Plasma/serum samples were used for sequencing and the results were compared with those from blood culture. Sequencing reads of bacteria isolated in blood culture were identified by NGS in all plasma/serum samples at disease onset. Bacteria isolated in blood culture were identical to the dominant bacteria by NGS in 8 of 12 patients. Bacterial reads per million reads of the sequence depth (BR) > 200 and relative importance values of the dominant bacteria (P1) > 0.5 were employed to determine causative pathogens. Causative pathogens were detected using these criteria in 7 of 12 patients with BSI. Additionally, causative bacteria were detected in the plasma/serum at 7 days before disease onset in two patients with catheter-related BSI. Causative pathogens, including virus, were identified in three patients with suspected BSI. Lastly, a total of 62 resistance genes were detected by NGS. In conclusion, NGS is a new method to identify causative microorganisms in BSI and may predict BSI in some patients.
format	article
author	Kazuhiro Horiba Jun-ichi Kawada Yusuke Okuno Nobuyuki Tetsuka Takako Suzuki Shotaro Ando Yasuko Kamiya Yuka Torii Tetsuya Yagi Yoshiyuki Takahashi Yoshinori Ito
author_facet	Kazuhiro Horiba Jun-ichi Kawada Yusuke Okuno Nobuyuki Tetsuka Takako Suzuki Shotaro Ando Yasuko Kamiya Yuka Torii Tetsuya Yagi Yoshiyuki Takahashi Yoshinori Ito
author_sort	Kazuhiro Horiba
title	Comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing
title_short	Comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing
title_full	Comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing
title_fullStr	Comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing
title_full_unstemmed	Comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing
title_sort	comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/d50e3ff26ba844f8ba6fcb9f6963151c
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Comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing

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