Tropheryma whipplei Detection by Nanopore Sequencing in Patients With Interstitial Lung Disease

Tropheryma whipplei is a bacterium associated with Whipple’s disease, which commonly manifests as weight loss, arthralgia, and diarrhea. The most frequently involved organs comprise the heart and eyes, in addition to the central nervous system. Few studies have explored the relationship between T. w...

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Autores principales:	Yifan Guo, Lijuan Li, Zhenzhong Li, Lingxiao Sun, Hui Wang
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	Tropheryma whipplei Nanopore metagenomic next-generation sequencing pneumonia infection Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/3db59ea3069347f79abbd0a60efaebb5
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spelling	oai:doaj.org-article:3db59ea3069347f79abbd0a60efaebb52021-12-01T13:44:46ZTropheryma whipplei Detection by Nanopore Sequencing in Patients With Interstitial Lung Disease1664-302X10.3389/fmicb.2021.760696https://doaj.org/article/3db59ea3069347f79abbd0a60efaebb52021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fmicb.2021.760696/fullhttps://doaj.org/toc/1664-302XTropheryma whipplei is a bacterium associated with Whipple’s disease, which commonly manifests as weight loss, arthralgia, and diarrhea. The most frequently involved organs comprise the heart and eyes, in addition to the central nervous system. Few studies have explored the relationship between T. whipplei and pneumonia. Herein, we report three patients with interstitial lung disease (ILD) of unknown cause, whose bronchoalveolar lavage fluid (BALF) were evaluated via Nanopore sequencing. In our in-house BALF Nanopore platform, human DNA was removed with saponin, to improve the reads ratio of microorganisms/host. T. whipplei was the sole or most abundant pathogen in all the patients, comprising 1,385, 826, and 285 reads. The positive result was confirmed via quantitative polymerase chain reaction (PCR) with two pairs of primers (cycle threshold value: 33.26/36.29; 31.68/32.01; 28.82/28.80) and Sanger sequencing. To our knowledge, this is the first report of T. whipplei detection using Nanopore-based sequencing. The turnaround time was approximately 6–8 h in clinical laboratories, including less than 1 h for analysis. In conclusion, the results of this study confirm that Nanopore sequencing can rapidly detect rare pathogens, to improve clinical diagnosis. In addition, diagnosis of Whipple’s disease should be combined other laboratory findings, such as periodic acid-Schiff (PAS) staining, and considered a possibility in middle-aged men presenting with ILD and a clinical history of unexplained arthralgia and/or fever.Yifan GuoYifan GuoLijuan LiLijuan LiZhenzhong LiZhenzhong LiLingxiao SunHui WangHui WangFrontiers Media S.A.articleTropheryma whippleiNanoporemetagenomic next-generation sequencingpneumoniainfectionMicrobiologyQR1-502ENFrontiers in Microbiology, Vol 12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Tropheryma whipplei Nanopore metagenomic next-generation sequencing pneumonia infection Microbiology QR1-502
spellingShingle	Tropheryma whipplei Nanopore metagenomic next-generation sequencing pneumonia infection Microbiology QR1-502 Yifan Guo Yifan Guo Lijuan Li Lijuan Li Zhenzhong Li Zhenzhong Li Lingxiao Sun Hui Wang Hui Wang Tropheryma whipplei Detection by Nanopore Sequencing in Patients With Interstitial Lung Disease
description	Tropheryma whipplei is a bacterium associated with Whipple’s disease, which commonly manifests as weight loss, arthralgia, and diarrhea. The most frequently involved organs comprise the heart and eyes, in addition to the central nervous system. Few studies have explored the relationship between T. whipplei and pneumonia. Herein, we report three patients with interstitial lung disease (ILD) of unknown cause, whose bronchoalveolar lavage fluid (BALF) were evaluated via Nanopore sequencing. In our in-house BALF Nanopore platform, human DNA was removed with saponin, to improve the reads ratio of microorganisms/host. T. whipplei was the sole or most abundant pathogen in all the patients, comprising 1,385, 826, and 285 reads. The positive result was confirmed via quantitative polymerase chain reaction (PCR) with two pairs of primers (cycle threshold value: 33.26/36.29; 31.68/32.01; 28.82/28.80) and Sanger sequencing. To our knowledge, this is the first report of T. whipplei detection using Nanopore-based sequencing. The turnaround time was approximately 6–8 h in clinical laboratories, including less than 1 h for analysis. In conclusion, the results of this study confirm that Nanopore sequencing can rapidly detect rare pathogens, to improve clinical diagnosis. In addition, diagnosis of Whipple’s disease should be combined other laboratory findings, such as periodic acid-Schiff (PAS) staining, and considered a possibility in middle-aged men presenting with ILD and a clinical history of unexplained arthralgia and/or fever.
format	article
author	Yifan Guo Yifan Guo Lijuan Li Lijuan Li Zhenzhong Li Zhenzhong Li Lingxiao Sun Hui Wang Hui Wang
author_facet	Yifan Guo Yifan Guo Lijuan Li Lijuan Li Zhenzhong Li Zhenzhong Li Lingxiao Sun Hui Wang Hui Wang
author_sort	Yifan Guo
title	Tropheryma whipplei Detection by Nanopore Sequencing in Patients With Interstitial Lung Disease
title_short	Tropheryma whipplei Detection by Nanopore Sequencing in Patients With Interstitial Lung Disease
title_full	Tropheryma whipplei Detection by Nanopore Sequencing in Patients With Interstitial Lung Disease
title_fullStr	Tropheryma whipplei Detection by Nanopore Sequencing in Patients With Interstitial Lung Disease
title_full_unstemmed	Tropheryma whipplei Detection by Nanopore Sequencing in Patients With Interstitial Lung Disease
title_sort	tropheryma whipplei detection by nanopore sequencing in patients with interstitial lung disease
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/3db59ea3069347f79abbd0a60efaebb5
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Tropheryma whipplei Detection by Nanopore Sequencing in Patients With Interstitial Lung Disease

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