About: Metagenomic Sequencing Detects Respiratory Pathogens in Hematopoietic Cellular Transplant Patients

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An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Metagenomic Sequencing Detects Respiratory Pathogens in Hematopoietic Cellular Transplant Patients
Creator	Langelier, Charles Biohub, Chan Ca, Chiu, ; Christenson, ; Derisi, ; Dvorak, ; Ga, Kalantar, ; Langelier, Miller, ; Odonovan, ; San, Francisco Sapru, ; White, ; Wilson, ; Yanik, ; Zinter, ;
Source	BioRxiv; MedRxiv
abstract	Current microbiologic diagnostics often fail to identify the etiology of lower respiratory tract infections (LRTI) in hematopoietic cellular transplant recipients (HCT), which precludes the implementation of targeted therapies. To address the need for improved LRTI diagnostics, we evaluated the utility of metagenomic next generation sequencing (mNGS) of bronchoalveolar lavage (BAL) to detect microbial pathogens in HCT patients with acute respiratory illnesses. We enrolled 22 post-HCT adults ages 19-69 years with acute respiratory illnesses who underwent BAL at the University of Michigan between January 2012 and May 2013. mNGS was performed on BAL fluid to detect microbes and simultaneously assess the host transcriptional response. Results were compared against conventional microbiologic assays. mNGS demonstrated 100% sensitivity for detecting respiratory microbes (human metapneumovirus, respiratory syncytial virus, Stenotrophomonas maltophilia, human herpesvirus 6 and cytomegalovirus) when compared to standard testing. Previously unrecognized LRTI pathogens were identified in six patients for whom standard testing was negative (human coronavirus 229E, human rhinovirus A, Corynebacterium propinquum and Streptococcus mitis); findings were confirmed by independent PCR and 16S rRNA sequencing. Relative to patients without infection, patients with infection had increased expression of immunity related genes (p=0.022) and significantly lower diversity of their respiratory microbiome (p=0.017). Compared to conventional diagnostics, mNGS enhanced detection of pathogens in BAL fluid from HCT patients. Furthermore, our results suggest that combining unbiased microbial pathogen detection with assessment of host gene biomarkers of immune response may hold promise for enhancing the diagnosis of post-HCT respiratory infections.
has issue date	2017-01-24(xsd:dateTime)
bibo:doi	10.1101/102798
has license	medrxiv
sha1sum (hex)	d418cdee18b07a0adfb553d43b4a08f7736fa9f3
schema:url	https://doi.org/10.1101/102798
resource representing a document's title	Metagenomic Sequencing Detects Respiratory Pathogens in Hematopoietic Cellular Transplant Patients
schema:publication	bioRxiv
resource representing a document's body	covid:d418cdee18b07a0adfb553d43b4a08f7736fa9f3#body_text
is schema:about of	named entity 'respiratory illnesses' named entity 'response' named entity 'cytomegalovirus' named entity 'targeted therapies' named entity 'precision' named entity 'targeted' named entity 'demonstrated' named entity 'Title' named entity 'Running' named entity 'Title' named entity 'Respiratory' named entity 'Respiratory' named entity 'DEMONSTRATED' named entity 'MAIN RESULTS' named entity 'MORBIDITY AND MORTALITY' named entity 'MICROBIOME' named entity 'RESPIRATORY INFECTIONS' named entity 'SIMULTANEOUSLY' named entity 'NON-' named entity 'FLUID' named entity 'LEADING' named entity 'NEED FOR' named entity 'MICROBIAL PATHOGENS' named entity 'LRTI' named entity 'RESULTING IN' covid:arg/d418cdee18b07a0adfb553d43b4a08f7736fa9f3 named entity 'SENSITIVITY' named entity 'DISTINGUISHING' named entity 'PROVIDE' named entity 'INFECTIONS' named entity 'TRANSPLANT' named entity 'COMPARED' named entity 'APPROACH' named entity 'COMMENTARY' named entity 'RESPIRATORY ILLNESS' named entity 'ENROLLED' named entity 'UNKNOWN' named entity 'OBJECTIVES' named entity 'HOST' named entity 'TRANSCRIPTIONAL' named entity 'UTILITY' named entity 'HEMATOPOIETIC' named entity 'RESULTS' named entity 'PATIENTS' named entity 'ANTIMICROBIAL' named entity 'TO DETECT' named entity 'NEW' named entity 'MEASUREMENTS' named entity 'DIAGNOSTICS' named entity 'IMPROVED' named entity 'POST' named entity 'EXCESS' named entity 'EVALUATED' named entity 'RUNNING TITLE' named entity 'TRANSPLANT' named entity 'TITLE' named entity 'HEMATOPOIETIC' named entity 'ADDRESS' named entity 'DETECTING' named entity 'METHOD' named entity 'HUMAN HERPESVIRUS 6' named entity 'YEARS' named entity 'RESPONSE' named entity 'INFECTIOUS' named entity 'ENABLE' named entity 'PRECISION' named entity 'ACUTE'

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