Metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma

Abstract Systemic anaplastic large cell lymphoma (ALCL) is a rare CD30-expressing T-cell non-Hodgkin lymphoma. Risk of systemic ALCL is highly increased among immunosuppressed individuals. Because risk of cancers associated with viruses is increased with immunosuppression, we conducted a metagenomic...

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Autores principales:	Parag Mahale, Jason Nomburg, Joo Y. Song, Mia Steinberg, Gabriel Starrett, Joseph Boland, Charles F. Lynch, Amy Chadburn, Paul G. Rubinstein, Brenda Y. Hernandez, Dennis D. Weisenburger, Susan Bullman, Eric A. Engels
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Lymphoma Viruses Metagenomics Immunosuppression Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282 Infectious and parasitic diseases RC109-216
Acceso en línea:	https://doaj.org/article/0f4a3246766a4a9c8765154cfb5fa79b
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spelling	oai:doaj.org-article:0f4a3246766a4a9c8765154cfb5fa79b2021-11-21T12:09:20ZMetagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma10.1186/s13027-021-00404-01750-9378https://doaj.org/article/0f4a3246766a4a9c8765154cfb5fa79b2021-11-01T00:00:00Zhttps://doi.org/10.1186/s13027-021-00404-0https://doaj.org/toc/1750-9378Abstract Systemic anaplastic large cell lymphoma (ALCL) is a rare CD30-expressing T-cell non-Hodgkin lymphoma. Risk of systemic ALCL is highly increased among immunosuppressed individuals. Because risk of cancers associated with viruses is increased with immunosuppression, we conducted a metagenomic analysis of systemic ALCL to determine whether a known or novel pathogen is associated with this malignancy. Total RNA was extracted and sequenced from formalin-fixed paraffin-embedded tumor specimens from 19 systemic ALCL cases (including one case from an immunosuppressed individual with human immunodeficiency virus infection), 3 Epstein-Barr virus positive diffuse large B-cell lymphomas (DLBCLs) occurring in solid organ transplant recipients (positive controls), and 3 breast cancers (negative controls). We used a pipeline based on the Genome Analysis Toolkit (GATK)-PathSeq algorithm to subtract out human RNA reads and map the remaining RNA reads to microbes. No microbial association with ALCL was identified, but we found Epstein-Barr virus in the DLBCL positive controls and determined the breast cancers to be negative. In conclusion, we did not find a pathogen associated with systemic ALCL, but because we analyzed only one ALCL tumor from an immunosuppressed person, we cannot exclude the possibility that a pathogen is associated with some cases that arise in the setting of immunosuppression.Parag MahaleJason NomburgJoo Y. SongMia SteinbergGabriel StarrettJoseph BolandCharles F. LynchAmy ChadburnPaul G. RubinsteinBrenda Y. HernandezDennis D. WeisenburgerSusan BullmanEric A. EngelsBMCarticleLymphomaVirusesMetagenomicsImmunosuppressionNeoplasms. Tumors. Oncology. Including cancer and carcinogensRC254-282Infectious and parasitic diseasesRC109-216ENInfectious Agents and Cancer, Vol 16, Iss 1, Pp 1-6 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Lymphoma Viruses Metagenomics Immunosuppression Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282 Infectious and parasitic diseases RC109-216
spellingShingle	Lymphoma Viruses Metagenomics Immunosuppression Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282 Infectious and parasitic diseases RC109-216 Parag Mahale Jason Nomburg Joo Y. Song Mia Steinberg Gabriel Starrett Joseph Boland Charles F. Lynch Amy Chadburn Paul G. Rubinstein Brenda Y. Hernandez Dennis D. Weisenburger Susan Bullman Eric A. Engels Metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma
description	Abstract Systemic anaplastic large cell lymphoma (ALCL) is a rare CD30-expressing T-cell non-Hodgkin lymphoma. Risk of systemic ALCL is highly increased among immunosuppressed individuals. Because risk of cancers associated with viruses is increased with immunosuppression, we conducted a metagenomic analysis of systemic ALCL to determine whether a known or novel pathogen is associated with this malignancy. Total RNA was extracted and sequenced from formalin-fixed paraffin-embedded tumor specimens from 19 systemic ALCL cases (including one case from an immunosuppressed individual with human immunodeficiency virus infection), 3 Epstein-Barr virus positive diffuse large B-cell lymphomas (DLBCLs) occurring in solid organ transplant recipients (positive controls), and 3 breast cancers (negative controls). We used a pipeline based on the Genome Analysis Toolkit (GATK)-PathSeq algorithm to subtract out human RNA reads and map the remaining RNA reads to microbes. No microbial association with ALCL was identified, but we found Epstein-Barr virus in the DLBCL positive controls and determined the breast cancers to be negative. In conclusion, we did not find a pathogen associated with systemic ALCL, but because we analyzed only one ALCL tumor from an immunosuppressed person, we cannot exclude the possibility that a pathogen is associated with some cases that arise in the setting of immunosuppression.
format	article
author	Parag Mahale Jason Nomburg Joo Y. Song Mia Steinberg Gabriel Starrett Joseph Boland Charles F. Lynch Amy Chadburn Paul G. Rubinstein Brenda Y. Hernandez Dennis D. Weisenburger Susan Bullman Eric A. Engels
author_facet	Parag Mahale Jason Nomburg Joo Y. Song Mia Steinberg Gabriel Starrett Joseph Boland Charles F. Lynch Amy Chadburn Paul G. Rubinstein Brenda Y. Hernandez Dennis D. Weisenburger Susan Bullman Eric A. Engels
author_sort	Parag Mahale
title	Metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma
title_short	Metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma
title_full	Metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma
title_fullStr	Metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma
title_full_unstemmed	Metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma
title_sort	metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma
publisher	BMC
publishDate	2021
url	https://doaj.org/article/0f4a3246766a4a9c8765154cfb5fa79b
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Metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma

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