No metagenomic evidence of tumorigenic viruses in cancers from a selected cohort of immunosuppressed subjects

The possible existence of yet undiscovered human tumorigenic viruses is still under scrutiny. The development of large-scale sequencing technologies, coupled with bioinformatics techniques for the characterization of metagenomic sequences, have provided an invaluable tool for the detection of unknow...

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Veröffentlicht in:	Scientific reports Jg. 9; H. 1; S. 19815 - 8
Hauptverfasser:	Passaro, Nunzia, Casagrande, Andrea, Chiara, Matteo, Fosso, Bruno, Manzari, Caterina, D’Erchia, Anna Maria, Iesari, Samuele, Pisani, Francesco, Famulari, Antonio, Tulissi, Patrizia, Mastrosimone, Stefania, Maresca, Maria Cristina, Mercante, Giuseppe, Spriano, Giuseppe, Corrado, Giacomo, Vizza, Enrico, Garbuglia, Anna Rosa, Capobianchi, Maria Rosaria, Mottini, Carla, Cenci, Alessandra, Tartaglia, Marco, Costa, Alessandro Nanni, Pesole, Graziano, Crescenzi, Marco
Format:	Journal Article
Sprache:	Englisch
Veröffentlicht:	London Nature Publishing Group UK 24.12.2019 Nature Publishing Group
Schlagworte:	45/22 45/23 45/90 631/67/1858 631/67/69 Bioinformatics Computational Biology - methods Humanities and Social Sciences Humans Immunocompromised Host Immunosuppression - adverse effects Metagenome Metagenomics - methods Microbiomes Microbiota multidisciplinary Neoplasms - virology Oncogenic Viruses - genetics Probability Science Science (multidisciplinary) Sequence Analysis, RNA Tumorigenesis Viruses Viruses - genetics
ISSN:	2045-2322, 2045-2322
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Abstract	The possible existence of yet undiscovered human tumorigenic viruses is still under scrutiny. The development of large-scale sequencing technologies, coupled with bioinformatics techniques for the characterization of metagenomic sequences, have provided an invaluable tool for the detection of unknown, infectious, tumorigenic agents, as demonstrated by several recent studies. However, discoveries of novel viruses possibly associated with tumorigenesis are scarce at best. Here, we apply a rigorous bioinformatics workflow to investigate in depth tumor metagenomes from a small but carefully selected cohort of immunosuppressed patients. While a variegated bacterial microbiome was associated with each tumor, no evidence of the presence of putative oncoviruses was found. These results are consistent with the major findings of several recent papers and suggest that new human tumorigenic viruses are not common even in immunosuppressed populations.
AbstractList	The possible existence of yet undiscovered human tumorigenic viruses is still under scrutiny. The development of large-scale sequencing technologies, coupled with bioinformatics techniques for the characterization of metagenomic sequences, have provided an invaluable tool for the detection of unknown, infectious, tumorigenic agents, as demonstrated by several recent studies. However, discoveries of novel viruses possibly associated with tumorigenesis are scarce at best. Here, we apply a rigorous bioinformatics workflow to investigate in depth tumor metagenomes from a small but carefully selected cohort of immunosuppressed patients. While a variegated bacterial microbiome was associated with each tumor, no evidence of the presence of putative oncoviruses was found. These results are consistent with the major findings of several recent papers and suggest that new human tumorigenic viruses are not common even in immunosuppressed populations.The possible existence of yet undiscovered human tumorigenic viruses is still under scrutiny. The development of large-scale sequencing technologies, coupled with bioinformatics techniques for the characterization of metagenomic sequences, have provided an invaluable tool for the detection of unknown, infectious, tumorigenic agents, as demonstrated by several recent studies. However, discoveries of novel viruses possibly associated with tumorigenesis are scarce at best. Here, we apply a rigorous bioinformatics workflow to investigate in depth tumor metagenomes from a small but carefully selected cohort of immunosuppressed patients. While a variegated bacterial microbiome was associated with each tumor, no evidence of the presence of putative oncoviruses was found. These results are consistent with the major findings of several recent papers and suggest that new human tumorigenic viruses are not common even in immunosuppressed populations. The possible existence of yet undiscovered human tumorigenic viruses is still under scrutiny. The development of large-scale sequencing technologies, coupled with bioinformatics techniques for the characterization of metagenomic sequences, have provided an invaluable tool for the detection of unknown, infectious, tumorigenic agents, as demonstrated by several recent studies. However, discoveries of novel viruses possibly associated with tumorigenesis are scarce at best. Here, we apply a rigorous bioinformatics workflow to investigate in depth tumor metagenomes from a small but carefully selected cohort of immunosuppressed patients. While a variegated bacterial microbiome was associated with each tumor, no evidence of the presence of putative oncoviruses was found. These results are consistent with the major findings of several recent papers and suggest that new human tumorigenic viruses are not common even in immunosuppressed populations.
ArticleNumber	19815
Author	Mottini, Carla D’Erchia, Anna Maria Casagrande, Andrea Pesole, Graziano Chiara, Matteo Mercante, Giuseppe Corrado, Giacomo Vizza, Enrico Cenci, Alessandra Passaro, Nunzia Tartaglia, Marco Iesari, Samuele Spriano, Giuseppe Tulissi, Patrizia Manzari, Caterina Famulari, Antonio Mastrosimone, Stefania Fosso, Bruno Crescenzi, Marco Pisani, Francesco Garbuglia, Anna Rosa Maresca, Maria Cristina Costa, Alessandro Nanni Capobianchi, Maria Rosaria
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Cites_doi	10.1053/j.semdp.2017.09.002 10.1101/gr.126573.111 10.1126/science.1152586 10.1016/j.virol.2009.06.001 10.1371/journal.pone.0020447 10.1172/JCI31405 10.1186/2046-4053-3-11 10.1002/ijc.27581 10.1093/bioinformatics/btx036 10.1186/s12859-014-0366-2 10.1158/1078-0432.CCR-0670-3 10.1002/ijc.31017 10.1089/cmb.2017.0144 10.1371/journal.pone.0172308 10.1001/jama.296.23.2823 10.1101/gr.213959.116 10.1038/sj.bjc.6600688 10.1158/1055-9965.EPI-04-0551 10.1186/1944-3277-10-18 10.1093/bioinformatics/btt256 10.1101/gr.110882.110 10.1016/j.semcancer.2004.06.009 10.1002/wrna.1178 10.1038/nmeth.1923 10.1093/database/baw153 10.1038/ncomms3513 10.1128/JVI.00875-07 10.1016/j.cmi.2016.04.007 10.1093/bioinformatics/bts635 10.1126/science.aar7785 10.15252/embr.201846632
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Snippet	The possible existence of yet undiscovered human tumorigenic viruses is still under scrutiny. The development of large-scale sequencing technologies, coupled...
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SubjectTerms	45/22 45/23 45/90 631/67/1858 631/67/69 Bioinformatics Computational Biology - methods Humanities and Social Sciences Humans Immunocompromised Host Immunosuppression - adverse effects Metagenome Metagenomics - methods Microbiomes Microbiota multidisciplinary Neoplasms - virology Oncogenic Viruses - genetics Probability Science Science (multidisciplinary) Sequence Analysis, RNA Tumorigenesis Viruses Viruses - genetics
Title	No metagenomic evidence of tumorigenic viruses in cancers from a selected cohort of immunosuppressed subjects
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