Cargando…
RNA Phage Biology in a Metagenomic Era
The number of novel bacteriophage sequences has expanded significantly as a result of many metagenomic studies of phage populations in diverse environments. Most of these novel sequences bear little or no homology to existing databases (referred to as the “viral dark matter”). Also, these sequences...
Autores principales: | , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2018
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6071253/ https://www.ncbi.nlm.nih.gov/pubmed/30037084 http://dx.doi.org/10.3390/v10070386 |
_version_ | 1783343841811628032 |
---|---|
author | Callanan, Julie Stockdale, Stephen R. Shkoporov, Andrey Draper, Lorraine A. Ross, R. Paul Hill, Colin |
author_facet | Callanan, Julie Stockdale, Stephen R. Shkoporov, Andrey Draper, Lorraine A. Ross, R. Paul Hill, Colin |
author_sort | Callanan, Julie |
collection | PubMed |
description | The number of novel bacteriophage sequences has expanded significantly as a result of many metagenomic studies of phage populations in diverse environments. Most of these novel sequences bear little or no homology to existing databases (referred to as the “viral dark matter”). Also, these sequences are primarily derived from DNA-encoded bacteriophages (phages) with few RNA phages included. Despite the rapid advancements in high-throughput sequencing, few studies enrich for RNA viruses, i.e., target viral rather than cellular fraction and/or RNA rather than DNA via a reverse transcriptase step, in an attempt to capture the RNA viruses present in a microbial communities. It is timely to compile existing and relevant information about RNA phages to provide an insight into many of their important biological features, which should aid in sequence-based discovery and in their subsequent annotation. Without comprehensive studies, the biological significance of RNA phages has been largely ignored. Future bacteriophage studies should be adapted to ensure they are properly represented in phageomic studies. |
format | Online Article Text |
id | pubmed-6071253 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-60712532018-08-09 RNA Phage Biology in a Metagenomic Era Callanan, Julie Stockdale, Stephen R. Shkoporov, Andrey Draper, Lorraine A. Ross, R. Paul Hill, Colin Viruses Review The number of novel bacteriophage sequences has expanded significantly as a result of many metagenomic studies of phage populations in diverse environments. Most of these novel sequences bear little or no homology to existing databases (referred to as the “viral dark matter”). Also, these sequences are primarily derived from DNA-encoded bacteriophages (phages) with few RNA phages included. Despite the rapid advancements in high-throughput sequencing, few studies enrich for RNA viruses, i.e., target viral rather than cellular fraction and/or RNA rather than DNA via a reverse transcriptase step, in an attempt to capture the RNA viruses present in a microbial communities. It is timely to compile existing and relevant information about RNA phages to provide an insight into many of their important biological features, which should aid in sequence-based discovery and in their subsequent annotation. Without comprehensive studies, the biological significance of RNA phages has been largely ignored. Future bacteriophage studies should be adapted to ensure they are properly represented in phageomic studies. MDPI 2018-07-21 /pmc/articles/PMC6071253/ /pubmed/30037084 http://dx.doi.org/10.3390/v10070386 Text en © 2018 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Review Callanan, Julie Stockdale, Stephen R. Shkoporov, Andrey Draper, Lorraine A. Ross, R. Paul Hill, Colin RNA Phage Biology in a Metagenomic Era |
title | RNA Phage Biology in a Metagenomic Era |
title_full | RNA Phage Biology in a Metagenomic Era |
title_fullStr | RNA Phage Biology in a Metagenomic Era |
title_full_unstemmed | RNA Phage Biology in a Metagenomic Era |
title_short | RNA Phage Biology in a Metagenomic Era |
title_sort | rna phage biology in a metagenomic era |
topic | Review |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6071253/ https://www.ncbi.nlm.nih.gov/pubmed/30037084 http://dx.doi.org/10.3390/v10070386 |
work_keys_str_mv | AT callananjulie rnaphagebiologyinametagenomicera AT stockdalestephenr rnaphagebiologyinametagenomicera AT shkoporovandrey rnaphagebiologyinametagenomicera AT draperlorrainea rnaphagebiologyinametagenomicera AT rossrpaul rnaphagebiologyinametagenomicera AT hillcolin rnaphagebiologyinametagenomicera |