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Title: Metatranscriptomic reconstruction reveals RNA viruses with the potential to shape carbon cycling in soil

Abstract

Viruses impact nearly all organisms on Earth, with ripples of influence in agriculture, health, and biogeochemical processes. However, very little is known about RNA viruses in an environmental context, and even less is known about their diversity and ecology in soil, 1 of the most complex microbial systems. Here, we assembled 48 individual metatranscriptomes from 4 habitats within a planted soil sampled over a 22-d time series: Rhizosphere alone, detritosphere alone, rhizosphere with added root detritus, and unamended soil (4 time points and 3 biological replicates). We resolved the RNA viral community, uncovering a high diversity of viral sequences. We also investigated possible host organisms by analyzing metatranscriptome marker genes. Based on viral phylogeny, much of the diversity was Narnaviridae that may parasitize fungi or Leviviridae , which may infect Proteobacteria. Both host and viral communities appear to be highly dynamic, and rapidly diverged depending on experimental conditions. The viral and host communities were structured based on the presence of root litter. Clear temporal dynamics by Leviviridae and their hosts indicated that viruses were replicating. With this time-resolved analysis, we show that RNA viruses are diverse, abundant, and active in soil. When viral infection causes host cell death, it maymore » mobilize cell carbon in a process that may represent an overlooked component of soil carbon cycling.« less

Authors:
; ; ; ;
Publication Date:
Sponsoring Org.:
USDOE
OSTI Identifier:
1575852
Grant/Contract Number:  
SC0010570; DOE-SC0016247; DOE-SC10010566; SCW1589; SCW1632
Resource Type:
Published Article
Journal Name:
Proceedings of the National Academy of Sciences of the United States of America
Additional Journal Information:
Journal Name: Proceedings of the National Academy of Sciences of the United States of America; Journal ID: ISSN 0027-8424
Publisher:
Proceedings of the National Academy of Sciences
Country of Publication:
United States
Language:
English

Citation Formats

Starr, Evan P., Nuccio, Erin E., Pett-Ridge, Jennifer, Banfield, Jillian F., and Firestone, Mary K. Metatranscriptomic reconstruction reveals RNA viruses with the potential to shape carbon cycling in soil. United States: N. p., 2019. Web. doi:10.1073/pnas.1908291116.
Starr, Evan P., Nuccio, Erin E., Pett-Ridge, Jennifer, Banfield, Jillian F., & Firestone, Mary K. Metatranscriptomic reconstruction reveals RNA viruses with the potential to shape carbon cycling in soil. United States. doi:10.1073/pnas.1908291116.
Starr, Evan P., Nuccio, Erin E., Pett-Ridge, Jennifer, Banfield, Jillian F., and Firestone, Mary K. Tue . "Metatranscriptomic reconstruction reveals RNA viruses with the potential to shape carbon cycling in soil". United States. doi:10.1073/pnas.1908291116.
@article{osti_1575852,
title = {Metatranscriptomic reconstruction reveals RNA viruses with the potential to shape carbon cycling in soil},
author = {Starr, Evan P. and Nuccio, Erin E. and Pett-Ridge, Jennifer and Banfield, Jillian F. and Firestone, Mary K.},
abstractNote = {Viruses impact nearly all organisms on Earth, with ripples of influence in agriculture, health, and biogeochemical processes. However, very little is known about RNA viruses in an environmental context, and even less is known about their diversity and ecology in soil, 1 of the most complex microbial systems. Here, we assembled 48 individual metatranscriptomes from 4 habitats within a planted soil sampled over a 22-d time series: Rhizosphere alone, detritosphere alone, rhizosphere with added root detritus, and unamended soil (4 time points and 3 biological replicates). We resolved the RNA viral community, uncovering a high diversity of viral sequences. We also investigated possible host organisms by analyzing metatranscriptome marker genes. Based on viral phylogeny, much of the diversity was Narnaviridae that may parasitize fungi or Leviviridae , which may infect Proteobacteria. Both host and viral communities appear to be highly dynamic, and rapidly diverged depending on experimental conditions. The viral and host communities were structured based on the presence of root litter. Clear temporal dynamics by Leviviridae and their hosts indicated that viruses were replicating. With this time-resolved analysis, we show that RNA viruses are diverse, abundant, and active in soil. When viral infection causes host cell death, it may mobilize cell carbon in a process that may represent an overlooked component of soil carbon cycling.},
doi = {10.1073/pnas.1908291116},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
number = ,
volume = ,
place = {United States},
year = {2019},
month = {11}
}

Journal Article:
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DOI: 10.1073/pnas.1908291116

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