Host-linked soil viral ecology along a permafrost thaw gradient

Joanne B. Emerson, Simon Roux, Jennifer R. Brum, Benjamin Bolduc, Ben J. Woodcroft, Ho Bin Jang, Caitlin M. Singleton, Lindsey M. Solden, Adrian E. Naas, Joel A. Boyd, Suzanne B. Hodgkins, Rachel M. Wilson, Gareth Trubl, Changsheng Li, Steve Frolking, Phillip B. Pope, Kelly C. Wrighton, Patrick M. Crill, Jeffrey P. Chanton, Scott SaleskaGene W. Tyson, Virginia I Rich, Matthew Sullivan

Research output: Contribution to journalLetter

31 Citations (Scopus)

Abstract

Climate change threatens to release abundant carbon that is sequestered at high latitudes, but the constraints on microbial metabolisms that mediate the release of methane and carbon dioxide are poorly understood1–7. The role of viruses, which are known to affect microbial dynamics, metabolism and biogeochemistry in the oceans8–10, remains largely unexplored in soil. Here, we aimed to investigate how viruses influence microbial ecology and carbon metabolism in peatland soils along a permafrost thaw gradient in Sweden. We recovered 1,907 viral populations (genomes and large genome fragments) from 197 bulk soil and size-fractionated metagenomes, 58% of which were detected in metatranscriptomes and presumed to be active. In silico predictions linked 35% of the viruses to microbial host populations, highlighting likely viral predators of key carbon-cycling microorganisms, including methanogens and methanotrophs. Lineage-specific virus/host ratios varied, suggesting that viral infection dynamics may differentially impact microbial responses to a changing climate. Virus-encoded glycoside hydrolases, including an endomannanase with confirmed functional activity, indicated that viruses influence complex carbon degradation and that viral abundances were significant predictors of methane dynamics. These findings suggest that viruses may impact ecosystem function in climate-critical, terrestrial habitats and identify multiple potential viral contributions to soil carbon cycling.

Original languageEnglish (US)
Pages (from-to)870-880
Number of pages11
JournalNature Microbiology
Volume3
Issue number8
DOIs
StatePublished - Aug 1 2018

Fingerprint

Ecology
Soil
Viruses
Carbon
Methane
Climate
Ecosystem
Metagenome
Climate Change
Viral Genome
Glycoside Hydrolases
Virus Diseases
Permafrost
Sweden
Carbon Dioxide
Computer Simulation
Population
Genome

ASJC Scopus subject areas

  • Microbiology
  • Immunology
  • Applied Microbiology and Biotechnology
  • Genetics
  • Microbiology (medical)
  • Cell Biology

Cite this

Emerson, J. B., Roux, S., Brum, J. R., Bolduc, B., Woodcroft, B. J., Jang, H. B., ... Sullivan, M. (2018). Host-linked soil viral ecology along a permafrost thaw gradient. Nature Microbiology, 3(8), 870-880. https://doi.org/10.1038/s41564-018-0190-y

Host-linked soil viral ecology along a permafrost thaw gradient. / Emerson, Joanne B.; Roux, Simon; Brum, Jennifer R.; Bolduc, Benjamin; Woodcroft, Ben J.; Jang, Ho Bin; Singleton, Caitlin M.; Solden, Lindsey M.; Naas, Adrian E.; Boyd, Joel A.; Hodgkins, Suzanne B.; Wilson, Rachel M.; Trubl, Gareth; Li, Changsheng; Frolking, Steve; Pope, Phillip B.; Wrighton, Kelly C.; Crill, Patrick M.; Chanton, Jeffrey P.; Saleska, Scott; Tyson, Gene W.; Rich, Virginia I; Sullivan, Matthew.

In: Nature Microbiology, Vol. 3, No. 8, 01.08.2018, p. 870-880.

Research output: Contribution to journalLetter

Emerson, JB, Roux, S, Brum, JR, Bolduc, B, Woodcroft, BJ, Jang, HB, Singleton, CM, Solden, LM, Naas, AE, Boyd, JA, Hodgkins, SB, Wilson, RM, Trubl, G, Li, C, Frolking, S, Pope, PB, Wrighton, KC, Crill, PM, Chanton, JP, Saleska, S, Tyson, GW, Rich, VI & Sullivan, M 2018, 'Host-linked soil viral ecology along a permafrost thaw gradient', Nature Microbiology, vol. 3, no. 8, pp. 870-880. https://doi.org/10.1038/s41564-018-0190-y
Emerson JB, Roux S, Brum JR, Bolduc B, Woodcroft BJ, Jang HB et al. Host-linked soil viral ecology along a permafrost thaw gradient. Nature Microbiology. 2018 Aug 1;3(8):870-880. https://doi.org/10.1038/s41564-018-0190-y
Emerson, Joanne B. ; Roux, Simon ; Brum, Jennifer R. ; Bolduc, Benjamin ; Woodcroft, Ben J. ; Jang, Ho Bin ; Singleton, Caitlin M. ; Solden, Lindsey M. ; Naas, Adrian E. ; Boyd, Joel A. ; Hodgkins, Suzanne B. ; Wilson, Rachel M. ; Trubl, Gareth ; Li, Changsheng ; Frolking, Steve ; Pope, Phillip B. ; Wrighton, Kelly C. ; Crill, Patrick M. ; Chanton, Jeffrey P. ; Saleska, Scott ; Tyson, Gene W. ; Rich, Virginia I ; Sullivan, Matthew. / Host-linked soil viral ecology along a permafrost thaw gradient. In: Nature Microbiology. 2018 ; Vol. 3, No. 8. pp. 870-880.
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