Multi-omics of permafrost, active layer and thermokarst bog soil microbiomes

Jenni Hultman; Mark P. Waldrop; Rachel Mackelprang; Maude M. David; Jack McFarland; Steven J. Blazewicz; Jennifer Harden; Merritt R. Turetsky; A. David McGuire; Manesh B. Shah; Nathan C. VerBerkmoes; Lang Ho Lee; Kostas Mavrommatis; Janet Jansson

doi:10.1038/nature14238

Multi-omics of permafrost, active layer and thermokarst bog soil microbiomes

Jenni Hultman, Mark P. Waldrop, Rachel Mackelprang, Maude M. David, Jack McFarland, Steven J. Blazewicz, Jennifer Harden, Merritt R. Turetsky, A. David McGuire, Manesh B. Shah, Nathan C. VerBerkmoes, Lang Ho Lee, Kostas Mavrommatis, Janet Jansson

221 Citations (Scopus)

Abstract

Over 20% of Earth's terrestrial surface is underlain by permafrost with vast stores of carbon that, once thawed, may represent the largest future transfer of carbon from the biosphere to the atmosphere. This process is largely dependent on microbial responses, but we know little about microbial activity in intact, let alone in thawing, permafrost. Molecular approaches have recently revealed the identities and functional gene composition of microorganisms in some permafrost soils and a rapid shift in functional gene composition during short-term thaw experiments. However, the fate of permafrost carbon depends on climatic, hydrological and microbial responses to thaw at decadal scales. Here we use the combination of several molecular 'omics' approaches to determine the phylogenetic composition of the microbial communities, including several draft genomes of novel species, their functional potential and activity in soils representing different states of thaw: intact permafrost, seasonally thawed active layer and thermokarst bog. The multi-omics strategy reveals a good correlation of process rates to omics data for dominant processes, such as methanogenesis in the bog, as well as novel survival strategies for potentially active microbes in permafrost.

Original language	English
Journal	Nature
Volume	521
Issue number	7551
Pages (from-to)	208-212
Number of pages	5
ISSN	0028-0836
DOIs	https://doi.org/10.1038/nature14238
Publication status	Published - 14 May 2015

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@article{b540ec6dec9142eaa3f3b56b000831ce,

title = "Multi-omics of permafrost, active layer and thermokarst bog soil microbiomes",

abstract = "Over 20% of Earth's terrestrial surface is underlain by permafrost with vast stores of carbon that, once thawed, may represent the largest future transfer of carbon from the biosphere to the atmosphere. This process is largely dependent on microbial responses, but we know little about microbial activity in intact, let alone in thawing, permafrost. Molecular approaches have recently revealed the identities and functional gene composition of microorganisms in some permafrost soils and a rapid shift in functional gene composition during short-term thaw experiments. However, the fate of permafrost carbon depends on climatic, hydrological and microbial responses to thaw at decadal scales. Here we use the combination of several molecular 'omics' approaches to determine the phylogenetic composition of the microbial communities, including several draft genomes of novel species, their functional potential and activity in soils representing different states of thaw: intact permafrost, seasonally thawed active layer and thermokarst bog. The multi-omics strategy reveals a good correlation of process rates to omics data for dominant processes, such as methanogenesis in the bog, as well as novel survival strategies for potentially active microbes in permafrost.",

author = "Jenni Hultman and Waldrop, {Mark P.} and Rachel Mackelprang and David, {Maude M.} and Jack McFarland and Blazewicz, {Steven J.} and Jennifer Harden and Turetsky, {Merritt R.} and McGuire, {A. David} and Shah, {Manesh B.} and VerBerkmoes, {Nathan C.} and Lee, {Lang Ho} and Kostas Mavrommatis and Janet Jansson",

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T1 - Multi-omics of permafrost, active layer and thermokarst bog soil microbiomes

AU - Hultman, Jenni

AU - Waldrop, Mark P.

AU - Mackelprang, Rachel

AU - David, Maude M.

AU - McFarland, Jack

AU - Blazewicz, Steven J.

AU - Harden, Jennifer

AU - Turetsky, Merritt R.

AU - McGuire, A. David

AU - Shah, Manesh B.

AU - VerBerkmoes, Nathan C.

AU - Lee, Lang Ho

AU - Mavrommatis, Kostas

AU - Jansson, Janet

N1 - CENPERM[2015]

PY - 2015/5/14

Y1 - 2015/5/14

N2 - Over 20% of Earth's terrestrial surface is underlain by permafrost with vast stores of carbon that, once thawed, may represent the largest future transfer of carbon from the biosphere to the atmosphere. This process is largely dependent on microbial responses, but we know little about microbial activity in intact, let alone in thawing, permafrost. Molecular approaches have recently revealed the identities and functional gene composition of microorganisms in some permafrost soils and a rapid shift in functional gene composition during short-term thaw experiments. However, the fate of permafrost carbon depends on climatic, hydrological and microbial responses to thaw at decadal scales. Here we use the combination of several molecular 'omics' approaches to determine the phylogenetic composition of the microbial communities, including several draft genomes of novel species, their functional potential and activity in soils representing different states of thaw: intact permafrost, seasonally thawed active layer and thermokarst bog. The multi-omics strategy reveals a good correlation of process rates to omics data for dominant processes, such as methanogenesis in the bog, as well as novel survival strategies for potentially active microbes in permafrost.

AB - Over 20% of Earth's terrestrial surface is underlain by permafrost with vast stores of carbon that, once thawed, may represent the largest future transfer of carbon from the biosphere to the atmosphere. This process is largely dependent on microbial responses, but we know little about microbial activity in intact, let alone in thawing, permafrost. Molecular approaches have recently revealed the identities and functional gene composition of microorganisms in some permafrost soils and a rapid shift in functional gene composition during short-term thaw experiments. However, the fate of permafrost carbon depends on climatic, hydrological and microbial responses to thaw at decadal scales. Here we use the combination of several molecular 'omics' approaches to determine the phylogenetic composition of the microbial communities, including several draft genomes of novel species, their functional potential and activity in soils representing different states of thaw: intact permafrost, seasonally thawed active layer and thermokarst bog. The multi-omics strategy reveals a good correlation of process rates to omics data for dominant processes, such as methanogenesis in the bog, as well as novel survival strategies for potentially active microbes in permafrost.

U2 - 10.1038/nature14238

DO - 10.1038/nature14238

M3 - Letter

C2 - 25739499

SN - 0028-0836

VL - 521

SP - 208

EP - 212

JO - Nature

JF - Nature

IS - 7551

ER -

Multi-omics of permafrost, active layer and thermokarst bog soil microbiomes

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