PXD001131 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Microbial life in permafrost: predictions of microbial response to natural thaw using a multi-omics approach |
Description | Over 20% of Earth’s terrestrial surface is underlain by permafrost that represents one of the largest terrestrial carbon pools, with an estimated ~1700 Pg of carbon (C) contained in the upper 3 m of permafrost. Models estimate that C release from thawing permafrost might represent the largest new transfer of C from the biosphere to the atmosphere as the climate warms. Here we investigated microbial community phylogeny, genetic functional potential gene expression, and protein production patterns along a natural thaw gradient, including permafrost, the seasonally thawed active layer and nearby thawed thermokarst bog, using a combination of molecular “omics” approaches: metagenomics (MG), metatranscriptomics (MT) and metaproteomics (MP). Highlights from these analyses reveal energy yielding microbial processes and potential strategies for microbial survival in permafrost soils, and linkages between biogeochemical process rates and –omics measurements. The results provide new knowledge about microbial life and activity potential in permafrost, the potential importance of iron reduction as a survival strategy under frozen conditions in mineral soils, and the importance of methanogenesis following thaw. The multi-omics strategy demonstrated here enables better mechanistic understanding of the ecological strategies utilized by soil microbial communities in response to climate change. Associated metagenomics data available at the EBI Metagenomics portal under the accession number SRP052575. |
HostingRepository | PRIDE |
AnnounceDate | 2016-02-12 |
AnnouncementXML | Submission_2016-02-12_00:31:00.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Manesh Shah |
SpeciesList | scientific name: environmental samples; NCBI TaxID: 48479; |
ModificationList | carbamoylated residue; S-carboxamidomethyl-L-cysteine |
Instrument | LTQ Orbitrap Velos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2014-07-14 03:07:11 | ID requested | |
1 | 2015-03-17 04:21:15 | announced | |
⏵ 2 | 2016-02-12 00:31:02 | announced | Updated project metadata. |
Publication List
Hultman J, Waldrop MP, Mackelprang R, David MM, McFarland J, Blazewicz SJ, Harden J, Turetsky MR, McGuire AD, Shah MB, VerBerkmoes NC, Lee LH, Mavrommatis K, Jansson JK, Multi-omics of permafrost, active layer and thermokarst bog soil microbiomes. Nature, 521(7551):208-12(2015) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: microbial permafrost response natural thaw omics |
Contact List
Jenni Hultman |
contact affiliation | Department of Food Safety and Environmental Health, University of Helsinki, Finland |
contact email | jenni.hultman@gmail.com |
lab head | |
Manesh Shah |
contact affiliation | Biosciences Division |
contact email | shahmb@ornl.gov |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD001131
- Label: PRIDE project
- Name: Microbial life in permafrost: predictions of microbial response to natural thaw using a multi-omics approach