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Strategies for the interpretation of soil metaproteomic data

ABSTRACT: Evaluation of different strategies to interpret metaproteomics data acquired on soil samples from a floodplain along the Seine River (France) incorporating sample-specific metagenomics data, soil genome catalogue database, and generic sequence database.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Archaea Bacteria Viruses Eukaryota (eucaryotes)

TISSUE(S): Soil

SUBMITTER: Jean ARMENGAUD

LAB HEAD: Jean Armengaud

PROVIDER: PXD026798 | Pride | 2022-02-17

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	F409686.dat	Other
	F409686_p0.00849.mzid.gz	Mzid
	F409779.dat	Other
	F409779_p0.00564.mzid.gz	Mzid
	F409817.dat	Other

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Publications

Increasing the power of interpretation for soil metaproteomics data.

Jouffret Virginie V Miotello Guylaine G Culotta Karen K Ayrault Sophie S Pible Olivier O Armengaud Jean J

Microbiome 20210929 1

<h4>Background</h4>Soil and sediment microorganisms are highly phylogenetically diverse but are currently largely under-represented in public molecular databases. Their functional characterization by means of metaproteomics is usually performed using metagenomic sequences acquired for the same sample. However, such hugely diverse metagenomic datasets are difficult to assemble; in parallel, theoretical proteomes from isolates available in generic databases are of high quality. Both these factors ...[more]

PMID: 34587999

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INTEGRATING TRANSCRIPTOMICS INTO TRIAD-BASED SOIL QUALITY ASSESSMENT

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