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PXD026369

PXD026369 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleOptimization of protein extraction methods for root-associated microbes in maize
DescriptionThe goal of this study was to optimize protein extraction methods to study root-associated bacteria in maize. For this we inoculated sterile maize plants with a synthetic community composed of seven different bacteria (Ben Niu et al. PNAS 2017, vol 114, n 12). Then, we extracted proteins from maize roots using eight different protein extraction methods in triplicates. These methods were a combination of different extraction buffers (SDS or Triton-based) and mechanical disruption methods (bead-beating, N2 grinding, glass homogenizer and freeze-thaw cycles). We found that vortexing maize roots with glass beads in PBS yielded the highest numbers of microbial protein identification.
HostingRepositoryPRIDE
AnnounceDate2022-09-08
AnnouncementXMLSubmission_2022-09-08_11:52:24.073.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterFernanda Salvato
SpeciesList scientific name: Chryseobacterium indologenes; NCBI TaxID: 253; scientific name: Enterobacter ludwigii; NCBI TaxID: 299767; scientific name: Ochrobactrum pituitosum; NCBI TaxID: 571256; scientific name: Pseudomonas putida; NCBI TaxID: 303; scientific name: Herbaspirillum robiniae; NCBI TaxID: 2014887; scientific name: Zea mays (Maize); NCBI TaxID: 4577; scientific name: Curtobacterium pusillum; NCBI TaxID: 69373;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive HF
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-05-31 06:56:06ID requested
12022-09-08 11:52:24announced
Publication List
Salvato F, Vintila S, Finkel OM, Dangl JL, Kleiner M, Evaluation of Protein Extraction Methods for Metaproteomic Analyses of Root-Associated Microbes. Mol Plant Microbe Interact, 35(11):977-988(2022) [pubmed]
Keyword List
submitter keyword: Maize, corn, metaproteomics, metaproteome, roots, protein extraction, plant-microbe interactions, plant microbiota, microbiome
Contact List
Manuel Kleiner
contact affiliationNorth Carolina State University
contact emailmanuel_kleiner@ncsu.edu
lab head
Fernanda Salvato
contact affiliationNorth Carolina State University
contact emailfersalvato@gmail.com
dataset submitter
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Dataset FTP location
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