MassIVE MSV000096083

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GNPS - Plant transcriptome mining of stephanotic acid-type burpitides

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Description

Leaf and stem plant material (0.2 g fresh weight) was collected from aerial tissues, frozen and ground with a MP Biomedicals FastPrep-24-5G Tissuelyser in 2ml MP Biomedicals tubes with 2.3mm Zirconia beads for 60 s at 6 m/s. 1 mL of 80% methanol was added to ground tissue and ground as before for 20 s at 6 m/s. The methanolic extract was incubated for 10 min in a 60C water bath, centrifuged for 5 min at 16000 x g at room temperature, and filtered through Whatman 0.2 um syringeless LCMS filters (UN503NPEORG) before LCMS analysis. Filtered extracts were transferred to LCMS vials and analyzed by LC-MS/MS with the following settings: LC - Phenomenex Kinetex 2.6 um C18 reverse phase 100A 150 x 3 mm LC column; LC gradient, solvent A, 0.1% formic acid; solvent B, acetonitrile (0.1% formic acid); 0 min, 10% B; 5 min, 60% B; 5.1 min, 95% B; 6 min, 95% B; 6.1 min, 10% B; 9.9 min, 10% B; 0.5 mL/min; MS, positive ion mode; full MS, resolution 70000; mass range 400-1200 m/z; dd-MS2 (data-dependent MS/MS), resolution 17500; AGC target 1e5, loop count 5, isolation width 1.0 m/z, collision energy 25 eV and dynamic exclusion 0.5 s. [doi:10.25345/C5ST7F830] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: RiPP, burpitide, stephanotic acid, moroidin ; DatasetType:Metabolomics

Contact

Principal Investigators:
(in alphabetical order) 		Roland Kersten, University of Michigan, Ann Arbor, United States
Submitting User: Rolandoo1
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Experimental Design
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Identification Results
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Quantification Results
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GNPS content goes here (MSV000096083 [task=20959bf587854448850f0ae82d834343])
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Number of distinct conditions across all analyses (original submission and reanalyses) associated with this dataset.

Distinct condition labels are counted across all files submitted in the "Metadata" category having a "Condition" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct biological replicates across all analyses (original submission and reanalyses) associated with this dataset.

Distinct replicate labels are counted across all files submitted in the "Metadata" category having a "BioReplicate" or "Replicate" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct technical replicates across all analyses (original submission and reanalyses) associated with this dataset.

The technical replicate count is defined as the maximum number of times any one distinct combination of condition and biological replicate was analyzed across all files submitted in the "Metadata" category. In the case of fractionated experiments, only the first fraction is considered.

"N/A" means no results of this type were submitted.
Originally identified proteins that were automatically remapped by MassIVE to proteins in the SwissProt human reference database.

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Number of distinct protein accessions reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct unmodified peptide sequences reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct peptide sequences (including modified variants or peptidoforms) reported across all analyses (original submission and reanalyses) associated with this dataset.

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Total number of peptide-spectrum matches (i.e. spectrum identifications) reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct proteins quantified across all analyses (original submission and reanalyses) associated with this dataset.

Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct proteins found to be differentially abundant in at least one comparison across all analyses (original submission and reanalyses) associated with this dataset.

A protein is differentially abundant if its change in abundance across conditions is found to be statistically significant with an adjusted p-value <= 0.05 and lists no issues associated with statistical tests for differential abundance.

Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

"N/A" means no results of this type were submitted.
This dataset may not contain all raw spectra data as originally deposited in PRIDE. It has been imported to MassIVE for reanalysis purposes, so its spectra data here may consist solely of processed peak lists suitable for reanalysis with most software.