MassIVE MSV000098286

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GNPS - Lemonade Creek soil heterotrophy experiment

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Description

Lemonade Creek soil samples. Algae colonize the soil just below the surface. Samples were taken in quadruplicate at four time points starting at 7:30 am (~30 min prior to sunrise) and finished at 8:00 pm (dark). Each replicate sample has both a pellet and supernatant. Soil material was scraped from the green layer beneath the surface, suspended in 10 mls sterile ultrapure water and shaken vigorously to suspend all biomass. Soil mineral material was allowed to settle (~10-15 sec), the supernatant was decanted to a fresh 15 ml Falcon tube, and then centrifuged (2100 x g, 5 minutes). Supernatant was poured off to a fresh tube and then it and the pellet (soil biomass plus some silt materials) were flash frozen in ethanol – dry ice bath and then stored on dry ice until transferred to -80°C freezer. The work (proposal:https://doi.org/10.46936/10.25585/60000481) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231. [doi:10.25345/C5RJ4971Q] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: algae ; Lemonade Creek ; heterotrophy ; algal biofilms ; DatasetType:Metabolomics

Contact

Principal Investigators:
(in alphabetical order) 		Debashish Bhattacharya, Rutgers University, United States
Submitting User: bpbowen
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Identification Results
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Quantification Results
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GNPS content goes here (MSV000098286 [task=2f6e62b3b0b84de7bf941be68ef65fa1])
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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.

"N/A" means no results of this type were submitted.
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.

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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.