MassIVE MSV000084373

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Influence of sRNA PA0805.1 on motility and virulence

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Description

Pseudomonas aeruginosa is a motile species that initiates swarming motility in response to specific environmental cues. The small non-coding RNA sRNA PA0805.1 was shown to be 5-fold upregulated under swarming conditions. This sRNA was cloned, transformed into PAO1 WT and overexpressed, leading to broad phenotypic changes including reduced swarming, swimming and twitching motility, as well as increased adherence, cytotoxicity, and tobramycin resistance. The strain overexpressing PA0805.1 was compared against an empty vector (EV) strain under swarming conditions using TMT10 labeled differential protein expression analysis. The TMT10 reporter channels were sequentially assigned in increasing reporter mass as TMT0..TMT9. We assigned four TMT10 channels (TMT0..TMT3) to biological replicate samples from the EV strain, and three TMT10 channels (TMT7..TMT9) to biological replicate samples from the PA0805.1 strain. Data was acquired over a single 180-minute HPLC-MS run, with peptides identified using X!tandem (cyclone 2012.10.01.1). Protein level expression values were computed using the sum of the reporter channel values from their member peptides, with protein assignment handled by X!tandem. Expression values were transformed into a log2 scale for differential analysis. The seven channel-specific expression vectors were each normalized to put them into a common scale. Differential analysis between the two strains yielded 925 proteins at p<0.05 (Welch t-test, uncorrected). [doi:10.25345/C54X02] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: quantitation ; TMT 10plex ; 1D HPLC-MSMS

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Principal Investigators:
(in alphabetical order) 		Robert E.W. Hancock, University of British Columbia, Canada
Submitting User: vspicer1
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Distinct condition labels are counted across all files submitted in the "Metadata" category having a "Condition" column in this dataset.

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Number of distinct biological replicates across all analyses (original submission and reanalyses) associated with this dataset.

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Number of distinct technical replicates across all analyses (original submission and reanalyses) associated with this dataset.

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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.

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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.

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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.
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