Dataset Information

Inner membrane proteome of E. coli Min mutant

ABSTRACT: In bacteria, proteins of the MinD/ParA superfamily are reported to partition DNA and protein complexes to designate subcellular location. Among them, the E. coli Min system is a prominent example to demonstrate that the protein function is spatially regulated by the dynamic subcellular localization and by the reversible membrane topology. It is curious that pole-to-pole oscillation of MinDE involves continuous cycles of protein attachment to and detachment from the membrane, an environment that is crowded with a variety of proteins of different functions. We therefore took a quantitative proteomic approach, the isobaric tags for relative and absolute quantitation (iTRAQ) method, to analyze the inner memrbane proteome of the wild-type and Min mutant strains, aiming at identifying membrane and memrbane associated proteins that are affected in the absence of the Min system. The study reveals a physiological adapation strategy that could be used to rescue the unproductive rounds of cell division. The study also suggests that partition of macromolecules by the MinD/ParA family of proteins may have broader roles in bacterial physiology.

INSTRUMENT(S): LTQ Orbitrap Elite

ORGANISM(S): Escherichia Coli

SUBMITTER: Yu-Ling Shih

LAB HEAD: Yu-Ling Shih

PROVIDER: PXD002548 | Pride | 2016-02-23

REPOSITORIES: Pride

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Publications

Quantitative Proteomics Analysis Reveals the Min System of Escherichia coli Modulates Reversible Protein Association with the Inner Membrane.

Lee Hsiao-Lin HL Chiang I-Chen IC Liang Suh-Yuen SY Lee Der-Yen DY Chang Geen-Dong GD Wang Kwan-Yu KY Lin Shu-Yu SY Shih Yu-Ling YL

Molecular & cellular proteomics : MCP 20160217 5

The Min system of Escherichia coli mediates placement of the division septum at the midcell. It oscillates from pole to pole to establish a concentration gradient of the division inhibition that is high at the poles but low at the midcell; the cell middle thereby becomes the most favorable site for division. Although Min oscillation is well studied from molecular and biophysical perspectives, it is still an enigma as to whether such a continuous, energy-consuming, and organized movement of the M ...[more]

PMID: 26889046

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Project description:The recent development within high-throughput technologies for expression profiling has allowed for parallel analysis of transcriptomes and proteomes in biological systems such as comparative analysis of transcript and protein levels of tissue regulated genes. Until now, such studies of have only included microarray or short length sequence tags for transcript profiling. Furthermore, most comparisons of transcript and protein levels have been based on absolute expression values from within the same tissue and not relative expression values based on tissue ratios. Presented here is a novel study of two porcine tissues based on integrative analysis of data from expression profiling of identical samples using cDNA microarray, 454-sequencing and iTRAQ-based proteomics. Sequence homology identified 2.541 unique transcripts that are detectable by both microarray hybridizations and 454-sequencing of 1.2 million cDNA tags. Both transcript-based technologies showed high reproducibility between sample replicates of the same tissue, but the correlation across these two technologies was modest. Thousands of genes being differentially expressed were identified with microarray. Out of the 306 differentially expressed genes, identified by 454-sequencing, 198 (65 %) were also found by microarray. The relationship between the regulation of transcript and protein levels was analyzed by integrating iTRAQ-based proteomics data. Protein expression ratios were determined for 354 genes, of which 148 could be mapped to both microarray and 454-sequencing data. A comparison of the expression ratios from the three technologies revealed that differences in transcript and protein levels across heart and muscle tissues are positively correlated. We show that the reproducibility within cDNA microarray and 454-sequencing is high, but that the agreement across these two technologies is modest. We demonstrate that the regulation of transcript and protein levels across identical tissue samples is positively correlated when the tissue expression ratios are used for comparison. The results presented are of interest in systems biology research in terms of integration and analysis of high-throughput expression data from mammalian tissues. Keywords: tissue comparison, platform comparison Tissue samples of heart (HEA) and Longissimus dorsi (LDO) were prepared by pooling from five healthy Hampshire gilts at age four to six months and division into six sub-samples, three for each tissue named HEA1, HEA2, HEA3, LDO1, LDO2 and LDO3. The exact same six tissue samples were used for subsequent expression profiling with cDNA microarray, 454-sequencing and iTRAQ-based proteomics. A reference sample for the cDNA microarray experiment and iTRAQ-based proteomics was constructed by combining the six samples. In the microarray experiment, three cDNA microarray slides were used per sample.

Dataset Information

Inner membrane proteome of E. coli Min mutant

Publications

Quantitative Proteomics Analysis Reveals the Min System of Escherichia coli Modulates Reversible Protein Association with the Inner Membrane.

Similar Datasets

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