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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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A balance in the delivery of ER components and the vacuolar proton pump determines phagosome acidification

ABSTRACT: As part of a study comparing phagosome composition in wild-type Dictyostelium discoideum with mutants in two cytoskeletal/motor proteins, we compared global gene expression and proteomes between the strains to test whether differences in mRNA and protein abundance were correlated with changes in phagosomal composition. abp1 and myoK mutants in both the Ax2 and DH1 backgrounds were compared with their respective wild-type parents.Both analyses converged and confirmed the phagosome analysis (supplemental Tables). Protein differences were markedly fewer in the myoK-null mutant than in the abp1 null lysate. Proteins of known function, differential in the myoK-null lysate, were involved in remodeling of the plasma membrane and early membrane trafficking. Proteins differential in the abp1-null lysate spanned various functions at all levels of cell metabolism. Most of the proteins differential in 2D-DIGE displayed similar mutant-to-wt ratios at the mRNA level in microarrays. A prominent example of overlap is the 1.4 fold overexpression (p ??? 0.016) of Vps5, both in proteomics and microarray analyses of abp1-null cells. Like half of the proteins involved in membrane trafficking that are differential in microarray analyses of abp1-null cells, Vps5 is putatively involved in endosome-to-Golgi trafficking as a retromer sorting nexin. Therefore, one might speculate that, in addition to direct effects on phagocytic uptake, absence of Abp1 has an impact on endosome-to-Golgi trafficking.

ORGANISM(S): Dictyostelium discoideum

SUBMITTER: Gareth Bloomfield

PROVIDER: E-MTAB-978 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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