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• W2135663060 endingPage "3834" @default.
• W2135663060 startingPage "3826" @default.
• W2135663060 abstract "The most commonly used genome annotation processes are to a great extent based on computational methods. However, those can only predict genes that have been described earlier or that have sequence signatures indicative of a gene function. Here, we report a synonymous proteogenomic approach for experimentally improving microbial genome annotation based on label‐free quantitative MS/MS. The approach is exemplified by analysis of cell extracts from in vitro cultured enterotoxigenic Escherichia coli (ETEC) strain TW10598, as part of an effort to create a new reference ETEC genome sequence. The proteomic analysis yielded identification of 2060 proteins, out of which 312 proteins were originally described as hypothetical. For 84% of the identified proteins we have provided description of their relative quantitative levels, among others, for 20 abundantly expressed ETEC virulence factors. Proteogenomic mapping supported the existence of four protein‐coding genes that had not been annotated, and led to correction of translation start positions of another nine. The addition of the proteomic analysis into TW10598 genome re‐annotation project improved quality of the annotation, and provided experimental evidence for a significant portion of ETEC expressed proteome. Data are available via ProteomeXchange with identifier PXD002473 ( http://proteomecentral.proteomexchange.org/dataset/PXD002473 )." @default.
• W2135663060 created "2016-06-24" @default.
• W2135663060 creator A5002920589 @default.
• W2135663060 creator A5043806128 @default.
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• W2135663060 date "2015-10-07" @default.
• W2135663060 modified "2023-10-16" @default.
• W2135663060 title "Improving genome annotation of enterotoxigenic <i>Escherichia coli</i> TW10598 by a label‐free quantitative MS/MS approach" @default.
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• W2135663060 doi "https://doi.org/10.1002/pmic.201500278" @default.
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• W2135663060 hasPublicationYear "2015" @default.
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