Data associated with the paper Antczak et al. "Environmental conditions shape the nature of a minimal bacterial genome" published in Nature Communications 2019
Antczak, Magdalena and Michaelis, Martin and Wass, Mark N (2019) Data associated with the paper Antczak et al. "Environmental conditions shape the nature of a minimal bacterial genome" published in Nature Communications 2019. [Data Collection]
Description
Of the 473 genes in the genome of the bacterium with the smallest genome generated to date, 149 genes have unknown function, emphasising a universal problem; less than 1% of proteins have experimentally determined annotations. Here, we combine the results from state-of-the-art in silico methods for functional annotation and assigned functions to 66 of the 149 proteins. Proteins that are still not be annotated lack orthologs, lack protein domains, and/ or are membrane proteins. Twenty-four likely transporter proteins are identified indicating the importance of nutrient uptake into and waste disposal out of the minimal bacterial cell in a nutrient-rich environment after removal of metabolic enzymes. Hence, the environment shapes the nature of a minimal genome. Our findings also show that the combination of multiple different state-of-the-art in silico methods for annotating proteins is able to predict functions, even for difficult to characterise proteins and identify crucial gaps for further development.
DOI: | 10.22024/unikent/01.01.78 | ||
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Divisions: | Divisions > Division of Natural Sciences > Biosciences | ||
Depositing User: | Magdalena Antczak | ||
Collection period: | From To 2017 2019 |
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Last Modified: | 01 Apr 2021 08:12 | ||
Publication Date: | 4 June 2019 | ||
URI: | https://data.kent.ac.uk/id/eprint/78 | ||
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