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Environmental conditions shape the nature of a minimal bacterial genome

Antczak, Magdalena, Michaelis, Martin, Wass, Mark N. (2019) Environmental conditions shape the nature of a minimal bacterial genome. Nature Communications, 10 (1). Article Number 3100. ISSN 2041-1723. (doi:10.1038/s41467-019-10837-2) (KAR id:75457)

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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 assign functions to 66 of the 149 proteins. Proteins that are still not annotated lack orthologues, 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.

Item Type: Article
DOI/Identification number: 10.1038/s41467-019-10837-2
Divisions: Divisions > Division of Natural Sciences > School of Biosciences
Depositing User: Mark Wass
Date Deposited: 19 Jul 2019 09:23 UTC
Last Modified: 16 Oct 2020 15:56 UTC
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