CGB - Universidad Mayor

19 diciembre 2019

The protein architecture in Bacteria and Archaea identifies a set of promiscuous and ancient domains.

DOI : 10.1371/journal.pone.0226604


In this work, we describe a systematic comparative genomic analysis of

promiscuous domains in genomes of Bacteria and Archaea. A quantitative measure

of domain promiscuity, the weighted domain architecture score (WDAS), was used

and applied to 1317 domains in 1320 genomes of Bacteria and Archaea. A

functional analysis associated with the WDAS per genome showed that 18 of 50

functional categories were identified as significantly enriched in the

promiscuous domains; in particular, small-molecule binding domains, transferases

domains, DNA binding domains (transcription factors), and signal transduction

domains were identified as promiscuous. In contrast, non-promiscuous domains

were identified as associated with 6 of 50 functional categories, and the

category Function unknown was enriched. In addition, the WDASs of 52 domains

correlated with genome size, i.e., WDAS values decreased as the genome size

increased, suggesting that the number of combinations at larger domains

increases, including domains in the superfamilies Winged helix-turn-helix and

P-loop-containing nucleoside triphosphate hydrolases. Finally, based on

classification of the domains according to their ancestry, we determined that

the set of 52 promiscuous domains are also ancient and abundant among all the

genomes, in contrast to the non-promiscuous domains. In summary, we consider

that the association between these two classes of protein domains (promiscuous

and non-promiscuous) provides bacterial and archaeal cells with the ability to

respond to diverse environmental challenges.

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