Format

Send to

Choose Destination
Mol Biol Evol. 2014 Apr;31(4):940-61. doi: 10.1093/molbev/msu046. Epub 2014 Jan 16.

Emergence and evolutionary analysis of the human DDR network: implications in comparative genomics and downstream analyses.

Author information

1
Computational Cell Biology Group, Institute for Predictive and Personalized Medicine of Cancer, Badalona, Spain.

Abstract

The DNA damage response (DDR) is a crucial signaling network that preserves the integrity of the genome. This network is an ensemble of distinct but often overlapping subnetworks, where different components fulfill distinct functions in precise spatial and temporal scenarios. To understand how these elements have been assembled together in humans, we performed comparative genomic analyses in 47 selected species to trace back their emergence using systematic phylogenetic analyses and estimated gene ages. The emergence of the contribution of posttranslational modifications to the complex regulation of DDR was also investigated. This is the first time a systematic analysis has focused on the evolution of DDR subnetworks as a whole. Our results indicate that a DDR core, mostly constructed around metabolic activities, appeared soon after the emergence of eukaryotes, and that additional regulatory capacities appeared later through complex evolutionary process. Potential key posttranslational modifications were also in place then, with interacting pairs preferentially appearing at the same evolutionary time, although modifications often led to the subsequent acquisition of new targets afterwards. We also found extensive gene loss in essential modules of the regulatory network in fungi, plants, and arthropods, important for their validation as model organisms for DDR studies.

KEYWORDS:

DDR emergence; DDR evolution; DDR posttranslational modifications

PMID:
24441036
PMCID:
PMC3969565
DOI:
10.1093/molbev/msu046
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center