Resurrected Protein Interaction Networks Reveal the Innovation Potential of Ancient Whole-Genome Duplication. Issue 11 (17th October 2018)

• Record Type: Journal Article
• Authors: Zhang, Zhicheng; Coenen, Heleen; Ruelens, Philip; Hazarika, Rashmi R.; Al Hindi, Tareq; Oguis, Georgianna K.; Vandeperre, Anja; van Noort, Vera; Geuten, Koen
• Is Part Of: The Plant Cell. Volume 30:Issue 11(2018)
• Page Start: 2741
• Page End: 2760
• Publication Date: 2018-10-17
• DOI: 10.1105/tpc.18.00409
• Languages: English
• ISSNs: 1040-4651

Abstract

Abstract : The ancient genome triplication at the origin of core eudicots generated many new regulatory protein complexes, innovating plant development. Abstract: The evolution of plants is characterized by whole-genome duplications, sometimes closely associated with the origin of large groups of species. The gamma (γ) genome triplication occurred at the origin of the core eudicots, which comprise ∼75% of flowering plants. To better understand the impact of whole-genome duplication, we studied the protein interaction network of MADS domain transcription factors, which are key regulators of reproductive development. We reconstructed, synthesized, and tested the interactions of ancestral proteins immediately before and closely after the triplication and directly compared these ancestral networks to the extant networks of Arabidopsis thaliana and tomato ( Solanum lycopersicum ). We found that gamma expanded the MADS domain interaction network more strongly than subsequent genomic events. This event strongly rewired MADS domain interactions and allowed for the evolution of new functions and installed robustness through new redundancy. Despite extensive rewiring, the organization of the network was maintained through gamma. New interactions and protein retention compensated for its potentially destructive impact on network organization. Post gamma, the network evolved from an organization around the single hub SEP3 to a network organized around multiple hubs and well-connected proteins lost, rather than gained, interactions. The data provide a resource for comparative developmental biology in flowering plants.