Evolutionary flexibility in flooding response circuitry in angiosperms

• Type of Material: Article
• Authors: Mauricio A. Reynoso, University of California, Riverside; Kaisa Kajala, University of California, Davis; Marko Bajic, Emory University; Donnelly A. West, University of California, Davis; Germain Pauluzzi, University of California, Riverside; Andrew Yao, University of California, Davis; Katie Hatch, Emory University; Kristina Zumstein, University of California, Davis; Margaret Woodhouse, University of California, Davis; Joel Rodriguez-Medina, University of California, Davis; Neelima Sinha, University of California, Davis; Siobhan M. Brady, University of California, Davis; Roger Deal, Emory University; Julia Bailey-Serres, University of California, Riverside
• Language: English
• Date: 2019-09-20
• Publisher: HHS
• Publication Version: Author Accepted Manuscript (After Peer Review)
• Copyright Statement: 2019
• Final Published Version (URL): http://dx.doi.org/10.1126/science.aax8862
• Title of Journal or Parent Work: Science
• Volume: 365
• Issue: 6459
• Start Page: 1291
• End Page: 1295
• Grant/Funding Information: Supported by United States National Science Foundation Plant Genome Research Program (IOS-1238243) to R.B.D., N.R.S., S.M.B. and J.B.-S., a Finnish Cultural Foundation fellowship to K.K. and an HHMI Faculty Scholar Fellowship to S.M.B.
• Keywords: Floods; Plant Roots; Stress, Physiological; Gene Regulatory Networks; Multigene Family; Transcription Factors; Binding Sites; Oryza; Chromatin; Solanum; Plant Proteins; Medicago truncatula; Synteny; Gene Expression Regulation, Plant; Biological Evolution
• Research Categories: Biology, General; Biology, Genetics

Abstract

Flooding due to extreme weather threatens crops and ecosystems. To understand variation in gene regulatory networks activated by submergence, we conducted a high-resolution analysis of chromatin accessibility and gene expression at three scales of transcript control in four angiosperms, ranging from a dryland-adapted wild species to a wetland crop. The data define a cohort of conserved submergenceactivated genes with signatures of overlapping cis regulation by four transcription factor families. Syntenic genes are more highly expressed than nonsyntenic genes, yet both can have the cis motifs and chromatin accessibility associated with submergence up-regulation.Whereas the flexible circuitry spans the eudicot-monocot divide, the frequency of specific cis motifs, extent of chromatin accessibility, and degree of submergence activation are more prevalent in the wetland crop and may have adaptive importance.