@article{f7d571f659e94a148ebc83b77a4d0901,
title = "Time dependent genetic analysis links field and controlled environment phenotypes in the model C4grass Setaria",
abstract = "Vertical growth of plants is a dynamic process that is influenced by genetic and environmental factors and has a pronounced effect on overall plant architecture and biomass composition. We have performed six controlled growth trials of an interspecific Setaria italica x Setaria viridis recombinant inbred line population to assess how the genetic architecture of plant height is influenced by developmental queues, water availability and planting density. The non-destructive nature of plant height measurements has enabled us to monitor height throughout the plant life cycle in both field and controlled environments. We find that plant height is reduced under water limitation and high density planting and affected by growth environment (field vs. growth chamber). The results support a model where plant height is a heritable, polygenic trait and that the major genetic loci that influence plant height function independent of growth environment. The identity and contribution of loci that influence height changes dynamically throughout development and the reduction of growth observed in water limited environments is a consequence of delayed progression through the genetic program which establishes plant height in Setaria. In this population, alleles inherited from the weedy S. viridis parent act to increase plant height early, whereas a larger number of small effect alleles inherited from the domesticated S. italica parent collectively act to increase plant height later in development.",
author = "Feldman, {Max J.} and Paul, {Rachel E.} and Darshi Banan and Barrett, {Jennifer F.} and Jose Sebastian and Yee, {Muh Ching} and Hui Jiang and Lipka, {Alexander E.} and Brutnell, {Thomas P.} and Dinneny, {Jos{\'e} R.} and Leakey, {Andrew D.B.} and Ivan Baxter",
note = "Funding Information: Funding for ths project was provided by award number DE-SC0008769 from the U.S. Department of Energy to TB, IB, ADBL and JD. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. This project would not have been possible without the dedicated efforts of the entire Setaria team (Baxter, Leakey, Dinneny, Brutnell, Rhee, Cousins and Voytas labs) and field crews (UIUC undergraduates and local high school students) who planted, nurtured and harvested over 100,000 plants over two years. Particularly, Mark Holmes, Hannah Schlake, Amanda Youssef, Sarah Keeley, Kara Barto, Jonny Yockey, Finey Ruan, Zack Reynado, Mitch Dickey, George Gunter, Marshall Alston-Yeagle, Audrey Rouse, and Andrew Chancellor for their collection of in-field measurements. We'd also like to thank Bradley Dalsing, Christopher Montes, Alex Hathcock, Kannan Puthuval and Dyson McMillan Singer the SoyFACE site technicians, for helping to maintain the experimental infrastructure. The authors are extremely grateful for their hard work. The authors would additionally like to thank Melinda Darnell, Malia Gehan and Noah Fahlgren for their assistance conducting the experiment at the Bellwether Phenotyping Facility and helpful discussions regarding analysis of the data. Publisher Copyright: {\textcopyright} 2017 Public Library of Science. All Rights Reserved.",
year = "2017",
doi = "10.1371/journal.pgen.1006841",
language = "English (US)",
volume = "13",
journal = "PLoS Genetics",
issn = "1553-7390",
publisher = "Public Library of Science",
number = "6",
}