Overview of Research

Our goal is to understand how plants survive in nature. Few agricultural plants can survive even a single growing season without being pampered with fertilizers, water, and protection from competitors, pathogens and herbivores. Humans have bred agricultural plants to do amazing things, to produce more food for us which their wild ancestors didn’t. In doing so, they have become environmentally “challenged”. Survival in the real world requires complex traits that quantitatively adjust a plant’s metabolism to meet the demands of growth, defense and reproduction required for plants to maximize their production of grandchildren and thereby their Darwinian fitness. Surprisingly, we know very little about the genes that make this possible. There are two types of explanations for this deficit in our knowledge: tools and student training.

While many of the technology platforms (HTP sequencing, transcriptomics, metabolomics and proteomics) that have fueled the molecular biology revolution are readily transferred among taxa, the tools required for the manipulation of gene expression (stable and transient transformation) are not, and tend to be highly species-, and sometimes even cultivar-specific. Thanks to the long-term funding from the Max Planck Society, we have built molecular toolboxes for two native plant species and some of their herbivores which we selected, based on their natural histories, to learn about traits that are needed for survival in the primordial agricultural niche. We have developed rapid and efficient transformation systems for both species based on Agrobacterium-based protocols and we use constructs based on the Tobacco Rattle Virus to activate virus induced gene silencing. The two plant species and their associated ecosystems are the "ecological expression systems" for the group, systems in which we pursue our questions to understand the genetic basis for ecological sophistication:

Nicotiana attenuata, an annual native tobacco found in the Great Basin Desert of Southwestern USA, occurs ephemerally in large populations after fires and germinates from long-lived seed banks in response to germination cues in wood smoke. As a consequence of this particular germination behavior, N. attenuata chases fires in ecological time and has evolved to grow in habitats that share most of the same selection pressures that agricultural plants face in the agricultural niche: a large unpredictable herbivore community, strong intra-specific competition, and selection for rapid growth in the nitrogen-rich soils that occur immediately after fires. This selection for rapid, synchronized growth has in turn selected for strong growth-defense tradeoffs as the plants adjust their phenotypes to the environment they find themselves in. Solanum nigrum is a panartic weed of agricultural fields with its own community of herbivores.

We study both species at our field stations, located at the Brigham Young University’s Lytle Ranch Preserve in SW Utah and the Walnut Creek Centre for Education and Research (WCCER), just outside Prescott in Arizona. These field stations play a central role in our research: most of our research questions originate from field observations and end with experimental tests carried out with transformed plants in both field stations.

The unavailability of good molecular tool kits for native plant species is not the only reason why we know so little about what it takes for a plant to survive in nature: student training is another. The molecular biology revolution divided biology departments at most major universities into “Cell and Molecular” and “Ecology and Evolution” subdivisions. While most universities have made great strides to heal this deep division in their undergraduate curricula, graduate student training still suffers from the divide and as a consequence, students trained to use the powerful tools of molecular biology and chemistry are poorly trained in ecological skills, and vice versa. Hence we aim to train a new type of scientist, specifically, “genome-enabled field biologists”: scientists who are able to use the tools of molecular biology and analytical chemistry in native habitats and use these habitats as “natural laboratories”. By integrating the advances of molecular biology and analytical chemistry into the study of ecological interactions, we hope to catalyze a change in how ecologists examine ecological interactions and falsify hypotheses and to integrate ecologists’ whole-organismic expertise into the study of gene function. Here are the specific expectations for students in the Department of Molecular Ecology.

To facilitate the training of genome-enabled field biologists, three engineers and 5 technicians provide access to and support in the use of molecular, analytical and ecological tools that enable early-stage scientists to use these platforms to dissect and manipulate ecologically important traits under real-world conditions, without having to devote their entire PhD training to develop these technologies. For more information see the feature article in Nature: Growth Industry by Alison Abbott.



Ecological

Prof. Ian T. Baldwin                      Dr. Gundega Baldwin

                   

iBiology Talks

Baldwin, I.T. (2016). Studying a Plant’s Ecological Interactions in the Genomics Era: The Story of Nicotiana attenuata. Video Talk on iBiology. 

 

Find more Information about being a scientist in the Department, see: The Scientists’ Creed

To access a centralized platform that integrates and visualizes genomic, phylogenomic, transcriptomic and metabolomic data for Nicotiana attenuata and N. obtusifolia, please follow the link to the NaDH database.