@article {KNZ001293,
	title = {Variation in gene expression of Andropogon gerardii in response to altered environmental conditions associated with climate change},
	journal = {Journal of Ecology},
	volume = {98},
	year = {2010},
	pages = {374 -383},
	abstract = {<p>1.\&ensp;If we are to understand the mechanisms underlying species responses to climate change in natural systems, studies are needed that focus on responses of non-model species under field conditions. We measured transcriptional profiles of individuals of Andropogon gerardii, a C4 grass native to North American grasslands, in a field experiment in which both temperature and precipitation were manipulated to simulate key aspects of forecasted climate change. 2.\&ensp;By using microarrays developed for a closely related model species, Zea mays, we were able to compare the relative influence of warming versus altered soil moisture availability on expression levels of over 7000 genes, identify responsive functional groups of genes and correlate changes in gene transcription with physiological responses. 3.\&ensp;We observed more statistically significant shifts in transcription levels of genes in response to thermal stress than in response to water stress. We also identified candidate genes that demonstrated transcription levels closely associated with physiological variables, in particular chlorophyll fluorescence. 4.Synthesis. These results suggest that an ecologically important species responds differently to different environmental aspects of forecast climate change. These translational changes have the potential to influence phenotypic characters and ultimately adaptive responses.</p>},
	keywords = {LTER-KNZ},
	doi = {10.1111/j.1365-2745.2009.01618.x},
	url = {https://besjournals.onlinelibrary.wiley.com/doi/full/10.1111/j.1365-2745.2009.01618.x},
	author = {Travers, S.E. and Tang, Z. and Caragea, D. and Garrett, K.A. and Hulbert, S.H. and Leach, J.E. and Bai, J. and Saleh, A. and Alan K. Knapp and Fay, P.A. and Jesse B. Nippert and Schnable, P.S. and M.D. Smith}
}
@article {KNZ001083,
	title = {Ecological genomics: making the leap from model systems in the lab to native populations in the field. Frontiers in Ecology and the Environment},
	journal = {Frontiers in Ecology and the Environment},
	volume = {5},
	year = {2007},
	pages = {19 -24},
	abstract = {Recent reviews have emphasized the need to incorporate genomics into ecological field studies to further understand how species respond to changing environmental conditions. Genomic tools, such as cDNA (complementary DNA) microarrays, allow for the simultaneous analysis of gene expression of thousands of genes from all or part of an organism{\textquoteright}s genome (the transcription profile), thereby revealing the genetic mechanisms that underlie species{\textquoteright} responses to environmental change. However, despite their potential, two major limitations have hindered the incorporation of microarrays and other genomic tools into field studies: (1) the limited availability of microarrays for ecologically relevant, non-model species and limited financial resources for developing new microarrays; and (2) concern that high sensitivity of gene expression to even subtle alterations in environmental conditions will hinder detection of relevant changes in field measures of transcription profiles. Here, we show that with cross-species hybridizations of microarrays developed for a closely related model organism, an appropriate experimental design, and sufficient replication, transcriptional profiling can successfully be incorporated into field studies. In this way, relevant changes in gene expression with changing environmental conditions can be detected.},
	keywords = {LTER-KNZ},
	doi = {10.1890/1540-9295(2007)5[19:EGMTLF]2.0.CO;2},
	author = {Travers, S.E. and M.D. Smith and Bai, J. and Hulbert, S.H. and Leach, J.E. and Schnable, P.S. and Alan K. Knapp and Milliken, G.A. and Fay, P.A. and Saleh, A. and Garrett, K.A.}
}
@article {KNZ001028,
	title = {Ecological genomics and epidemiology},
	journal = {European Journal of PlantPathology},
	volume = {115},
	year = {2006},
	pages = {35 -51},
	abstract = {The huge amount of genomic data now becoming available offers both opportunities and challenges for epidemiologists. In this {\textquotedblleft}preview{\textquotedblright} of likely developments as the field of ecological genomics evolves and merges with epidemiology, we discuss how epidemiology can use new information about genetic sequences and gene expression to form predictions about epidemic features and outcomes and for understanding host resistance and pathogen evolution. DNA sequencing is now complete for some hosts and several pathogens. Microarrays make it possible to measure gene expression simultaneously for thousands of genes. These tools will contribute to plant disease epidemiology by providing information about which resistance or pathogenicity genes are present in individuals and populations, what genes other than those directly involved in resistance and virulence are important in epidemics, the role of the phenotypic status of hosts and pathogens, and the role of the status of the environmental metagenome. Conversely, models of group dynamics supplied by population biology and ecology may be used to interpret gene expression within individual organisms and in populations of organisms. Genomic tools have great potential for improving understanding of resistance gene evolution and the durability of resistance. For example, DNA sequence analysis can be used to evaluate whether an arms race model of co-evolution is supported. Finally, new genomic tools will make it possible to consider the landscape ecology of epidemics in terms of host resistance both as determined by genotype and as expressed in host phenotypes in response to the biotic and abiotic environment. Host phenotype mixtures can be modeled and evaluated, with epidemiological predictions based on phenotypic characteristics such as physiological age and status in terms of induced systemic resistance or systemic acquired resistance.},
	keywords = {LTER-KNZ},
	doi = {10.1007/s10658-005-4050-2},
	author = {Garrett, K.A. and Hulbert, S.H. and Leach, J.E. and Travers, S.E.}
}
