Ecological Genomics, Adaptation in Natural Populations, Plasticity
Department of Biological Sciences
University of Notre Dame
109B Galvin Life Sciences
Notre Dame, IN 46556
PH# (574) 631-0591
Our lab is interested in a broad range of topics in the area of evolutionary and ecological genomics. These topics range from detailed investigation of the molecular genetic basis of adaptive traits and phenotypic plasticity, to the relationship between genetic diversity and ecosystem function. We are particularly interested in the relationship between short-term organismal responses to environmental stress and long-term adaptive changes in novel environments.
Ultimately, we are trying to connect genome structure, quantitative genetic architecture, and patterns of gene expression and gene evolution, with the process of, and limits to, adaptation in changing environments. Anthropogenic influences have created an environmental context of rapidly changing environments. There are many unresolved questions at multiple levels of biological organization that confront the fields of ecology and evolutionary biology. How will populations, species, and communities of organisms respond to novel species introductions and rapidly changing abiotic conditions? Can we predict the probability of adaptations and long-term persistence? Understanding the impacts of alterations in natural ecosystems, and using this knowledge to predict future consequences and preserve biodiversity, is a major challenge for 21st century biologists with direct relevance to human health and well-being.
The majority of our work utilizes the ecological genomic model organism Daphnia. Functional genomic tools and an expanding community of researchers fostered by the Daphnia Genomics Consortium complement a rich history of ecological investigation in this system. Recent advances in genomics for Daphnia include a complete genome sequences for Daphnia pulex and D. Magna. We are developing recombinant lines for QTL-mapping and SNP arrays for mapping and population genomic studies. We are applying these tools to a number of areas of investigation including our ongoing work in high-elevation lakes in the Sierra Nevada of California, USA. In this system we are investigating the evolutionary responses of invertebrate species to salmonid fish introductions, the genetic basis of phenotypic plasticity, and the evolutionary genetics of pigmentation. Other ongoing projects in our group include investigating the evolution of salinity tolerance, the evolution of senescence, the genomic consequences of ecological speciation, and the relationship between genome structure/function and ecological context. In particular, we are interested in the process of transcriptional neofunctionalization in expanded gene families, the analysis of sodium channel evolution in response to coevolutionary interaction between predators and toxic prey, and the development of genetic approaches to quantifying biodiversity in freshwater invertebrate communities.
McGlothlin, J, J Chuckalovcak, D Janes, S Edwards, C Feldman, ED Brodie Jr., ME Pfrender, and ED Brodie III. 2014. Parallel evolution of tetrodotoxin resistance in three voltage-gated sodium channel genes in the garter snake Thamnophis sirtalis. Molecular Biology and Evolution (In Press).
Orsini, L, N K Schwenk, L De Meester, JK Colbourne, ME Pfrender, and LJ Weider. 2013. The Evolutionary time machine: using dormant propagules to forecast how populations can adapt to changing environments. TREE 28:274-282.
Feldman CR, ED Brodie, JR., ED Brodie, III, and ME Pfrender. 2012. Constraint shapes convergence in tetrodotoxin resistant sodium channels of snakes. PNAS 109:4556-4561.
Latta LC, IV, LJ Weider, JK Colbourne, and ME Pfrender. 2012. The evolution of salinity tolerance in Daphnia: a functional genomics approach. Ecology Letters 15:794-802.
Miner B, L De Meester, ME Pfrender, W Lampert, and NG Hairston, Jr. 2012. Daphnia is Different: The Expansive Ecological Role of an Emerging Genomic Model. PRSLB 279:1873-1882.
Bracewell RR, ME Pfrender, KE Mock, and BJ Bentz. 2011. Cryptic Postzygotic Isolation in an Eruptive Species of Bark Beetle (Dendroctonus ponderosae). Evolution 65:961-975.
Colbourne, JK, ME Pfrender, D Gilbert, et al. 2011. The Ecoresponsive Genome of Daphnia pulex. Science 331:555-561.
Parnell JJ, G Rompato, LC Latta IV, ME Pfrender, J VanNostrand, Z He, J Zhou, G Anderson, P Champine, B Ganesan, and BC Weimer. 2010. Functional Biogeography as Evidence of Gene Transfer in Hypersaline Microbial Communities. PLoS One 5:e12919.
Pfrender ME, et al. 2010. Genetic approaches to biodiversity assessment in freshwater ecosystems. Quarterly Review of Biology 85:319-340.
Scoville AG, and ME Pfrender. 2010. Phenotypic plasticity facilitates rapid parallel adaptation to an introduced predator. PNAS 107:4260-4263.
Feldman CR, ED Brodie, JR., ED Brodie, III, and ME Pfrender. 2009. Testing the evolutionary origins of beneficial alleles during the repeated adaptation of garter snakes (Thamnophis) to deadly prey. PNAS 106:13415-13420.
Parnell JJ, TA Crowl, BC Weimer, and ME Pfrender. 2009. Biodiversity in microbial communities: system scale patterns and mechanisms. Molecular Ecology 18:1455-1462.
Fisk D, LC Latta, IV, RA Knapp, and ME Pfrender. 2007. Rapid evolution in response to introduced predators I: Rates and patterns of morphological and life-history trait divergence. BMC Evolutionary Biology 7:22. (Designated as Highly Accessed)
Latta LC, IV, J Bakelar, RA Knapp, and ME Pfrender. 2007. Rapid evolution in response to introduced predators II: The contribution of adaptive plasticity. BMC Evolutionary Biology 7:21.
Arnold SJ, ME Pfrender, and AG Jones. 2001. The adaptive landscape as a conceptual bridge between micro- and macroevolution. Genetica 112-113:9-32.
Pfrender ME, and M Lynch. 2000. Quantitative genetic variation in Daphnia: temporal changes in genetic architecture. Evolution 54:1502-1509.
Pfrender ME, K Spitze, and N Lehman. 2000. Multi-locus evidence for rapid ecologically-based speciation in Daphnia. Molecular Ecology 9:1717-1735.