John Pool

John Pool
Assistant Professor

Ph.D, Cornell University (2006)
Postdoctoral Research (1) University of California, Berkeley and University of Copenhagen (2006-2009) (2) University of California, Davis (2009-2011) 

Lab website:

Address: 2434 Genetics/Biotechnology

Telephone: 608-265-1036


Department: Genetics

Research Interests

Population genomics and the genetic basis of adaptive evolution

Research Fields

Computational, Systems & Synthetic Biology
Evolutionary & Population Genetics
Gene Expression Genomics & Proteomics

Research Description:

Genetic variation offers a window into a population's history of natural selection, population size change, and migration events.  Our ability to reveal these processes is being revolutionized by newly available data from large numbers of fully sequenced genomes.  We are using large population genomic data sets from Drosophila melanogaster and other organisms to address fundamental evolutionary questions, including the relative importance of natural selection versus demographic history in shaping within-population genetic variation and between-population genetic differentiation.  This work often involves the development of new statistical analysis methods to examine population genomic data innovel ways.

A second focus of our research is the genetic basis of adaptive evolution, including the number and types of mutations that underlie adaptive changes.  Our sequenced D. melanogaster genomes include populations that are adapted to a wide range of environments, including contrasting altitudes.  We are investigating the genetic basis of melanic pigmentation in D. melanogaster (which appears to have independently evolved multiple times in various African mountain ranges), along with a range of additional altitude-related traits.  By linking phenotypic and population genomic data, we can begin to reveal how Darwinian selection operates at the genetic level. 

Representative Publications:

Search PubMed for more publications by John Pool

Pool, J. E., R. B. Corbett-Detig, R. P. Sugino, K. A. Stevens, C. M. Cardeno, M. W. Crepeau, P. Duchen, J. J. Emerson, P. Saelao, D. J. Begun, and C. H. Langley.  2012.  Population genomics of sub-Saharan Drosophila melanogaster:  African diversity and non-African admixture. PLoS Genetics, 8:e1003080.

Pool JE, Hellmann I, Jensen JD, and Nielsen R.  2010.  Population genetic inference from genomic sequence variation.  Genome Research 20:291-300.

Yi X*, Liang Y*, Huerta-Sanchez E*, Jin X*, Cuo ZXP*, Pool JE*, et al. 2010.  Sequencing of Fifty Human Exomes Reveals Adaptation to High Altitude.  Science 329:75-78.  (* equal contributions)

Pool JE and Nielsen R.  2009.  Inference of historical changes in migration rate from the lengths of migrant tracts.  Genetics 181:711-719.

Rebeiz M, Pool JE, Kaessner V, Aquadro CF, and Carroll SB.  2009.  Stepwise modification of a modular enhancer underlies local adaptation in a Drosophila population.  Science 326:1663-1667.

Pool JE and Aquadro CF.  2007.  The genetic basis of adaptive pigmentation variation in Drosophila melanogaster.  Molecular Ecology 16:2844-2851.