Harvard University
Department of Organismic & Evolutionary Biology

Population genomics of Arabidopsis arenosa

We are currently using RADseq and low pass pooled population resequencing to study the history and biogeography of diploid and tetraploid A. arenosa. We are especially interested in understanding how often, when, and where tetraploids formed, how they spread across the landscape, and how they adapted to novel habitats. Another goal is to compare RADseq and PoolSeq approaches directly on the same set of populations.

 

Brian Arnold (a PhD student in the lab) has been working on this question, and in the process has also been working out best practices for analysis of whole genome data from populations, both from diploids and tetraploids. Brian has also been a key player in generating our collections from natural sites, which now span over 50 populations and include >1000 individuals, with both diploids and tetraploids sampled.

 

 

 

A tetraploid Arabidopsis arenosa plant growing on a limestone rock outcrop in southwest Germany (in the Upper Danube Valley region, near the town of Hausen im Tal; photo, K Bomblies).

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Relevant Publications from our lab:

 

 

Arnold, B.*, Corbett-Detig, R. B.*, Hartl, D. and Bomblies, K. (2013) RADseq underestimates diversity and introduces genealogical biases due to nonrandom haplotype sampling. Molecular Ecology. Vol 22, pp. 3179-3190. * = contributed equally. (Link).

 

Hunter, B.*, Wright, K. M.* and Bomblies, K. (2013) Short read sequencing in studies of natural variation and adaptation. Curr Op Plant Biol. Vol 16, pp. 85-91. * = contributed equally. (Link).

 

Arnold, B., Bomblies, K. and Wakeley, J. (2012) Extending coalescent theory to autotetraploids. Genetics. Vol 192, pp. 195-204. (Open Access- Link).