Slotte Lab

Plant evolutionary genomics | Dept. of Ecology, Environment, and Plant Sciences, Stockholm University

Recent literature round-up 2016-08-19

Here is a list of papers for the recent literature round-up, arranged by subject:

Population genomics:

Demographic history:

  • 1001 Genomes Consortium. 2016. 1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana.” Cell

Linked selection

  • Beissinger et al. 2016. Recent demography drives changes in linked selection across the maize genome. Nature Plants doi: 10.1038/NPLANTS.2016.84
  • Elyashiv et al. 2016. A genomic map of the effects of linked selection in Drosophila. PLoS Genetics doi: 10.1371/journal.pgen.1006130. See also this perspective piece.

Inference of selection based on the site frequency spectrum

  • Tataru et al. 2016. Inference of the distribution of fitness effects and proportion of adaptive substitutions from polymorphism data. BioRxiv doi: http://dx.doi.org/10.1101/062216
  • Keightley et al. 2016. Inferring the frequency spectrum of derived variants to quantify adaptive molecular evolution in protein-coding genes of Drosophila melanogaster. Genetics 203: 975-984

Plant domestication:

  • Velasco, Dianne, Mallikarjuna Aradhya, and Jeff Ross-Ibarra. 2016. Evolutionary genomics of peach and almond domestication. bioRxiv (2016): 060160.
  • Mascher, Martin, et al. 2016. Genomic analysis of 6,000-year-old cultivated grain illuminates the domestication history of barley. Nature Genetics 
  • Meyer, Rachel S., et al. (2016) “Domestication history and geographical adaptation inferred from a SNP map of African rice.” Nature Genetics

Mating system evolution:

  • Ament‐Velásquez, S. L., et al. 2016. Population genomics of sexual and asexual lineages in fissiparous ribbon worms (Lineus, Nemertea): hybridization, polyploidy, and Meselson effect.” Molecular Ecology

Evolutionary processes at the S-locus/other genes under balancing selection:

  • Dagilis, Andrius J., and Mark Kirkpatrick. 2016. Prezygotic isolation, mating preferences, and the evolution of chromosomal inversions.  Evolution 
  • Lenz, Tobias L., et al. 2016. Excess of deleterious mutations around HLA genes reveals evolutionary cost of balancing selection.” bioRxiv

Cis-regulatory evolution:

  • Arunkumar et al. 2016. Recent mating-system evolution in Eichhornia is accompanied by cis-regulatory divergence. New Phytologist
  • He et al. 2016. The Footprint of Polygenic Adaptation on Stress-Responsive Cis-Regulatory Divergence in the Arabidopsis Genus. Molecular Biology and Evolution 33: 2088-2101

 Transposable elements:

  • Ågren et al. 2016. Transposable Element Evolution in the Allotetraploid Capsella bursa-pastoris. American Journal of Botany
  • van’t Hof, Arjen E., et al. 2016. The industrial melanism mutation in British peppered moths is a transposable element.” Nature 534: 102-105.