Course Reading

Date Topic Reading

Sept 6

Is loss of self-incompatibility irreversible?

Barrett, SCH. 2013. The evolution of plant reproductive systems: how often are transitions irreversible? Proceedings of the Royal Society B: Biological Sciences  280: 20130913.

Chantha S-C, Herman AC, Platts A, Vekemans X, & DJ Schoen. 2013. Secondary evolution of a self-incompatibility locus in the Brassicaceae genus Leavenworthia. PLoS Biology 11, e1001560.10.1371/journal.pbio.1001560

  if you want to know more about the molecular details of SI in Brassicaceae

Ivanov R, I Fobis-Loisy, & T Gaude. 2010.  When no means no: guide to Brassicaceae self-incompatibility.  Trends Plant Science 15: 387-394.   doi: 10.1016/j.tplants.2010.04.010. Epub 2010 Jun 2.

Sept 13

Do transposable elements contribute to adaptations?

Casacuberta, E, & J González. 2013. The impact of transposable elements in environmental adaptation. Molecular Ecology 22: 1503-1517.

Naito, K, F Zhang, T Tsukiyama H Saito, CN Hancock, AO Richardson, Y Okumoto, T Tanisaka, & SR Wessler. 2009. Unexpected consequences of a sudden and massive transposon amplification on rice gene expression. Nature 461: 1130–1134.

Sept 20

Identifying reticulate events in plant phylogeny estimation

Linder, CR, & LH Rieseberg. 2004. Reconstructing patterns of reticulate evolution in plants. American Journal of Botany 91: 1700–1708.

Guo, Y-Y, Y-B Luo, Z-J Liu, & X-Q Wang. 2015. Reticulate evolution and sea-level fluctuations together drove species diversification of slipper orchids (Paphiopedilum) in South-East Asia. Molecular Ecology 24: 2838–2855.

Sept 27

Genetic analysis of crop domestication

Doebley JF, BS Gaut, & BD Smith. 2006. The molecular genetics of crop domestication. Cell 127: 1309-1321.

Lin, T, G Zhu, J Zhang, X Xu, Q Yu, Z Zheng, Z Zhang, Y Lun, S Li, X Wang, Z Huang, J Li, C Zhang, T Wang, Y Zhang, A Wang, Y Zhang, K Lin, C Li, G Xiong, Y Xue, A Mazzucato, M Causse, Z Fei, JJ Giovannoni, RT Chetelat, D Zamir, T Städler, J Li, Z Ye, Y Du, & S Huang. 2014. Genomic analyses provide insights into the history of tomato breeding. Nature Genetics 46: 1220-1226.

Oct 4

Molecular analysis of plant-disease interactions

Baggs, E, G Dagdas, & KV Krasileva. 2017. TNLR diversity, helpers and integrated domains: making sense of the NLR IDentity. Current Opinion in Plant Biology 38: 59-67.

Kanzaki, H, K Yoshida, H Saitoh, K Fujisaki, A Hirabuchi, L Alaux, E Fournier, D Tharreau, & R Terauchi. 2012. Arms race co-evolution of Magnaporthe oryzae AVR-Pik and rice Pik genes driven by their physical interactions. The Plant Journal 72: 894–907.

Oct 11

Epigenetic contributions to evolution from plant transposable elements

Bousios, A, & B Gaut, B. 2016. Mechanistic and evolutionary questions about epigenetic conflicts between transposable elements and their plant hosts. Current Opinion in Plant Biology 30: 123-33.

Hollister, J, L Smith, Y-L Guo, F Ott, D Weigel, & B Gaut. 2011. Transposable elements and small RNAs contribute to gene expression divergence between Arabidopsis thaliana and Arabidopsis lyrata. Proceedings of the National Academy of Sciences of the United States of America: 108: 2322-2327.

Oct 25

Genetic analysis of plant invasions

Dlugosch, KM, & IM Parker. 2008.  Founding events in species invasions: genetic variation, adaptive evolution, and the role of multiple introductions. Molecular Ecology 17: 431–449.

Ferrero, V, SC Barrett, S Castro, P Caldeirinha, L Navarro, J Loureiro, & S Rodríguez-Echeverría.  2015. Invasion genetics of the Bermuda buttercup (Oxalis pes-caprae): complex intercontinental patterns of genetic diversity, polyploidy and heterostyly characterize both native and introduced populations. Molecular Ecology 24: 2143-2155.

Nov. 1

Horizontal gene transfer in plants

Sanchez-Puerta, MV. 2014. Involvement of plastid, mitochondrial and nuclear genomes in plant-to-plant horizontal gene transfer. Acta Societatis Botanicorum Poloniae 83: 317-323.

Xi, Z, Y Wang, RK Bradley, M Sugumaran, CJ Marx, JS Rest, & CC Davis. 2013. Massive mitochondrial gene transfer in a parasitic flowering plant clade. PLoS Genetics 2013; 9(2):e1003265.

Nov. 8

Epigenetic variation as a source for adaptation

Springer, NM, & RJ Schmitz. 2017. Exploiting induced and natural epigenetic variation for crop improvement. Nature Review Genetics 18: 563-575.

Cortijo, S, R Wardenaar, M Colomé-Tatché, A Gilly, M Etcheverry, K Labadie, E Caillieux, F Hospital, JM Aury, P Wincker, F Roudier, RC Jansen, V Colot, & F Johannes. 2014. Mapping the epigenetic basis of complex traits. Science. 343: 1145-1148.

Nov. 15

Evolution of metal hyperaccumulation

Cappa, JJ, & EAH Pilon-Smits. 2014. Evolutionary aspects of elemental hyperaccumulation. Planta 239: 267–275.

Cappa, JJ, C Yetter, S Fakra, PJ Cappa, R DeTar, C Landes, EAH Pilon-Smits, & MP Simmons. 2015. Evolution of selenium hyperaccumulation in Stanleya (Brassicaceae) as inferred from phylogeny, physiology and X-ray microprobe analysis. New Phytologist 205: 583–595.

Nov. 29

Non-Mendelian inheritance - the hothead mutation

Lolle, SJ, JL Victor, JM Young, & RE Pruitt. 2005. Genome-wide non-Mendelian inheritance of extra-genomic information in Arabidopsis. Nature 434: 505-509.

Chaudhury, A. 2005. Plant genetics - Hothead healer and extragenomic information; Ray, A. 2005. Plant genetics - RNA cache or genome trash? Nature 437: E1-E2. [both letters and Lolle et al.'s response can be found on the pdf of Ray (2005)].

Mercier, R, S Jolivet, J Vignard, S Durand, J Drouaud, G Pelletier & F Nogué. 2008. Outcrossing as an explanation of the apparent unconventional genetic behavior of Arabidopsis thaliana hth mutants. Genetics 180: 2295-2297.

Dec. 6

pizza and movie (TBD)

toppings TBA