Publications

Gordon SP, Jenkins J, Shu S, Schmutz J, Barry K, Catalan P, Contreras B, Vogel JP. (in preparation) Evolutionary transition from annual to perennial life history in the temperate grass Brachypodium sylvaticum. Molecular Biology and Evolution

Gordon SP, Levy, J, Vogel JP (in preparation) Deciphering complex allopolyploid genomes with unsupervised learning algorithms. Genome Biology

Gordon SP, Levy J, Tartaglio V, Session A, Jenkins J, Shu S, Schmutz J, Barry K, Catalan P, Contreras B, Hasterok R, Doonan J, Mur L, Vinh-Ha D, Chalhoub B, Vogel JP. (in preparation) Snapshots of genome evolution and population dynamics in the allopolyploid grass Brachypodium hybridum. Nature Plants

Gordon SP, Chickarmane VS, Meyerowitz EM. (in preparation) Specificity of two-component cytokinin signaling pathways revealed by mRNA-Seq transcriptional profiling.

Figueroa M, Gordon SP, Garvin DF, Glover-Cutter K, Filichkin SA, Alderman S, Martin R, Vogel JP, Mockler TC, Pfender W (in preparation) A comparative transcriptome study in Brachypodium distachyon to define defense responses to Puccinia graminis formae speciales. BMC Plant Biology

Stritt C, Gordon SP, Wicker T, Vogel JP and Roulin A. (submitted) Genome-wide analysis of transposable element polymorphisms reveals recent transpositional activity in natural accessions of Brachypodium distachyon. Genome Biology and Evolution

Sancho R, Cantalapiedra C, López-Alvarez D, Gordon SP, Vogel JP, Catalán P, Contreras-Moreira B. (2017) Comparative genomics and phylogenomics of Brachypodium plastomes: flowering time signatures, introgression and recombination in recently diverged ecotypes. New Phytologist Early Access

Hsia M, Malley R, Cartwright A, Nieu R, Gordon SP, Kelly S, Williams T, Wood DF, Zhao Y, Bragg J, Jordan M, Pauly M, Ecker J, Gu Y, Vogel JP. (2017) High throughput sequencing and functional validation of the JGI Brachypodium distachyon T-DNA Resource. Plant Journal. Apr 22. doi: 10.1111/tpj.13582.

Gordon SP, Contreras-Moreira B, Woods DP, Des Marais DL, Burgess D, Shu S, Stritt C, Roulin A, Schackwitz W, Tyler L, Martin J, Lipzen A, Dochy N, Phillips J, Barry K, Geuten K, Juenger TE, Amasino R, Caicedo AL, Goodstein D, Davidson P, Mur L, Figueroa M, Freeling M, Catalan P, Vogel JP (2017) Extensive gene content variation in the Brachypodium distachyon pan-genome correlates with population structure. Nature Communications. doi:10.1038/s41467-017-02292-8

Contreras-Moreira B, Cantalapiedra CP, Pereira MJG, Gordon SP, Vogel JP, Igartua E, Casas AM, Vinuesa P (2017) Analysis of plant pan-genomes with GET_HOMOLOGUES-EST, a novel clustering solution for genes and transcripts of the same species.
Frontiers in Plant Science, Feb 14;8:184. doi: 10.3389/fpls.2017.00184. Open Access

Woods D, Bednarek R, Bouche F, Gordon S, Vogel JP, Garvin DF, Amasino RM. (2016) Genetic architecture of flowering-time variation in Brachypodium distachyon. Plant Physiology, Oct;10.1104/pp.16.01178

Rabe F, Bosch J, Stirnberg A, Guse T, Bauer L, Seitner D, Rabanal FA, Czedik-Eysenberg A, Uhse S, Bindics J, Genenncher B, Navarrete F, Kellner R, Ekker H, Kumlehn J, Vogel JP, Gordon SP, Marcel TC, Münsterkötter M, Walter MC, Sieber CMK, Mannhaupt G, Güldener U, Kahmann R, Djamei A (2016) A complete toolset for the study of Ustilago bromivora and Brachypodium sp. as a fungal-temperate grass pathosystem. eLife, Nov;10.7554/eLife.20522

Dinh-Thi VH, Coriton O, Leclainche I, Arnaud D, Gordon SP, Linc G, Catalan P, Hasterok R, Vogel JP, Jahier J, Chalhoub B (2016) Recreating Stable Brachypodium hybridum Allotetraploids by Uniting the Divergent Genomes of B. distachyon and B. stacei. PLoS ONE. Dec 9;11(12):e0167171. doi: 10.1371/journal.pone.0167171.

Gordon SP, Tseng E, Salamov A, Zhang J, Meng X, Zhao Z, Kang D, Underwood J, Grigoriev IV, Figueroa M, Schilling JS, Chen F, Wang Z. (2015) Widespread Polycistronic Transcripts in Fungi Revealed by Single-Molecule mRNA Sequencing. PLoS ONE, July;10(7)

Gordon SP, Priest H, Des Marais DL, Schackwitz W, Figueroa M, Martin J, Bragg JN, Tyler L, Lee CR, Bryant D, Wang W, Messing J, Manzaneda AJ, Barry K, Garvin D, Budak H, Tuna M, Mitchell-Olds T, Pfender WF, Juenger TE, Mockler TC, Vogel J. (2014) Genome Diversity in Brachypodium distachyon: Deep Sequencing of Highly Diverse Inbred Lines. Plant Journal, Aug;79(3)

Sean Gordon

Publications