@article{howard_hu_babaoglu_chandra_borghi_tan_he_winter-sederoff_gassmann_veronese_et al._2013, title={High-Throughput RNA Sequencing of Pseudomonas-Infected Arabidopsis Reveals Hidden Transcriptome Complexity and Novel Splice Variants}, volume={8}, ISSN={["1932-6203"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-84885077606&partnerID=MN8TOARS}, DOI={10.1371/journal.pone.0074183}, abstractNote={We report the results of a genome-wide analysis of transcription in Arabidopsis thaliana after treatment with Pseudomonas syringae pathovar tomato. Our time course RNA-Seq experiment uses over 500 million read pairs to provide a detailed characterization of the response to infection in both susceptible and resistant hosts. The set of observed differentially expressed genes is consistent with previous studies, confirming and extending existing findings about genes likely to play an important role in the defense response to Pseudomonas syringae. The high coverage of the Arabidopsis transcriptome resulted in the discovery of a surprisingly large number of alternative splicing (AS) events – more than 44% of multi-exon genes showed evidence for novel AS in at least one of the probed conditions. This demonstrates that the Arabidopsis transcriptome annotation is still highly incomplete, and that AS events are more abundant than expected. To further refine our predictions, we identified genes with statistically significant changes in the ratios of alternative isoforms between treatments. This set includes several genes previously known to be alternatively spliced or expressed during the defense response, and it may serve as a pool of candidate genes for regulated alternative splicing with possible biological relevance for the defense response against invasive pathogens.}, number={10}, journal={PLOS ONE}, author={Howard, Brian E. and Hu, Qiwen and Babaoglu, Ahmet Can and Chandra, Manan and Borghi, Monica and Tan, Xiaoping and He, Luyan and Winter-Sederoff, Heike and Gassmann, Walter and Veronese, Paola and et al.}, year={2013}, month={Oct} }
 @article{amyotte_tan_pennerman_jimenez-gasco_klosterman_ma_dobinson_veronese_2012, title={Transposable elements in phytopathogenic Verticillium spp.: Insights into genome evolution and inter- and intra-specific diversification}, volume={13}, journal={BMC Genomics}, author={Amyotte, S. G. and Tan, X. P. and Pennerman, K. and Jimenez-Gasco, M. D. and Klosterman, S. J. and Ma, L. J. and Dobinson, K. F. and Veronese, P.}, year={2012} }
 @article{klosterman_subbarao_kang_veronese_gold_thomma_chen_henrissat_lee_park_et al._2011, title={Comparative genomics yields insights into niche adaptation of plant vascular wilt pathogens}, volume={7}, number={7}, journal={PLoS Pathogens}, author={Klosterman, S. J. and Subbarao, K. V. and Kang, S. C. and Veronese, P. and Gold, S. E. and Thomma, B. P. H. J. and Chen, Z. H. and Henrissat, B. and Lee, Y. H. and Park, J. and et al.}, year={2011} }
 @article{hind_pulliam_veronese_shantharaj_nazir_jacobs_stratmann_2011, title={The COP9 signalosome controls jasmonic acid synthesis and plant responses to herbivory and pathogens}, volume={65}, number={3}, journal={Plant Journal}, author={Hind, S. R. and Pulliam, S. E. and Veronese, P. and Shantharaj, D. and Nazir, A. and Jacobs, N. S. and Stratmann, J. W.}, year={2011}, pages={480–491} }
 @article{luo_laluk_lai_veronese_song_mengiste_2010, title={The arabidopsis botrytis susceptible1 interactor defines a subclass of RING E3 ligases that regulate pathogen and stress responses}, volume={154}, number={4}, journal={Plant Physiology}, author={Luo, H. L. and Laluk, K. and Lai, Z. B. and Veronese, P. and Song, F. M. and Mengiste, T.}, year={2010}, pages={1766–1782} }