@article{torto-alalibo_tripathy_smith_arredondo_zhou_li_chibucos_qutob_gijzen_mao_et al._2007, title={Expressed sequence tags from Phytophthora sojae reveal genes specific to development and infection}, volume={20}, ISSN={["1943-7706"]}, DOI={10.1094/MPMI-20-7-0781}, abstractNote={ Six unique expressed sequence tag (EST) libraries were generated from four developmental stages of Phytophthora sojae P6497. RNA was extracted from mycelia, swimming zoospores, germinating cysts, and soybean (Glycine max (L.) Merr.) cv. Harosoy tissues heavily infected with P. sojae. Three libraries were created from mycelia growing on defined medium, complex medium, and nutrient-limited medium. The 26,943 high-quality sequences obtained clustered into 7,863 unigenes composed of 2,845 contigs and 5,018 singletons. The total number of P. sojae unigenes matching sequences in the genome assembly was 7,412 (94%). Of these unigenes, 7,088 (90%) matched gene models predicted from the P. sojae sequence assembly, but only 2,047 (26%) matched P. ramorum gene models. Analysis of EST frequency from different growth conditions and morphological stages revealed genes that were specific to or highly represented in particular growth conditions and life stages. Additionally, our results indicate that, during infection, the pathogen derives most of its carbon and energy via glycolysis of sugars in the plant. Sequences identified with putative roles in pathogenesis included avirulence homologs possessing the RxLR motif, elicitins, and hydrolytic enzymes. This large collection of P. sojae ESTs will serve as a valuable public genomic resource. }, number={7}, journal={MOLECULAR PLANT-MICROBE INTERACTIONS}, author={Torto-Alalibo, Trudy A. and Tripathy, Sucheta and Smith, Brian M. and Arredondo, Felipe D. and Zhou, Lecong and Li, Hua and Chibucos, Marcus C. and Qutob, Dinah and Gijzen, Mark and Mao, Chunhong and et al.}, year={2007}, month={Jul}, pages={781–793} }
 @article{li_ghosh_amerson_li_2006, title={Major gene detection for fusiform rust resistance using Bayesian complex segregation analysis in loblolly pine}, volume={113}, ISSN={["0040-5752"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-33747640613&partnerID=MN8TOARS}, DOI={10.1007/s00122-006-0351-x}, abstractNote={The presence of major genes affecting rust resistance of loblolly pine was investigated in a progeny population that was generated with a half-diallel mating of six parents. A Bayesian complex segregation analysis was used to make inference about a mixed inheritance model (MIM) that included polygenic effects and a single major gene effect. Marginalizations were achieved by using Gibbs sampler. A parent block sampling by which genotypes of a parent and its offspring were sampled jointly was implemented to improve mixing. The MIM was compared with a pure polygenic model (PM) using Bayes factor. Results showed that the MIM was a better model to explain the inheritance of rust resistance than the pure PM in the diallel population. A large major gene variance component estimate (> 50% of total variance), indicated the existence of major genes for rust resistance in the studied loblolly pine population. Based on estimations of parental genotypes, it appears that there may be two or more major genes affecting disease phenotypes in this diallel population.}, number={5}, journal={THEORETICAL AND APPLIED GENETICS}, author={Li, Hua and Ghosh, Sujit and Amerson, Henry and Li, Bailian}, year={2006}, month={Sep}, pages={921–929} }