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 Physiology and Pathology of Tree Fruits Research: Wenatchee, WA
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ARS Home Pacific West Area Wenatchee, Washington Physiology and Pathology of Tree Fruits Research Research Publications at this Location





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Title:   Author  item
                                            Zhu, Yanminitem
                                            ZHENG, PING - Washington State University Extension Serviceitem
                                            Shin, Sungitem
                                            Fazio, Gennaroitem
                                            Mazzola, Markitem
                                            MAIN, DORRIE - Washington State University Extension Service
  Submitted to: Meeting Abstract
                                    Publication Type: Proceedings
                                    Publication Acceptance Date: 3/30/2014
                                    Publication  Date: 6/26/2014
                                    Citation: Zhu, Y., Zheng, P., Shin, S.B., Fazio, G., Mazzola, M., Main, D. 2014. Transcriptome profiling on apple root defense responses to infection by Pythium ultimum. Proceedings of 7th International Rosaceae Genomics Conference. 12.Interpretive Summary:
                                Technical Abstract: The defense response of apple rootstock to necrotrophic soilborne pathogens inciting replant disease is poorly defined. In this study, apple rootstock seedlings were inoculated with Pythium ultimum, a primary member in replant disease pathogen complex. Root tissues including mock inoculated were sampled at 0, 1, 4, 8, 24, 48, 72 and 96 hour post inoculation (hpi). RNA-Seq based transcriptome profiling was performed with at least 20 million reads per sample. The large gap mapper plugin and the transcript discovery plugin in combination with the existing RNA-Seq tool in the CLC Genomics Workbench were used to map the reads and identify the differentially expressed genes (DEGs); gene ontology analysis and KEGG pathway analysis were applied to annotate DEGs. The peak response is at 48 hpi based on the number of the identified DEGs (1061). Members from gene families functioning in hormone signaling such as ET, JA, GA, CK and auxin, encoding NAC, WRKY, MYB and ERF transcription factors; encoding enzymes in several biosynthesis pathways of potential antimicrobial secondary metabolites and cell wall modification are among the identified DEGs. The results from this study represent a crucial step in dissecting the resistant mechanisms in perennial root system to soilborne pathogens. It seems that the molecular framework of defense responses in perennial root system is largely conserved with that characterized using foliar pathosystem. Further investigation on the defense responses specific to various pathogens and rootstock genotypes (resistant and susceptible) should reveal valuable information for future genomics-assisted breeding of resistant apple rootstock.


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