bioRxiv preprint doi: https://doi.org/10.1101/717058; this version posted July 27, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Transcriptome analysis of apple leaves infected by the rust fungus 2 Gymnosporangium yamadae at two sporulation stages (spermogonia and 3 aecia) reveals specific host responses, rust pathogenesis-related genes and 4 a shift in the phyllosphere fungal community composition 5 6 Si-Qi Tao1,2, Lucas Auer2, Emmanuelle Morin2, Ying-Mei Liang3*, Sébastien Duplessis2* 7 8 1 The Key Laboratory for Silviculture and Conservation of Ministry of Education, Beijing Forestry 9 University, Beijing 100083, China 10 2 Université de Lorraine, Institut National de la Recherche AgronomiQue, Unité Mixte de Recherche 11 1136 Interactions Arbres-Microorganismes, Champenoux, France 12 3 Museum of Beijing Forestry University, Beijing Forestry University, Beijing 100083, China 13 14 Correspondence: Ying-Mei Liang,
[email protected]; Sébastien Duplessis, 15
[email protected] 16 17 Abstract 18 Apple rust disease caused by Gymnosporangium yamadae is one of the major threats to 19 apple orchards. In this study, dual RNA-seQ analysis was conducted to simultaneously 20 monitor gene expression profiles of G. yamadae and infected apple leaves during the 21 formation of rust spermogonia and aecia. The molecular mechanisms underlying this 22 compatible interaction at 10 and 30 days post inoculation (dpi) indicate a significant 23 reaction from the host plant and comprise detoxication pathways at the earliest stage and 24 the induction of secondary metabolism related pathways at 30dpi.