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Investigating Function of Effector Candidates in the Interaction Between Piriformospora Indica and Plants

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Investigating Function of Effector Candidates in the Interaction Between Piriformospora Indica and Plants Investigating function of effector candidates in the interaction between Piriformospora indica and plants Dissertation zur Erlangung des Doktorgrades (Dr. rer. nat.) der Naturwissenschaftlichen Fachbereiche der Justus-Liebig-Universität Gießen durchgeführt am Institut für Phytopathologie und Angewandte Zoologie vorgelegt von M.Sc. Feng Zhang aus China Gießen 2014 1. Gutachter: Prof. Dr. Karl-Heinz Kogel 2. Gutachter: Prof. Dr. Volker Wissemann Contents Introduction ............................................................................................................................................. 1 1.1 Plant immunity system .............................................................................................................. 1 1.1.1 Pattern-trigged immunity (PTI) ..................................................................................... 2 1.1.2 Effector trigged immunity (ETI) .................................................................................... 6 1.2 The mutualistic fungus Piriformospora indica ......................................................................... 7 1.2.1 P. indica‟s beneficial symbioses with host plants .......................................................... 7 1.2.2 P. indica confers tolerance and resistance to abiotic and biotic stresses ....................... 8 1.2.3 Cellular colonization pattern of P. indica ...................................................................... 9 1.2.4 Effector candidates secreted by P. indica .................................................................... 10 1.3. E3 ubiquitin ligases and plant innate immunity ..................................................................... 11 1.3.1 ubiquitin-26S proteasome system ................................................................................ 11 1.3.2 Interaction of E3 ubiquitin ligase effectors with plant defense .................................... 12 1.4 Objective ................................................................................................................................. 14 2. Materials and Methods ...................................................................................................................... 15 2.1 Plant, fungal material and plant inoculation ........................................................................... 15 2.1.1 Arabidopsis thaliana ..................................................................................................... 15 2.1.2 Piriformospora indica .................................................................................................. 16 2.1.3 Inoculation of plant roots with Piriformospora indica ................................................ 16 2.2 Molecular biological standard methods .................................................................................. 16 2.2.1 DNA-Extraction ........................................................................................................... 16 2.2.2 RNA-Extraction ........................................................................................................... 17 2.2.3 Reverse transcriptional polymerase chain reaction (RT-PCR) .................................... 18 2.2.4 Quantitative Real-Time PCR (qPCR) .......................................................................... 18 2.2.5 Polymerase chain reaction (PCR) ................................................................................ 18 2.2.6. Agarose gel electrophoresis ........................................................................................ 19 2.2.7 Production of chemically competent E. coli DH5α cells ............................................. 20 I 2.2.8 Transformation of chemically competent E. coli cells ................................................. 20 2.2.9 Western blotting ........................................................................................................... 21 2.3 Candidate gene expression studies with quantitative real-time PCR ...................................... 22 2.3.1. PIIN29 expression kinetics ......................................................................................... 22 2.3.2 Quantification of fungal colonization by qPCR ........................................................... 22 2.4 Analysis of flagellin- or chitin-induced Pattern-Trigged Immunity (PTI) .............................. 23 2.4.1 Analysis of flg22-induced oxidative burst of Arabidopsis roots.................................. 23 2.4.2 Analysis of flg22- or chitin-induced oxidative burst of leaves .................................... 23 2.4.3 Analysis flg22-induced callose deposition in Arabidopsis leaves ............................... 23 2.4.4 Analysis flg22-induced MAP kinase activity .............................................................. 24 2.5 Transient expression DELD candidates in Nicotiana tabacum and Nicotiana benthamiana . 24 2.5.1 Growth of N. tabacum and N. benthamiana ................................................................ 24 2.5.2 Agrobacterium mediated infiltration ............................................................................ 24 2.5.3 Type III secret system mediated infiltration ................................................................ 26 2.6 Botrytis cinerea inoculation and quantification ...................................................................... 27 2.7 Preparation of TEM samples ................................................................................................... 28 2.8 Methods for 3D protein modeling of PIIN29 RING finger domain ....................................... 28 3. Result ................................................................................................................................................ 30 3.1 Functional analysis of effector candidate PIIN_00029 (PIIN29)............................................ 30 3.1.1 In silico analysis of PIIN29 .......................................................................................... 30 3.1.2 Gene expression of PIIN29 during colonization of Arabidopsis root with P. indica .. 32 3.1.3 Overexpression of PIIN29 in plant .............................................................................. 34 3.1.4 Colonization of transgenic Arabidopsis PIIN29OE ..................................................... 37 3.1.5 Suppression of basal defense by PIIN29 ...................................................................... 39 3.1.6 PIIN29 is not involved in the MAP kinase pathway trigged by flg22 ......................... 44 3.1.7 PIIN29 failed to abolish growth inhibition trigged by flg22 ........................................ 45 3.2 Characterization of DELD effector candidates of P. indica ................................................... 46 3.2.1 Subcellular localization of DELD effector candidates of P. indica using agroinfiltraion .............................................................................................................................................. 47 II 3.2.2 Functional analysis of DELD effector candidates of P. indica using P. fluorescens EtHAn mediated infiltration.................................................................................................. 49 3.3 Cytology of P. indica‟s infection structure using transmission electron microscopy (TEM) . 52 4. Discussion ......................................................................................................................................... 53 4.1 Functional analysis of effector candidate PIIN29 ................................................................... 53 4.2 Functional analysis of one group of effector candidates belonging to DELD family ............. 58 4.3 New insights into the cytology of P. indica‟s infection structure ........................................... 59 4.4 Future perspectives ................................................................................................................. 59 5. Summary/Zusammenfassung ............................................................................................................ 60 5.1 Summary ................................................................................................................................. 60 5.2 Zusammenfassung ................................................................................................................... 61 6. References ......................................................................................................................................... 64 7. Supplement ....................................................................................................................................... 74 7.1 Sequence information of PIIN29 ............................................................................................ 74 7.2 plasmid map ............................................................................................................................ 75 7.3 List of primers mentioned in this thesis .................................................................................. 78 7.4 Sequence of DELD effector candidates .................................................................................. 80 8. Declaration ........................................................................................................................................ 85 9. Acknowledgements ..........................................................................................................................
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