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Influence of Repeated Field Applications of Azoxystrobin on Population Diversity of Monilinia Fructicola Madeline Elizabeth Dowling Clemson University

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Influence of Repeated Field Applications of Azoxystrobin on Population Diversity of Monilinia Fructicola Madeline Elizabeth Dowling Clemson University Clemson University TigerPrints All Theses Theses 5-2015 Influence of Repeated Field Applications of Azoxystrobin on Population Diversity of Monilinia Fructicola Madeline Elizabeth Dowling Clemson University Follow this and additional works at: https://tigerprints.clemson.edu/all_theses Recommended Citation Dowling, Madeline Elizabeth, "Influence of Repeated Field Applications of Azoxystrobin on Population Diversity of Monilinia Fructicola" (2015). All Theses. 2136. https://tigerprints.clemson.edu/all_theses/2136 This Thesis is brought to you for free and open access by the Theses at TigerPrints. It has been accepted for inclusion in All Theses by an authorized administrator of TigerPrints. For more information, please contact [email protected]. INFLUENCE OF REPEATED FIELD APPLICATIONS OF AZOXYSTROBIN ON POPULATION DIVERSITY OF MONILINIA FRUCTICOLA A Thesis Presented to the Graduate School of Clemson University In Partial Fulfillment of the Requirements for the Degree Master of Science Plant and Environmental Sciences by Madeline Elizabeth Dowling May 2015 Accepted by: Dr. Guido Schnabel, Committee Chair Dr. Paula Agudelo Dr. Julia Kerrigan ABSTRACT Reduced-risk fungicides are a major component of modern IPM programs, but their site-specific mode of action makes them vulnerable to resistance development. Assessing the resistance risk of a fungicide is critical to establishment of sustainable use protocols for the practitioner. Several controlled laboratory studies indicate that fungicide-induced mutagenesis may be an underappreciated trait in resistance risk assessment. In the brown rot fungus Monilinia fructicola, microsatellite instability and transposon movement resulted after prolonged exposure to the fungicide azoxystrobin in vitro. In this study, azoxystrobin or propiconazole fungicides were applied weekly to nectarine trees for two years between bloom and harvest, and fungal isolates were investigated for phenotypic and genotypic changes. Results showed no evidence of fungicide-induced microsatellite instability or reduction of sensitivity to fungicides used in the study or to unrelated chemical classes, indicating that fungicide-induced mutagenesis may not occur in field populations as readily as it does in vitro. Further research examining larger portions of the genome may be necessary to ascertain the significance of fungicide-induced mutagenesis to fungicide resistance risk assessment. ii DEDICATION I would like to dedicate this work to my Lord and Savior Jesus Christ. Because of Him my life becomes more exciting every day. I can’t wait to see what He has for me next. I would also like to dedicate this work to my family: my parents, brother, and grandfather who loved, motivated, encouraged, inspired, and sacrificed to make it possible for me to be where I am today. iii ACKNOWLEDGMENTS First of all, I would like to thank my advisor, Dr. Guido Schnabel, for his patience, kindness, helpfulness, enthusiasm, and professionalism. I cannot imagine a more ideal advisor, and am very excited to continue my PhD work in his lab. I am also thankful for the valuable input of Dr. Paula Agudelo and Dr. Julia Kerrigan who have been supportive, kind, and encouraging through this process. They are wonderful teachers, and their passion for nematology and mycology is definitely contagious. I am grateful for all of the great Schnabel lab members I have had the privilege to work with: Lola Fernandez-Ortuño, Anja Grabke, Simon Li, Helen Holstein, Dr. Mengjun Hu, Zhen Fan, Song Xi, Shu Ning Chen, Dr. Hideo Ishii, and Susan Tsuji. A special thank you to our incredible technician Karen Bryson, who provided much helpful advice and technical support. I would also like to specially thank Harriet Boatwright for being an amazing and fun helper. Many thanks also go to Dr. Sydney Everhart for sharing her expertise in population genetics and microsatellite analysis. Thank you to Dr. Phil Brannen for permission to use the UGA Hort Farm and to the Musser Farm and UGA Hort Farm crews, Jeff Hopkins, Sam Hudson, and Ryan McNeill. Thank you to Dr. Ksenija Gasic and Trey Burrell for providing labels for canker tagging. Thanks to Scott Bingham, Chris Saski, and Jeanice Troutman for their help with sequencing and fragment analysis. I would also like to thank Elise Schnabel for her help with troubleshooting microsatellite analysis and DNA extraction and for her kindness in hosting so many great lab parties. Lastly, I would like to thank my undergraduate professors, especially Dr. Michael Gray, Dr. Brian Vogt, and Dr. David Boyd who deeply impacted my life and imparted their passion for science to me. iv TABLE OF CONTENTS Page TITLE PAGE .................................................................................................................... i ABSTRACT ..................................................................................................................... ii DEDICATION ................................................................................................................ iii ACKNOWLEDGMENTS .............................................................................................. iv LIST OF TABLES .......................................................................................................... vi LIST OF FIGURES ....................................................................................................... vii CHAPTER I. LITERATURE REVIEW .............................................................................. 1 Brown Rot on Stone Fruits ...................................................................... 1 Disease Cycle and Epidemiology of Monilinia fructicola ....................... 4 Control of Monilinia fructicola ................................................................ 7 Stress-Induced Mutagenesis................................................................... 11 Purpose of this Study ............................................................................. 14 II. FUNGICIDE-INDUCED MUTAGENESIS IN FIELD ISOLATES OF MONILINIA FRUCTICOLA ................................................................ 16 Introduction ............................................................................................ 16 Materials and Methods ........................................................................... 18 Results .................................................................................................... 24 Discussion .............................................................................................. 28 III. CONCLUSION ............................................................................................ 45 REFERENCES .............................................................................................................. 46 v LIST OF TABLES Table Page 1.1 Microsatellite primers used in this study ..................................................... 34 1.2 Discriminatory doses and media used to test for resistance development after a season of spraying fungicide ................................. 35 1.3 Primers used to obtain sequences used for fingerprinting and comparing isolates collected from cankers and blossoms ............... 36 1.4 Allelic variations at 5 microsatellite loci of fruit and blossom populations collected in 2013 and 2014. ............................... 37 1.5 Comparison of matching canker and blossom isolates at seven microsatellite loci. ........................................................................ 38 vi LIST OF FIGURES Figure Page 1.1 Schematic of the experimental setup for collections at the Musser Fruit Research Farm, Seneca, SC and the University of Georgia Horticulture Farm, Watkinsville, GA. ......................................................................................................... 39 1.2 Blossom blight and fruit rot incidence in treatment blocks. Fruit rot incidence data were collected after 10 applications of fungicides. ..................................................................... 40 1.3 Sensitivity of Monilinia fructicola isolates unexposed or exposed to 10 consecutive applications of azoxystrobin or propiconazole to azoxystrobin, propiconazole, iprodione, and cyprodinil ....................................................................... 41 1.4 Unbiased haploid genetic diversity by Monilinia fructicola population. ............................................................................................. 42 1.5 Mean number of alleles averaged across loci for each isolate source and collection year. ......................................................... 43 1.6 Mean number of alleles averaged across loci for each isolate source and collection year. ......................................................... 44 vii CHAPTER ONE LITERATURE REVIEW Brown Rot on Stone Fruits Stone fruits (Prunus sp.) are important agricultural crops consisting of peaches, nectarines, plums, prunes, sweet and sour cherries, and apricots (72). In 2008, the world production value of stone fruits was over 13 billion USD (58). According to the most recent report of the United Nations Food and Agriculture Statistics Division in 2011, the world’s top three stone fruit growers, China, Italy, and the United States, produced over 20 million tons of stone fruits together. The most widely grown stone fruits in the world are peaches and nectarines, and the United States generates over 1.2 million tons of these each year (1). Within the United States, California, South Carolina, and Georgia produce the most
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