Nuclear and Cytoplasmic Genetic Variation in Picea: DNA Markers for Evaluating Past Migration, Introgression and Evolutionary History
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University of New Hampshire University of New Hampshire Scholars' Repository Doctoral Dissertations Student Scholarship Spring 2003 Nuclear and cytoplasmic genetic variation in Picea: DNA markers for evaluating past migration, introgression and evolutionary history Joselle Germano-Presby University of New Hampshire, Durham Follow this and additional works at: https://scholars.unh.edu/dissertation Recommended Citation Germano-Presby, Joselle, "Nuclear and cytoplasmic genetic variation in Picea: DNA markers for evaluating past migration, introgression and evolutionary history" (2003). Doctoral Dissertations. 125. https://scholars.unh.edu/dissertation/125 This Dissertation is brought to you for free and open access by the Student Scholarship at University of New Hampshire Scholars' Repository. It has been accepted for inclusion in Doctoral Dissertations by an authorized administrator of University of New Hampshire Scholars' Repository. For more information, please contact [email protected]. INFORMATION TO USERS This manuscript has been reproduced from the microfilm master. UMI films the text directly from the original or copy submitted. Thus, some thesis and dissertation copies are in typewriter face, while others may be from any type of computer printer. The quality of this reproduction is dependent upon the quality of the copy submitted. Broken or indistinct print, colored or poor quality illustrations and photographs, print bleedthrough, substandard margins, and improper alignment can adversely affect reproduction. In the unlikely event that the author did not send UMI a complete manuscript and there are missing pages, these will be noted. Also, if unauthorized copyright material had to be removed, a note will indicate the deletion. Oversize materials (e.g., maps, drawings, charts) are reproduced by sectioning the original, beginning at the upper left-hand comer and continuing from left to right in equal sections with small overlaps. ProQuest Information and Learning 300 North Zeeb Road, Ann Arbor, Ml 48106-1346 USA 800-521-0600 Reproduced with permission of the copyright owner. Further reproduction prohibited without permission. Reproduced with permission of the copyright owner. Further reproduction prohibited without permission. NUCLEAR AND CYTOPLASMIC GENETIC VARIATION IN PICEA: DNA MARKERS FOR EVALUATING PAST MIGRATION, INTROGRESSION AND EVOLUTIONARY HISTORY BY Joselle Germano-Presby B.S. Eckerd College, 1995 DISSERTATION Submitted to the University of New Hampshire in Partial Fulfillment of the Requirements for the Degree of Doctor of Philosophy in Biochemistry May, 2003 Reproduced with permission of the copyright owner. Further reproduction prohibited without permission. UMI Number: 3083730 ___ ® UMI UMI Microform 3083730 Copyright 2003 by ProQuest Information and Learning Company. All rights reserved. This microform edition is protected against unauthorized copying under Title 17, United States Code. ProQuest Information and Learning Company 300 North Zeeb Road P.O. Box 1346 Ann Arbor, Ml 48106-1346 Reproduced with permission of the copyright owner. Further reproduction prohibited without permission. Ph.D. DISSERTATION This dissertation has been examined and approved. ^ __________ Anita S. Klein, Associate Professor , Associate Professor Richard H. Cote, Professor I Robert T. Eckert, Professor Thomas D. Kocher, Professor / ' d A v ~ Jh c >^ ___________ Dorothy Peteet, Adjunct Senior Research Scientist, Lamont-Doherty Earth Observatory, Columbia University V -/3- 2 . 0 0 Date Reproduced with permission of the copyright owner. Further reproduction prohibited without permission. ACKNOWLEDGEMENTS For over seven years have I worked on the material presented in this dissertation. Those were some of the best years of my life. Not because the work was as fulfilling as it was, but because of all of the people with whom I worked and who supported me along the way. First and foremost, I must acknowledge my graduate advisor Anita Klein. Anita contacted me directly before my application to the program was even accepted to tell me about an exciting research opportunity in her lab. Since that day she has been a helpful resource, a knowledgeable advisor and a good friend. She has continually supported me; her high expectations have constantly challenged me. I have learned a tremendous amount from her and the content in this dissertation reflects that. No graduate program is complete without one’s graduate comrades. Lab-mates not only become some of your best friends, but they are your co-workers there to help you with a new protocol or aid you on a field trip, there to participate in intellectually stimulating conversations and keep your logic in check, there to share your troubled times and to celebrate your triumphs. They become your foundation, your circle; you depend on them. Danielle Cain, Drew West, Aaron Wallace, Brian Teasdale and Chery Whipple are among some of my closest comrades. Graduate life would not have been the same without you guys, you have helped and supported me tremendously. Also along the way were Jianhua Li, Helene Balkin, Heather Taylor, Chris Clouser, Aaron Thomer, Queta Boese, John Wool, Brad Anderson, Angie Norton and Karen Reed. Thank you for your help and your friendship. Nothing is possible without family. Or at least I depend on mine so much that it seems like I couldn’t accomplish anything without them behind me. No matter what you iii Reproduced with permission of the copyright owner. Further reproduction prohibited without permission. do, your family backs you up, encourages you, and nourishes you. They are primarily interested in your well-being, what is best for you. I have thanked my Mom, Dad and sister Aleece countless times for always being there for me; I can’t overemphasize my appreciation for them here. I am who I am because of your love, thank you once again. Close friends are also like family. My extended family includes Katherine Jenkins, Sybil Rowe, Sarah Hoeksema and Courtney Daum. Good friends are there to help you move, there to help you plan your wedding, and always have a spare bed or couch when you need a place to crash. Thank you for being there. There is always one person in your life on whom you depend the most, with whom you spend the most time, who knows you in and out and loves you no matter what state you’re in. That person will do anything for you, be it driving long hours to see you each week, spending a long weekend to help you build a piece of equipment that you need for work, or accompanying you on long trips to the back woods of Virginia to help you collect samples or to other far away places to support you while you interview for a job. Even after you’ve soaked their shirt with your tears, yelled so loudly their ears ring, blamed them for half of your troubles and neglected to call them while spending two weeks in Europe, they still love you, asking for nothing in return. That person is your best friend; my best friend is my husband Thad Presby. Thanks for standing by me all these years. This work would truly not have been possible without you as my source of strength. You are my life. iv Reproduced with permission of the copyright owner. Further reproduction prohibited without permission. TABLE OF CONTENTS ACKNOWLEDGEMENTS...........................................................................................iii LIST OF FIGURES...................................................................................................... viii LIST OF TABLES........................................................................................................ix ABSTRACT.................................................................................................................. x INTRODUCTION......................................................................................................... 1 I. SPECIES SPECIFIC NUCLEAR AND CHLOROPLAST SINGLE NUCLEOTIDE POLYMORPHISMS TO DISTINGUISH PICEA GLAUCA, P. MARIANA AND P. RUBENS........................................................................................................................ 3 Abstract..........................................................................................................................3 Introduction ................................................................................................................... 3 Materials and Methods .................................................................................................. 5 Plant Materials................................................................................................... 5 PCR Methods ..................................................................................................... 5 Cloning .............................................................................................................. 5 DNA Sequencing ............................................................................................... 5 Sequence Analysis ............................................................................................. 5 Population Studies..............................................................................................5 Results.........................................................................................: ..................................6 Chloroplast Gene Sequences ..............................................................................6 Screening Interspecific tm K SNPs for Species-Specificity ............................... 6 Screening Interspecific