Macroevolution of Microhabitat, Climate, and Morphology in Lungless Salamanders (Family: Plethodontidae)

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Macroevolution of Microhabitat, Climate, and Morphology in Lungless Salamanders (Family: Plethodontidae) Iowa State University Capstones, Theses and Graduate Theses and Dissertations Dissertations 2020 Macroevolution of microhabitat, climate, and morphology in lungless salamanders (Family: Plethodontidae). Erica Karin Baken Iowa State University Follow this and additional works at: https://lib.dr.iastate.edu/etd Recommended Citation Baken, Erica Karin, "Macroevolution of microhabitat, climate, and morphology in lungless salamanders (Family: Plethodontidae)." (2020). Graduate Theses and Dissertations. 17970. https://lib.dr.iastate.edu/etd/17970 This Thesis is brought to you for free and open access by the Iowa State University Capstones, Theses and Dissertations at Iowa State University Digital Repository. It has been accepted for inclusion in Graduate Theses and Dissertations by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. Macroevolution of microhabitat, climate, and morphology in lungless salamanders (Family: Plethodontidae). by Erica Karin Baken A dissertation submitted to the graduate faculty in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY Major: Ecology and Evolutionary Biology Program of Study Committee: Dean Adams, Major Professor Jeanne Serb Nicole Valenzuela Tracy Heath Gregory Courtney Philip Dixon The student author, whose presentation of the scholarship herein was approved by the program of study committee, is solely responsible for the content of this dissertation. The Graduate College will ensure this dissertation is globally accessible and will not permit alterations after a degree is conferred. Iowa State University Ames, Iowa 2020 Copyright © Erica Karin Baken, 2020. All rights reserved. ii DEDICATION I would like to dedicate this dissertation to my parents, Michael Schock and Leslie Baken. Your love, support, wisdom, and laughter is more than any child deserves. I could write another dissertation describing the ways in which you have filled my life with joy and inspired me to always strive for more. They say that in research, we stand on the shoulders of giants; you are my giants. iii TABLE OF CONTENTS Page LIST OF FIGURES ........................................................................................................................ v LIST OF TABLES ......................................................................................................................... vi ACKNOWLEDGMENTS ............................................................................................................ vii ABSTRACT ................................................................................................................................. viii CHAPTER 1. GENERAL INTRODUCTION ............................................................................... 1 Theory and Analytical Methods for Macroevolutionary Inquiry .............................................. 1 Macroevolution of Microhabitat, Morphology, and Climate .................................................... 4 Macroevolution of Plethodontidae ............................................................................................ 6 Dissertation Organization .......................................................................................................... 9 References ............................................................................................................................... 10 CHAPTER 2. MACROEVOLUTION OF ARBOREALITY IN SALAMANDERS .................. 16 Abstract .................................................................................................................................... 16 Introduction ............................................................................................................................. 17 Materials and Methods ............................................................................................................ 19 Phylogeny ........................................................................................................................... 19 Microhabitat Classification ................................................................................................ 20 Morphology ........................................................................................................................ 22 Phylogenetic Comparative Analyses .................................................................................. 24 Results ..................................................................................................................................... 26 Discussion ................................................................................................................................ 32 References ............................................................................................................................... 39 CHAPTER 3. THE EVOLUTION OF SALAMANDER ARBOREALITY MAY BE DRIVEN BY BROAD CLIMATE PATTERNS .......................................................................................... 44 Abstract .................................................................................................................................... 44 Introduction ............................................................................................................................. 45 Materials and Methods ............................................................................................................ 47 Microhabitat Use ................................................................................................................ 47 Distribution and Environmental Data ................................................................................. 48 Phylogenetic Comparative Analyses .................................................................................. 50 Ecological Niche Modeling ................................................................................................ 51 Results ..................................................................................................................................... 55 Comparative Phylogenetic Analyses .................................................................................. 55 Ecological Niche Modeling ................................................................................................ 57 Discussion ................................................................................................................................ 61 References ............................................................................................................................... 65 iv CHAPTER 4. MACROEVOLUTION OF DESICCATION-RELATED MORPHOLOGY IN PLETHODONTID SALAMANDERS AS INFERRED FROM A NOVEL SURFACE AREA TO VOLUME RATIO ESTIMATION APPROACH .................................................................. 70 Abstract .................................................................................................................................... 70 Introduction ............................................................................................................................. 71 Materials and Methods ............................................................................................................ 74 Deriving Surface Area to Volume Ratio (SA:V) Estimates ............................................... 74 SA:V Performance Evaluation ........................................................................................... 77 Macroevolution of SA:V .................................................................................................... 78 Results ..................................................................................................................................... 81 SA:V Performance Evaluation ........................................................................................... 81 Macroevolution of SA:V .................................................................................................... 82 Discussion ................................................................................................................................ 85 References ............................................................................................................................... 89 CHAPTER 5. GENERAL CONCLUSION .................................................................................. 94 References ............................................................................................................................. 100 APPENDIX A. ADDITIONAL TABLES AND FIGURES FOR CHAPTER 2 ........................ 101 APPENDIX B. ADDITIONAL TABLES AND FIGURES FOR CHAPTER 3 ........................ 106 APPENDIX C. ADDITIONAL TABLES AND FIGURES FOR CHAPTER 4 ........................ 120 v LIST OF FIGURES Page Figure 2.1. Landmark placement for foot shape analysis. ............................................................ 24 Figure 2.2. Time-dated phylogeny for salamanders from Bonett and Blair (2017). .................... 29 Figure 2.3. Heat map of Q-matrix representing transition rates between microhabitat categories for Bayesian stochastic mapping. ............................................................ 30 Figure 2.4. Number of transitions between microhabitat categories. ........................................... 31 Figure 2.5. Phylomorphospace representing dispersion among species in their general body proportions and foot shape. .....................................................................................
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