Phylogeography of California

Phylogeography of California PDF

Author: Kristina A. Schierenbeck

Publisher: Univ of California Press

Published: 2014-08-26

Total Pages: 364

ISBN-13: 0520959248

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Phylogeography of California examines the evolution of a variety of taxa—ancient and recent, native and migratory—to elucidate evolutionary events both major and minor that shaped the distribution, radiation, and speciation of the biota of California. The book also interprets evolutionary history in a geological context and reviews new and emerging phylogeographic patterns. Focusing on a region that is defined by physical and political boundaries, Kristina A. Schierenbeck provides a phylogeographic survey of California’s diverse flora and fauna according to their major organismal groups. Life history and ecological characteristics, which play prominent roles in the various outcomes for respective clades, are also considered throughout the work. Supporting scholars and researchers who study evolutionary diversification, the book analyzes research that helps assess one of the major challenges in phylogeographic studies: understanding changes in population structures shaped by geological and geographical processes. California is one of only twenty-five acknowledged biological hotspots worldwide, and the phylogeographic history of the state can be extrapolated to study other regions in western North America. Further consideration is given to implications for conservation, recommendations concerning the biogeographic provinces that roughly define the state of California, and predictions related to climate change.

Historical and Oceanographic Influences on Phylogeography in the California Current Ecosystem and Applications to Management of Marine Species

Historical and Oceanographic Influences on Phylogeography in the California Current Ecosystem and Applications to Management of Marine Species PDF

Author: Alison Jane Haupt

Publisher: Stanford University

Published: 2011

Total Pages: 138

ISBN-13:

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The overarching theme of my thesis is to explore patterns of larval dispersal as they relate to management of fished marine species. I employed a case study of two species: Megastraea undosa and Parastichopus parvimensis to investigate patterns of phylogeography and assess relative scales of dispersal for these two species which are fished in both California, USA and Baja California, MEX. To examine how some generalities for many species can be made for a specific geographic area, I reviewed all existing phylogeographic studies around Cape Mendocino, CA. Dispersal at a snail's pace: Strong genetic structure in the fisheries gastropod Megastaea undosa. Information about larval dispersal is necessary for effective management of fisheries. Population genetics are often employed to assess dispersal, but these data also carry artifacts from the evolutionary history of a species. I assessed historical and modern demography of the wavy top snail, Megastraea undosa, a marine snail that is fished in California, USA and Baja California, Mexico. Genetic structure at the COI mtDNA locus is strikingly high, with large shifts in haplotype frequencies between southern Baja and southern California. Coalescent-based modeling of genetic data suggests that the population has limited dispersal throughout the range and underwent a northward range expansion after the last glacial maximum. I conclude that both historical and contemporary processes affect observed patterns of phylogeography in M. undosa. Consideration of the evolutionary history of target species allows for a more accurate interpretation of genetic data for management. iv Subtle genetic structure in the commercially fished warty sea cucumber, Parastichopus parvimensis. The warty sea cucumber, P. parvimensis, is fished commercially in both California, USA and Baja California, Mexico but little is known about the status of the fisheries or if separate stocks exist. P. parvimensis has a long pelagic larval duration of 50-90 days, which may translate to high connectivity throughout the species range (Monterey, CA, USA to Bahía Asuncion, BCS, Mexico). I examined phylogeographic patterns at the COI mtDNA locus and five microsatellite loci throughout the range of P. parvimensis and was particularly interested in patterns associated with the potential phylogeographic barriers of Point Conception, CA, USA and Punta Eugenia, BCS, MEX. I found no structure associated with Point Conception, but subtle genetic structure at both types of loci for Punta Eugenia, which may be mechanistically explained by oceanographic patterns. These data have important implications for management of the sea cucumber fishery and indicate that populations south of Punta Eugenia likely do not receive biologically meaningful input of larvae from northern populations to supplement the local fishery. Concordant phylogeographic patterns associated with the major headland of Cape Mendocino in northern California. Most coastlines are non-linear and headlands such as Cape Mendocino may interact with oceanographic processes to create barriers to dispersal. Though Cape Mendocino is a prominent headland, it has been largely ignored in the phylogeographic literature, which focuses instead on Point Conception in southern California. I reviewed and synthesized phylogeographic studies that include sampling sites north and south of Cape Mendocino and discuss the v oceanography and topography of the cape as potential mechanistic drivers of larval dispersal patterns. Slightly more than half (24 out of 46) of the surveyed species that showed significant genetic structure around this headland, which suggests that this headland may be an important barrier to dispersal and may limit connectivity between northern and central California. If populations north of Cape Mendocino have higher connectivity with populations in Oregon than with those in central California, marine spatial planning must occur at a multi-state scale to reach marine conservation goals.

The Evolution of Phylogenetic Systematics

The Evolution of Phylogenetic Systematics PDF

Author: Andrew Hamilton

Publisher: Univ of California Press

Published: 2013-11-09

Total Pages: 320

ISBN-13: 0520956753

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The Evolution of Phylogenetic Systematics aims to make sense of the rise of phylogenetic systematics—its methods, its objects of study, and its theoretical foundations—with contributions from historians, philosophers, and biologists. This volume articulates an intellectual agenda for the study of systematics and taxonomy in a way that connects classification with larger historical themes in the biological sciences, including morphology, experimental and observational approaches, evolution, biogeography, debates over form and function, character transformation, development, and biodiversity. It aims to provide frameworks for answering the question: how did systematics become phylogenetic?

Molecular Panbiogeography of the Tropics

Molecular Panbiogeography of the Tropics PDF

Author: Michael Heads

Publisher: Univ of California Press

Published: 2012-01-04

Total Pages: 577

ISBN-13: 0520951808

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Molecular studies reveal highly ordered geographic patterns in plant and animal distributions. The tropics illustrate these patterns of community immobilism leading to allopatric differentiation, as well as other patterns of mobilism, range expansion, and overlap of taxa. Integrating Earth history and biogeography, Molecular Panbiogeography of the Tropics is an alternative view of distributional history in which groups are older than suggested by fossils and fossil-calibrated molecular clocks. The author discusses possible causes for the endemism of high-level taxa in tropical America and Madagascar, and overlapping clades in South America, Africa, and Asia. The book concludes with a critique of adaptation by selection, founded on biogeography and recent work in genetics.

Phylogeny and Evolution of the Mollusca

Phylogeny and Evolution of the Mollusca PDF

Author: Winston Ponder

Publisher: Univ of California Press

Published: 2008-03-25

Total Pages: 496

ISBN-13: 9780520250925

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"Ponder and Lindberg provides a breathtaking overview of the evolutionary history of the Mollusca, effectively melding information from anatomy, ecology, genomics, and paleobiology to explore the depths of molluscan phylogeny. Its outstanding success is due to thoughtful planning, focused complementary contributions from 36 expert authors, and careful editing. This volume is a must for malacologists."—Bruce Runnegar, Department of Earth and Space Sciences, University of California, Los Angeles "Our understanding of the phylogeny and evolutionary history of the mollusca has been revolutionized over the past two decades through new molecular data and analysis, and reinvestigation of morphological characters. In this volume Ponder, Lindberg, and their colleagues do a wonderful job of integrating this work to provide new perspectives on the relationships of the major molluscan clades, their evolutionary dynamics, and their history. Particularly timely is the coverage of molluscan evo-devo and genomics."—Douglas H. Erwin, Curator of Paleozoic Invertebrates, National Museum of Natural History

Experimental Evolution

Experimental Evolution PDF

Author: Theodore Garland

Publisher: Univ of California Press

Published: 2009-12-03

Total Pages: 750

ISBN-13: 052094447X

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Experimental approaches to evolution provide indisputable evidence of evolution by directly observing the process at work. Experimental evolution deliberately duplicates evolutionary processes—forcing life histories to evolve, producing adaptations to stressful environmental conditions, and generating lineage splitting to create incipient species. This unique volume summarizes studies in experimental evolution, outlining current techniques and applications, and presenting the field’s full range of research—from selection in the laboratory to the manipulation of populations in the wild. It provides work on such key biological problems as the evolution of Darwinian fitness, sexual reproduction, life history, athletic performance, and learning.

The Phylogenetic Handbook

The Phylogenetic Handbook PDF

Author: Marco Salemi

Publisher: Cambridge University Press

Published: 2009-03-26

Total Pages: 750

ISBN-13: 0521877105

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A broad, hands on guide with detailed explanations of current methodology, relevant exercises and popular software tools.

Lizards in an Evolutionary Tree

Lizards in an Evolutionary Tree PDF

Author: Jonathan B. Losos

Publisher: Univ of California Press

Published: 2011-02-09

Total Pages: 528

ISBN-13: 0520269845

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"In a book both beautifully illustrated and deeply informative, Jonathan Losos, a leader in evolutionary ecology, celebrates and analyzes the diversity of the natural world that the fascinating anoline lizards epitomize. Readers who are drawn to nature by its beauty or its intellectual challenges—or both—will find his book rewarding."—Douglas J. Futuyma, State University of New York, Stony Brook "This book is destined to become a classic. It is scholarly, informative, stimulating, and highly readable, and will inspire a generation of students."—Peter R. Grant, author of How and Why Species Multiply: The Radiation of Darwin's Finches "Anoline lizards experienced a spectacular adaptive radiation in the dynamic landscape of the Caribbean islands. The radiation has extended over a long period of time and has featured separate radiations on the larger islands. Losos, the leading active student of these lizards, presents an integrated and synthetic overview, summarizing the enormous and multidimensional research literature. This engaging book makes a wonderful example of an adaptive radiation accessible to all, and the lavish illustrations, especially the photographs, make the anoles come alive in one's mind."—David Wake, University of California, Berkeley "This magnificent book is a celebration and synthesis of one of the most eventful adaptive radiations known. With disarming prose and personal narrative Jonathan Losos shows how an obsession, beginning at age ten, became a methodology and a research plan that, together with studies by colleagues and predecessors, culminated in many of the principles we now regard as true about the origins and maintenance of biodiversity. This work combines rigorous analysis and glorious natural history in a unique volume that stands with books by the Grants on Darwin's finches among the most informed and engaging accounts ever written on the evolution of a group of organisms in nature."—Dolph Schluter, author of The Ecology of Adaptive Radiation

Historical and Oceanographic Influences on Phylogeography in the California Current Ecosystem and Applications to Management of Marine Species

Historical and Oceanographic Influences on Phylogeography in the California Current Ecosystem and Applications to Management of Marine Species PDF

Author: Alison Jane Haupt

Publisher:

Published: 2011

Total Pages:

ISBN-13:

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The overarching theme of my thesis is to explore patterns of larval dispersal as they relate to management of fished marine species. I employed a case study of two species: Megastraea undosa and Parastichopus parvimensis to investigate patterns of phylogeography and assess relative scales of dispersal for these two species which are fished in both California, USA and Baja California, MEX. To examine how some generalities for many species can be made for a specific geographic area, I reviewed all existing phylogeographic studies around Cape Mendocino, CA. Dispersal at a snail's pace: Strong genetic structure in the fisheries gastropod Megastaea undosa. Information about larval dispersal is necessary for effective management of fisheries. Population genetics are often employed to assess dispersal, but these data also carry artifacts from the evolutionary history of a species. I assessed historical and modern demography of the wavy top snail, Megastraea undosa, a marine snail that is fished in California, USA and Baja California, Mexico. Genetic structure at the COI mtDNA locus is strikingly high, with large shifts in haplotype frequencies between southern Baja and southern California. Coalescent-based modeling of genetic data suggests that the population has limited dispersal throughout the range and underwent a northward range expansion after the last glacial maximum. I conclude that both historical and contemporary processes affect observed patterns of phylogeography in M. undosa. Consideration of the evolutionary history of target species allows for a more accurate interpretation of genetic data for management. iv Subtle genetic structure in the commercially fished warty sea cucumber, Parastichopus parvimensis. The warty sea cucumber, P. parvimensis, is fished commercially in both California, USA and Baja California, Mexico but little is known about the status of the fisheries or if separate stocks exist. P. parvimensis has a long pelagic larval duration of 50-90 days, which may translate to high connectivity throughout the species range (Monterey, CA, USA to Bahía Asuncion, BCS, Mexico). I examined phylogeographic patterns at the COI mtDNA locus and five microsatellite loci throughout the range of P. parvimensis and was particularly interested in patterns associated with the potential phylogeographic barriers of Point Conception, CA, USA and Punta Eugenia, BCS, MEX. I found no structure associated with Point Conception, but subtle genetic structure at both types of loci for Punta Eugenia, which may be mechanistically explained by oceanographic patterns. These data have important implications for management of the sea cucumber fishery and indicate that populations south of Punta Eugenia likely do not receive biologically meaningful input of larvae from northern populations to supplement the local fishery. Concordant phylogeographic patterns associated with the major headland of Cape Mendocino in northern California. Most coastlines are non-linear and headlands such as Cape Mendocino may interact with oceanographic processes to create barriers to dispersal. Though Cape Mendocino is a prominent headland, it has been largely ignored in the phylogeographic literature, which focuses instead on Point Conception in southern California. I reviewed and synthesized phylogeographic studies that include sampling sites north and south of Cape Mendocino and discuss the v oceanography and topography of the cape as potential mechanistic drivers of larval dispersal patterns. Slightly more than half (24 out of 46) of the surveyed species that showed significant genetic structure around this headland, which suggests that this headland may be an important barrier to dispersal and may limit connectivity between northern and central California. If populations north of Cape Mendocino have higher connectivity with populations in Oregon than with those in central California, marine spatial planning must occur at a multi-state scale to reach marine conservation goals.

The Ecology of Marine Fishes

The Ecology of Marine Fishes PDF

Author: Dr. Larry G. Allen

Publisher: Univ of California Press

Published: 2006-02-15

Total Pages: 1353

ISBN-13: 0520932471

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Marine fishes have been intensively studied, and some of the fundamental ideas in the science of marine ecology have emerged from the body of knowledge derived from this diverse group of organisms. This unique, authoritative, and accessible reference, compiled by 35 luminary ecologists, evolutionary biologists, and ichthyologists, provides a synthesis and interpretation of the large, often daunting, body of information on the ecology of marine fishes. The focus is on the fauna of the eastern Pacific, especially the fishes of the California coast, a group among the most diverse and best studied of all marine ecosystems. A generously illustrated and comprehensive source of information, this volume will also be an important launching pad for future research and will shed new light on the study of marine fish ecology worldwide. The contributors touch on many fields in biology, including physiology, development, genetics, behavior, ecology, and evolution. The book includes sections on the history of research, both published and unpublished data, sections on collecting techniques, and references to important earlier studies.