1st Edition

Applied Environmental Genomics

    368 Pages 76 Color & 4 B/W Illustrations
    by CRC Press

    DNA is the essence of life and the original ‘big data’. New technologies are allowing scientists to access and make sense of this information like never before, and they are using it to solve the world’s greatest environmental challenges.

    Applied Environmental Genomics synthesises the latest and most exciting uses of genomic technologies for environmental science and management. With an emphasis on diversity of applications and real-world demonstrations, leading researchers have contributed detailed chapters on innovative approaches to obtaining critical management-relevant information about the natural world. These chapters are complemented by perspective sections written by environmental managers who describe their experiences using genomics to support evidence-based decisions.

    Ideal for students, researchers and professionals working in natural resource management and policy, Applied Environmental Genomics is a comprehensive introduction to a fast-moving field that is transforming the practice of environmental management, with profound relevance to industry, government and the public.


    List of contributors

    Introduction to applied environmental genomics

    Section A: Biodiversity

    1: Design considerations for eDNA metabarcoding surveys

    William Bernard Perry, Kirthana Pillay, Paul George, Georgina Brennan, Abigail Lowe, Laura Jones, Luke Holman, Tom Gibson, Natasha de Vere and Simon Creer

    2: Measuring biodiversity with eDNA metabarcoding

    Antton Alberdi, Iñaki Odriozola, Raphael Eisenhofer and Ostaizka Aizpurua

    3: Perspective – eDNA and metagenomics: a story of a disruptive technology for biodiversity monitoring

    Peter Gilchrist

    4: Revealing animal diet and food webs through DNA metabarcoding

    Bruce E. Deagle, Johan Pansu, Julie McInnes and Michael Traugott

    5: Approaching ecological questions using DNA barcodes

    Michael Stat and Katrina West

    Section B: Life history and population biology

    6: Lifespan estimation from genomic analysis

    Benjamin Mayne and Christopher Faulk

    7: Development of epigenetic clocks

    Simon Jarman, Benjamin Mayne and Tom Little

    8: Molecular sex identification for applications in conservation, industry and veterinary medicine

    Clare E. Holleley, Sarah L. Whiteley, Floriaan Devloo-Delva, Andreas Bachler, Joshua Llinas and Arthur Georges

    9: Perspective – Whole genome assemblies, devils and disease

    Carolyn J. Hogg, Emma Peel, Yuanyuan Cheng and Katherine Belov

    10: Genetic-based inventories of wildlife abundance

    Garth Mowat, Joseph D. Clark, Alexander Kopatz, Clayton Lamb and Anita J. Norman

    11: The practical magic of close-kin mark-recapture

    Mark V. Bravington and Emma L. Carroll

    12: Perspective – Genomics and bear management

    Michael Proctor

    13: How can we use genomics to predict and improve population viability?

    Fred W. Allendorf, Nils Ryman and Marty Kardos

    Section C: Adaptation and change

    14: Adaptive responses to the environment and environmental change

    Orly Razgour, Jesse R. Lasky, Thibaut Capblancq and Brenna R. Forester

    15: Perspective – The power of genomics for guiding reintroductions

    Helen Taylor

    16: Palaeo- and museo-genomics: perspectives on modern species

    Alicia Grealy, Lauren C. White, Emily Roycroft and Jeremy J. Austin

    17: Perspective – Genomics and the prioritisation of taxa and populations for conservation

    Catherine Darst

    Section D: Environmental molecular physiology

    18: Applied epigenomics in a rapidly changing world

    M. Teresa Boquete, Sabrina M. McNew and Christina L. Richards

    19: DNA-based microbial bioindication of environmental state

    Jodie van de Kamp, Ángel Borja and Andrew Bissett

    20: Perspective – The promise of ecotoxicogenomics for assessing aquatic health

    Alvine C. Mehinto

    Section E: Spatial genomics

    21: Unravelling plant-pollinator interactions through pollen DNA analysis

    Liz Milla and Francisco Encinas-Viso

    22: Genomic approaches to study dispersal in wild animal populations: implications for wildlife management

    Liz Milla and Francisco Encinas-Viso

    23: Conservation prioritisation based on evolutionary distinctiveness of communities

    Renee A. Catullo, Christiana McDonald-Spicer and Craig C. Moritz

    Section F: Biosecurity and disease monitoring

    24: Invasive species detection and management using genomic methods

    Katarina C. Stuart, Andrew P. Woolnough and Lee A. Rollins

    25: Genomic identification and surveillance of infectious diseases in natural systems

    Jocelyn P. Colella, Stephen E. Greiman, Susan Kutz, Holly L. Lutz and Joseph A. Cook

    26: Management of vertebrate pests using genetic control techniques

    Anna C. Clark, Alana Alexander, Jackson Champer, Rey Edison, Mandira Katuwal and Neil J. Gemmell

    27: Perspective – The ‘E’ in RD&E and the application of genomics for environmental and biosecurity risk management

    Geoff Grossel




    Oliver F. Berry is Director of the Environomics Future Science Platform at CSIRO. His career has featured a diversity of genomics techniques from population genomics to environmental DNA, and he has worked in application domains from conservation biology to invasive species management.

    Clare E. Holleley is a Principal Research Scientist at National Research Collections Australia (CSIRO). She is an expert in vertebrate sex determination and an innovator in the field of historical epigenomics. Her work characterises rates of evolutionary change in ecological, reproductive and disease research.

    Simon N. Jarman is Professor of Environmental Genomics at Curtin University. He is an expert in analysis of animal age and life cycles with genomic methods, and environmental DNA analyses of species diversity.