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Marine Genomics

Methods and Protocols

  • Includes cutting-edge techniques

  • Provides step-by-step detail essential for reproducible results

  • Contains key implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 2498)

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Table of contents (25 protocols)

  1. Front Matter

    Pages i-xviii
  2. Mitochondrial Genome of Nonmodel Marine Metazoans by Next-Generation Sequencing (NGS)

    • Tullia I. Terraneo, Kiruthiga G. Mariappan, Zac Forsman, Roberto Arrigoni
    Pages 1-18
  3. Detecting Structural Variants and Associated Gene Presence–Absence Variation Phenomena in the Genomes of Marine Organisms

    • Marco Sollitto, Nathan J. Kenny, Samuele Greco, Carmen Federica Tucci, Andrew D. Calcino, Marco Gerdol
    Pages 53-76
  4. From Sequences to Enzymes: Comparative Genomics to Study Evolutionarily Conserved Protein Functions in Marine Microbes

    • Angelina Cordone, Alessandro Coppola, Angelica Severino, Monica Correggia, Matteo Selci, Antonio Cascone et al.
    Pages 77-88
  5. VenomFlow: An Automated Bioinformatic Pipeline for Identification of Disulfide-Rich Peptides from Venom Arsenals

    • Eleonora Achrak, Jennifer Ferd, Jessica Schulman, Trami Dang, Konstantinos Krampis, Mande Holford
    Pages 89-97
  6. Population Genomics Analysis with RAD, Reprised: Stacks 2

    • Angel G. Rivera-Colón, Julian Catchen
    Pages 99-149
  7. A Metabarcoding Protocol to Analyze Coastal Planktic Communities Collected by Desalination Plant Filters: From Sampling to Bioinformatic Exploratory Analyses

    • Matteo Cecchetto, Andrea Di Cesare, Ester Eckert, Isabella Moro, Diego Fontaneto, Stefano Schiaparelli
    Pages 151-176
  8. Barcoding of Antarctic Marine Invertebrates: From Field Sampling to Lab Procedures

    • Stefano Schiaparelli, Maria Chiara Alvaro, Matteo Cecchetto, Alice Guzzi
    Pages 177-194
  9. DNA Barcoding Procedures for Taxonomical and Phylogenetic Studies in Marine Animals: Porifera as a Case Study

    • Laura Núñez-Pons, Valerio Mazzella, Francesca Rispo, Jana Efremova, Barbara Calcinai
    Pages 195-223
  10. Environmental DNA from Marine Waters and Substrates: Protocols for Sampling and eDNA Extraction

    • Dominique A. Cowart, Katherine R. Murphy, C.-H. Christina Cheng
    Pages 225-251
  11. Metataxonomic Analysis of Bacterial Diversity Associated with Marine Organisms

    • Nadia Ruocco, Roberta Esposito, Valerio Zupo, Maria Costantini
    Pages 253-264
  12. From Sequences to Enzymes: Heterologous Expression of Genes from Marine Microbes

    • Angelica Severino, Alessandro Coppola, Monica Correggia, Costantino Vetriani, Donato Giovannelli, Angelina Cordone
    Pages 265-281
  13. Isolation of UV-Resistant Marine Bacteria by UV-C Assays

    • Daniela Coppola, Cinzia Verde, Daniela Giordano
    Pages 293-305
  14. Fractionation Protocol of Marine Metabolites

    • Genoveffa Nuzzo, Emiliano Manzo, Carmela Gallo, Giuliana d’Ippolito, Angelo Fontana
    Pages 307-313
  15. Detection and Quantification of Small Noncoding RNAs in Marine Diatoms

    • Alessandra Rogato, Angela Falciatore
    Pages 315-326
  16. Optimized Proteolistic Protocol for the Delivery of the Cas9 Protein in Phaeodactylum tricornutum

    • Monia Teresa Russo, Anna Santin, Alessandra Rogato, Maria Immacolata Ferrante
    Pages 327-336

About this book

This detailed volume provides an overview of recent advances in the application of genomic technologies in several domains of marine biology, raising awareness of various DNA- and RNA-based technologies. Genomic methods are essential in identifying previously undetected taxonomic (e.g. DNA barcoding), genetic (e.g. sequencing), and functional (e.g. gene expression, analysis of metabolites) diversity, as shown in the chapters of this book, with sections focusing on next generation sequencing (NGS) technologies, bioinformatics in marine genomics research, marine biotechnology, as well as a variety of methods successfully applied in fish. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. 

Authoritative and practical, Marine Genomics: Methods and Protocols highlights the utility of numerous lab protocols and their potential to provide deeper insight into physiological and ecological mechanisms in marine life.

Editors and Affiliations

  • Institute of Biosciences and BioResources (IBBR), National Research Council, Naples, Italy

    Cinzia Verde, Daniela Giordano

Bibliographic Information

  • Book Title: Marine Genomics

  • Book Subtitle: Methods and Protocols

  • Editors: Cinzia Verde, Daniela Giordano

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-0716-2313-8

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature 2022

  • Hardcover ISBN: 978-1-0716-2312-1Published: 22 June 2022

  • Softcover ISBN: 978-1-0716-2315-2Published: 23 June 2023

  • eBook ISBN: 978-1-0716-2313-8Published: 21 June 2022

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XVIII, 426

  • Number of Illustrations: 4 b/w illustrations, 64 illustrations in colour

  • Topics: Genetics and Genomics, Ecology

Buy it now

Buying options

eBook USD 109.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 139.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 219.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access