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Full Description
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.
Contents
Mitochondrial Genome of Non-Model Marine Metazoans by Next-Generation Sequencing (NGS).- Genome-Wide DNA Methylation Protocol for Epigenetics Studies.- Transcriptome Mining to Identify Genes of Interest: From Local Databases to Phylogenetic Inference.- Detecting Structural Variants and Associated Gene Presence-Absence Variation Phenomena in the Genomes of Marine Organisms.- From Sequences to Enzymes: Comparative Genomics to Study Evolutionary Conserved Protein Functions in Marine Microbes.- VenomFlow: An Automated Bioinformatic Pipeline for Identification of Disulfide-Rich Peptides from Venom Arsenals.- Population Genomics Analysis with RAD, Reprised: Stacks 2.- A Metabarcoding Protocol to Analyze Coastal Planktic Communities Collected by Desalination Plant Filters: From Sampling to Bioinformatic Exploratory Analyses.- Barcoding of Antarctic Marine Invertebrates: From Field Sampling to Lab Procedures.- DNA Barcoding Procedures for Taxonomical and Phylogenetic Studies in Marine Animals:Porifera as Case Study.- Environmental DNA from Marine Waters and Substrates: Protocols for Sampling and eDNA Extraction.- Metataxonomic Analysis of Bacterial Diversity Associated with Marine Organisms.- From Sequences to Enzymes: Heterologous Expression of Genes from Marine Microbes.- Expression of Recombinant Cold-Adapted (Hemo)Globins from Marine Bacteria.- Isolation of UV-Resistant Marine Bacteria by UV-C Assays.- Fractionation Protocol of Marine Metabolites.- Detection and Quantification of Small Non-Coding RNAs in Marine Diatoms.- Optimized Proteolistic Protocol for the Delivery of the Cas9 Protein in Phaeodactylum tricornutum.- Production of a Chimeric Mouse-Fish Monoclonal Antibody by the CRISPR/Cas9 Technology.- Identification, Characterization, and Expression Analysis of Immunoglobulin Genes from Antarctic Fish by PCR Methods.- Physical Mapping of Repeated Sequences on Fish Chromosomes by Fluorescence In Situ Hybridization (FISH).- Functional Genomics of Fish Erythrocytes.- Stain-Free Approach for Western Blot Analysis of Zebrafish Embryos.- Proteomics of Fish White Muscle and Western Blotting to Detect Putative Allergens.- In Vitro Assays for the Bifunctional Acylpeptide Hydrolase (APEH) Enzyme from Antarctic Fish.
