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This volume presents the latest protocols for both laboratory andbioinformatics based analyses in the field of marine genomics. The chapterspresented in the book cover a wide range of topics, including the sampling andgenomics of bacterial communities, DNA extraction in marine organisms,high-throughput sequencing of whole mitochondrial genomes, phylogenomics, SNPdiscovery, SNP-arrays for species identification, digital PCR-basedquantification methods, environment DNA for invasive species surveillance andmonitoring, microarrays for the detection of waterborne pathogens, DNAbarcoding of marine biodiversity, metabarcoding protocols for marineeukaryotes, analytical protocols for the visualization of eukaryotic diversity,and applications for genomic data to benthic indices for environmentalmonitoring. Written in the highly successful Methods in Molecular Biologyseries format, chapters include introduction to their respective topics, listsof the necessary materials and reagents, step-by-step, readily reproduciblelaboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Cutting-edge and thorough, Marine Genomics: Methods and Protocols is avaluable resource for researchers, students, and policy makers in the field ofmarine biology.
List of contents
Samplingof Riverine or Marine Bacterial Communities in Remote Locations: From Field to Publication.- DNA Extraction Protocols for Whole Genome Sequencingin Marine Organisms.- High-ThroughputSequencing of Complete Mitochondrial Genomes.- PhylogenomicsUsing Transcriptome Data.- SNPDiscovery Using Next Generation Transcriptomic Sequencing.- SNP-Arrays for Species Identification inSalmonids.- TheNext Generation PCR-Based Quantification Method for Ambient Waters: Digital PCR.- Using Environmental DNA for Invasive SpeciesSurveillance and Monitoring.- Microarrays/DNA Chips for the Detectionof Waterborne Pathogens.- DNA Barcoding of Marine Metazoans.- DNA Barcoding Marine Biodiversity: Stepsfrom Mere Cataloguing to Giving Reasons for Biological Differences.- Metabarcoding Marine Sediments: Preparation of Amplicon Libraries.- Preparation of Amplicon Libraries for Metabarcodingof Marine Eukaryotes Using Illumina MiSeq: The Dual-PCRMethod.- Preparation of Amplicon Libraries for Metabarcodingof Marine Eukaryotes Using Illumina MiSeq: The Adaptor-Ligation Method.- Visualizing Patterns of Marine EukaryoticDiversity from Metabarcoding Data Using QIIME.- Analysisof Illumina MiSeq Metabarcoding Data: Application to Benthic Indices for EnvironmentalMonitoring.
Summary
This volume presents the latest protocols for both laboratory and
bioinformatics based analyses in the field of marine genomics. The chapters
presented in the book cover a wide range of topics, including the sampling and
genomics of bacterial communities, DNA extraction in marine organisms,
high-throughput sequencing of whole mitochondrial genomes, phylogenomics, SNP
discovery, SNP-arrays for species identification, digital PCR-based
quantification methods, environment DNA for invasive species surveillance and
monitoring, microarrays for the detection of waterborne pathogens, DNA
barcoding of marine biodiversity, metabarcoding protocols for marine
eukaryotes, analytical protocols for the visualization of eukaryotic diversity,
and applications for genomic data to benthic indices for environmental
monitoring. Written in the highly successful Methods in Molecular Biology
series format, chapters include introduction 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.
Cutting-edge and thorough, Marine Genomics: Methods and Protocols is a
valuable resource for researchers, students, and policy makers in the field of
marine biology.
