Titlebook: Marine Genomics; Methods and Protocol Sarah J. Bourlat Book 2016 Springer Science+Business Media New York 2016 bacterial communities.DNA ex

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SNP Discovery Using Next Generation Transcriptomic Sequencing,ion and also on the bioinformatic analyses needed to sort through the immense flood of data from high-throughput sequencing machines. The general steps included are as follows: sample preparation, sequencing, quality control of data, assembly, mapping, SNP discovery, filtering, validation. The first

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Using Environmental DNA for Invasive Species Surveillance and Monitoring, since its first large-scale applications. Both active (targeted) and passive (total diversity) surveillance methods provide helpful information for management groups, but each has a suite of techniques that necessitate proper equipment training and use. The protocols described in this chapter repre

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DNA Barcoding Marine Biodiversity: Steps from Mere Cataloguing to Giving Reasons for Biological Difon in biodiversity and ecological research to detect and describe diversity whenever morphological discrimination is difficult or impossible (e.g., in the case of species lacking diagnostic characters, early life stages, or cryptic species). In this chapter, we outline the utility of including physi

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Metabarcoding Marine Sediments: Preparation of Amplicon Libraries,y. Advances in sequencing technologies have allowed the unraveling of levels of biodiversity never imagined before when applied to large-scale environmental DNA studies (also termed metabarcoding/metagenetics/metasystematics/environmental barcoding). Here, we describe a detailed protocol to assess e

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Preparation of Amplicon Libraries for Metabarcoding of Marine Eukaryotes Using Illumina MiSeq: The etabarcoding studies, based on the amplification of a taxonomically informative marker from a collection of organisms or an environmental sample, can be performed to analyze biodiversity patterns or predator–prey interactions. For Metazoa, we use the mitochondrial cytochrome oxidase 1 (CO1) or the s

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