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  Protocols

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Seawater Sampling and Collection
Elena Zaikova, Alyse Hawley, David A. Walsh, Steven J. Hallam
This video documents methods for collecting coastal marine water samples and processing them for various downstream applications including biomass concentration, nucleic acid purification, cell abundance, nutrient and trace gas analyses.
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Large Volume (20L+) Filtration of Coastal Seawater Samples
David A. Walsh, Elena Zaikova, Steven J. Hallam
This video documents large volume (≥20 L) filtration of microbial biomass, ranging between 0.22μm and 2.7μm in diameter, from the water column.
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Small Volume (1-3L) Filtration of Coastal Seawater Samples
David A. Walsh, Elena Zaikova, Steven J. Hallam
This video documents small volume (~1 L) filtration of microbial biomass from the water column.
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DNA Extraction from 0.22 μM Sterivex Filters and Cesium Chloride Density Gradient Centrifugation
Jody J. Wright, Sangwon Lee, Elena Zaikova, David A. Walsh, Steven J. Hallam
We describe a method for extraction of high molecular weight genomic DNA from planktonic biomass concentrated on 0.22 μm Sterivex filters, followed by cesium chloride density gradient centrifugation for purification.
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Large Insert Environmental Genomic Library Production
Marcus Taupp, Sangwon Lee, Alyse Hawley, Jinshu Yang, Steven J. Hallam
Construction of a fosmid library with environmental genomic DNA isolated from the vertical depth continuum of a seasonally hypoxic fjord is described. The resulting clone library is picked into 384-well plates and archived for downstream sequencing and functional screening by the application of an automated colony picking system.
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Extraction of High Molecular Weight Genomic DNA from Soils and Sediments
Sangwon Lee, Steven J. Hallam
A methodology to isolate high molecular weight and high quality genomic DNA from soil microbial community is described.
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Expression of Recombinant Proteins in the Methylotrophic Yeast Pichia pastoris
Maria Weidner, Marcus Taupp, Steven J. Hallam
Protein expression in the microbial eukaryotic host Pichia pastoris offers the possibility to generate high amounts of recombinant protein in a fast and easy to use expression system.
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A High Throughput Screen for Biomining Cellulase Activity from Metagenomic Libraries
Keith Mewis, Marcus Taupp, Steven J. Hallam
This video documents methods for screening metagenomic samples for cellulases using a chromogenic dinitrophenol (DNP)-cellobioside substrate, enabling high-throughput processing.
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