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Authors: Bonnie Poulos
Group: VERVE Net, Sullivan Lab
Proper citation: Bonnie Poulos 2016. Plaque Assay Protocol for Pseudoalteromonas. protocols.io https://dx.doi.org/10.17504/protocols.io.ek7bczn Copy
Authors: Virginia Rich
Group: VERVE Net, Sullivan Lab
Summary: Modified after V. Rich, 2/10/07: DNA extraction protocol from 25 mm 0.2 μm filters – Low-throughput, using DNeasy columns (based on lab Steripak filter extraction protocol and the Suzuki et al. 2001 protocol)
Proper citation: Virginia Rich 2016. DNA Extraction from sorted cells. protocols.io https://dx.doi.org/10.17504/protocols.io.c38yrv Copy
Authors: Matthew Sullivan Lab
Group: VERVE Net, Sullivan Lab
Summary: Preparation of the trace metal mixture for addition to seawater for the cultivation of marine cyanobacteria, Prochlorococcus and Synechococcus
Proper citation: Matthew Sullivan Lab 2015. Cyanobacteria Trace Metal Mixture (CTMM). protocols.io https://dx.doi.org/10.17504/protocols.io.c8nzvd Copy
Authors: DeLong Lab
Group: VERVE Net, Sullivan Lab
Summary: Adapted from Steripak protocol, with addition of RNase.
Proper citation: DeLong Lab 2015. Lysis Buffer. protocols.io https://dx.doi.org/10.17504/protocols.io.c4ryv5 Copy
Authors: Qiagen
Group: VERVE Net, Sullivan Lab
Summary: This is a 0.05M Tris-Cl (pH 8.0), 0.01M EDTA resuspension buffer containing RNase A
Proper citation: Qiagen 2015. Resuspension Buffer P1. protocols.io https://dx.doi.org/10.17504/protocols.io.c49yz5 Copy
Authors: Matthew Sullivan
Group: VERVE Net, Sullivan Lab
Proper citation: Matthew Sullivan 2016. g23 T4-type (myovirus) PCR Protocol. protocols.io https://dx.doi.org/10.17504/protocols.io.dfq3mv Copy
Authors: Rex Malmstrom
Group: VERVE Net, Sullivan Lab
Summary: This is a storage solution that stabilizes and protectsRNA while inactivating RNase
Proper citation: Rex Malmstrom 2015. RNAlater Recipe. protocols.io https://dx.doi.org/10.17504/protocols.io.c56y9d Copy
Authors: Benjamin Bolduc
Group: VERVE Net, Sullivan Lab, iVirus
Summary: Mapping metagenomic reads from Ocean Sampling Day (OSD) 2014 against NCBI's ViralRefSeq alongside viral sequences identified from the Tara Oceans survey using VirSorter.
Proper citation: Benjamin Bolduc 2016. Mapping Metagenomic Reads to Reference Sequences (Cyverse). protocols.io https://dx.doi.org/10.17504/protocols.io.gv2bw8e Copy
Authors: Natalie Solonenko
Group: Sullivan Lab
Summary: Now includes media used for phosphate limitation experiments.
Proper citation: Natalie Solonenko 2016. Pseudoalteromonas Media Recipes. protocols.io https://dx.doi.org/10.17504/protocols.io.fz4bp8w Copy
Authors: Matthew Sullivan Lab
Group: VERVE Net, Sullivan Lab
Summary: Supplement to seawater for growth of cyanobacteria.
Proper citation: Matthew Sullivan Lab 2015. 0.5M NH4Cl. protocols.io https://dx.doi.org/10.17504/protocols.io.c77zrm Copy
Authors: Natalie Solonenko, Marie Burris
Group: Sullivan Lab, Temperton Lab
Summary: This protocol is intended for extraction of HMW DNA from bacterial or viral samples.
Proper citation: Natalie Solonenko, Marie Burris 2019. DNA extraction for HMW DNA. protocols.io https://dx.doi.org/10.17504/protocols.io.6cbhasn Copy
Authors: Matt Sullivan Lab
Group: VERVE Net, Sullivan Lab
Proper citation: Matt Sullivan Lab 2016. Preparation of Tara Sample DNA From Iron-Chloride Precipitates. protocols.io https://dx.doi.org/10.17504/protocols.io.c24ygv Copy
Authors: Matthew Sullivan
Group: VERVE Net, Sullivan Lab
Proper citation: Matthew Sullivan 2016. Transcriptomics During One-Step Growth Curves for Cellulophaga Phages. protocols.io https://dx.doi.org/10.17504/protocols.io.dem3c5 Copy
Authors: Matthew Sullivan
Group: VERVE Net, Sullivan Lab
Proper citation: Matthew Sullivan 2016. Cellulophaga 38:1 Lytic Gene PCR. protocols.io https://dx.doi.org/10.17504/protocols.io.dfz3p5 Copy
Authors: Marie Burris, Natalie Solonenko, Olivier Zablocki, Ben Temperton
Group: Sullivan Lab
Proper citation: Marie Burris, Natalie Solonenko, Olivier Zablocki, Ben Temperton 2020. Long Read Viromics Amplification Library Preparation (VirION 2). protocols.io https://dx.doi.org/10.17504/protocols.io.5yug7ww Copy
Authors: Seth John, Bonnie Poulos, Christine Schirmer
Group: VERVE Net, Sullivan Lab
Summary: Preparation of iron chloride resuspension buffer using disodium EDTA dihydrate and magnesium chloride in Tris buffer.
Proper citation: Seth John, Bonnie Poulos, Christine Schirmer 2015. 0.1M EDTA-0.2M MgCl2-0.2M Ascorbate Buffer. protocols.io https://dx.doi.org/10.17504/protocols.io.c2yyfv Copy
Authors: Matthew Sullivan
Group: VERVE Net, Sullivan Lab
Summary: .
Proper citation: Matthew Sullivan 2016. NaCl Sodium Chloride Buffer. protocols.io https://dx.doi.org/10.17504/protocols.io.c64zgv Copy
Authors: Bonnie Poulos
Group: VERVE Net, Sullivan Lab
Proper citation: Bonnie Poulos 2016. Transcriptomics During One-Step Growth Curves for Cellulophaga Phages. protocols.io https://dx.doi.org/10.17504/protocols.io.ek4bcyw Copy
Authors: Matthew Sullivan Lab
Group: VERVE Net, Sullivan Lab
Summary: Supplement to seawater for growth of cyanobacteria.
Proper citation: Matthew Sullivan Lab 2015. 0.025M NaH2PO4·H2O. protocols.io https://dx.doi.org/10.17504/protocols.io.c8czsv Copy
Authors: Matthew Sullivan
Group: VERVE Net, Sullivan Lab
Proper citation: Matthew Sullivan 2016. Titration of AmPure XP Beads for Removal of Fragments . protocols.io https://dx.doi.org/10.17504/protocols.io.c52y8d Copy
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