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Protocols used by AOML Omics labs, following the BeBOP-OBON standard

Water collection and filtration protocol using sterivex filters to collect environmental DNA from marine ecosystems. This collection and filtration protocol is used by the NOAA PMEL Ocean Molecular Ecology (OME) Group.

Water collection + EtOH subsampling protocol, plus subsequent filtration using disc filters and a vacuum manifold. This collection and filtration protocol is used by the NOAA PMEL Ocean Molecular Ecology (OME) Group.

This PCR protocol is for amplifying the 12S mitochondrial ribosomal RNA gene in vertebrates.

Protocol for running the Tourmaline 2 amplicon sequence processing workflow on data from assay Eukarya-18S-V9-Lane-Medlin

This PCR protocol is for amplifying the mitochondrial displacement loop (D-loop) gene also known as the mitochondial control region in marine mammals.

Water collection and filtration protocol using Smith-Root self preservng eDNA filters to collect environmental DNA from marine ecosystems. This collection and filtration protocol is used by the NOAA PMEL Ocean Molecular Ecology (OME) Group.

This PCR protocol is for amplifying the Small subunit ribosomal ribonucleic acid (SSU rRNA) 18S v9 gene in eukaryotes.

Protocol for preparing 18S V9 (EMP) amplicon libraries for Michigan State RTSF

This PCR protocol is for amplifying the 16S rRNA v4-v5 region.

This protocol is for quantifying the concentration of DNA in the product of a DNA extraction.

Protocol for sampling water using Sterivex with no ZR beads or preservative (dry)

Nucleic acids extraction from the sterivex filters using the Qiagen DNeasy Blood and Tissue Kit with some modifications to the manufacturer’s protocol. These extraction protocols, adapted from Spens et al 2017, are used by the NOAA PMEL Ocean Molecular Ecology (OME) Group.

Protocol for preparing COI (Leray-Geller) amplicon libraries at Smithsonian NMNH

Sterilization procedures used by the NOAA PMEL Ocean Molecular Ecology (OME) Group

This PCR protocol is for amplifying the internal transcribed spacer 1 (ITS1) gene in eukaryotes, specifically Pseudo-nitzschia spp. diatoms

Protocol for extracting DNA using phenol-chloroform and isopropanol at Smithsonian NMNH

This protocol is for running and imaging PCR product using gel electrophoresis.

Organismal subsampling and Nucleic acids extraction from the tissue samples using the Qiagen DNeasy Blood and Tissue Kit with some modifications to the manufacturer’s protocol. These collection and extraction protocols used by the NOAA PMEL Ocean Molecular Ecology (OME) Group.