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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.
This PCR protocol is for amplifying the mitochondrial displacement loop (D-loop) gene also known as the mitochondial control region in marine mammals.
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 extracting DNA from sediment trap samples using the Qiagen PowerSoil Pro Kit
Protocol for preparing COI (Leray-Geller) amplicon libraries at Smithsonian NMNH
This PCR protocol is for amplifying the Small subunit ribosomal ribonucleic acid (SSU rRNA) 18S v9 gene in eukaryotes.
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 16S rRNA v4-v5 region.
This PCR protocol is for amplifying the 12S mitochondrial ribosomal RNA gene in vertebrates.
This protocol is for quantifying the concentration of DNA in the product of a DNA extraction.
Protocol for running the Tourmaline 2 amplicon sequence processing workflow on data from assay Eukarya-18S-V9-Lane-Medlin
Protocol for preparing 18S V9 (EMP) amplicon libraries for Michigan State RTSF
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.
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
Protocol for sampling water using Sterivex with no ZR beads or preservative (dry)
Protocol for preparing 12S V5-V6 (MiFish) amplicon libraries for Michigan State RTSF
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