title: Sampling of Riverine or Marine Bacterial Communities in Remote Locations: From Field to Publication.
abstract: This protocol describes how to sample and preserve microbial water column samples from rivers that can be used for 16S or 18S metabarcoding studies or shotgun sequencing. It further describes how to extract the DNA for sequencing and how to prepare raw Illumina MiSeq amplicon data and analyze it in the R environment.
authors.affiliation: Centre for Ecology and Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford, OX10 8BB, UK. kleh@ceh.ac.uk.
authors.forename: Katja
authors.initials: K
authors.lastname: Lehmann
mesh_terms: D044822:Biodiversity; D004269:DNA, Bacterial / Q000235:genetics; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D045483:Rivers / Q000382:microbiology*; D017422:Sequence Analysis, DNA / Q000379:methods; D014871:Water Microbiology
chemical_list: D004269:DNA, Bacterial; D012336:RNA, Ribosomal, 16S
keywords: Biodiversity; Community analysis; Illumina MiSeq; Riverine microbial communities