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Use of a filter cartridge combined with intra-cartridge bead beating improves detection of microbial DNA from water samples

https://doi.org/10.1101/435305
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/978-0-387-98141-3openalex-snapshot
ggplot2: Elegant Graphics for Data Analysis
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Plant–microbe interaction in aquatic system and their role in the management of water quality: a review
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Comparative metagenomic, phylogenetic and physiological analyses of soil microbial communities across nitrogen gradients
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Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
inferredcites →https://doi.org/10.1038/ismej.2015.221openalex-snapshot
Wind and sunlight shape microbial diversity in surface waters of the North Pacific Subtropical Gyre
inferredcites →https://doi.org/10.1038/ismej.2017.119openalex-snapshot
Exact sequence variants should replace operational taxonomic units in marker-gene data analysis
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Marine microorganisms and global nutrient cycles
inferredcites →https://doi.org/10.1038/nmeth.3869openalex-snapshot
DADA2: High-resolution sample inference from Illumina amplicon data
inferredcites →https://doi.org/10.1038/nmeth.f.303openalex-snapshot
QIIME allows analysis of high-throughput community sequencing data
inferredcites →https://doi.org/10.1038/srep08695openalex-snapshot
Microbial communities on flower surfaces act as signatures of pollinator visitation
inferredcites →https://doi.org/10.1073/pnas.1000080107openalex-snapshot
Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
inferredcites →https://doi.org/10.1101/113472openalex-snapshot
Quantitative monitoring of multispecies fish environmental DNA using high-throughput sequencing
inferredcites →https://doi.org/10.1101/gr.5969107openalex-snapshot
MEGAN analysis of metagenomic data
inferredcites →https://doi.org/10.1101/pdb.prot5448openalex-snapshot
Illumina Sequencing Library Preparation for Highly Multiplexed Target Capture and Sequencing
inferredcites →https://doi.org/10.1111/1755-0998.12421openalex-snapshot
Optimizing techniques to capture and extract environmental DNA for detection and quantification of fish
inferredcites →https://doi.org/10.1111/j.1365-2672.2012.05384.xopenalex-snapshot
PCR inhibitors - occurrence, properties and removal
inferredcites →https://doi.org/10.1128/aem.00335-09openalex-snapshot
Pyrosequencing-Based Assessment of Soil pH as a Predictor of Soil Bacterial Community Structure at the Continental Scale
inferredcites →https://doi.org/10.1128/aem.02692-09openalex-snapshot
High Abundance of Ammonia-OxidizingArchaeain Coastal Waters, Determined Using a Modified DNA Extraction Method
inferredcites →https://doi.org/10.1128/aem.55.3.548-554.1989openalex-snapshot
Simple, rapid method for direct isolation of nucleic acids from aquatic environments
inferredcites →https://doi.org/10.1186/1471-2105-10-421openalex-snapshot
BLAST+: architecture and applications
inferredcites →https://doi.org/10.1186/s13059-016-1103-0openalex-snapshot
The Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community
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Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible
inferredcites →https://doi.org/10.1371/journal.pone.0061217openalex-snapshot
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
inferredcites →https://doi.org/10.1371/journal.pone.0076910openalex-snapshot
Two New Computational Methods for Universal DNA Barcoding: A Benchmark Using Barcode Sequences of Bacteria, Archaea, Animals, Fungi, and Land Plants
inferredcites →https://doi.org/10.1371/journal.pone.0132783openalex-snapshot
Back to Basics – The Influence of DNA Extraction and Primer Choice on Phylogenetic Analysis of Activated Sludge Communities
inferredcites →https://doi.org/10.32614/cran.package.tidyverseopenalex-snapshot
tidyverse: Easily Install and Load the 'Tidyverse'
inferredcites →https://doi.org/10.3791/54741openalex-snapshot
Use of a Filter Cartridge for Filtration of Water Samples and Extraction of Environmental DNA

What points at this work

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inferred← citeshttps://doi.org/10.1038/s41598-023-32862-4openalex-snapshot
Non-destructive collection and metabarcoding of arthropod environmental DNA remained on a terrestrial plant
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