Results 11 to 20 of about 11,811 (241)
An Illumina metabarcoding pipeline for fungi [PDF]
Ecology and Evolution, 2014 AbstractHigh‐throughput metabarcoding studies on fungi and other eukaryotic microorganisms are rapidly becoming more frequent and more complex, requiring researchers to handle ever increasing amounts of raw sequence data. Here, we provide a flexible pipeline for pruning and analyzing fungal barcode (ITS rDNA) data generated as paired‐end reads on ...
Bálint, Miklós +4 more
openaire +4 more sources
Persisting roadblocks in arthropod monitoring using non-destructive metabarcoding from collection media of passive traps [PDF]
PeerJ, 2023 Background Broad-scale monitoring of arthropods is often carried out with passive traps (e.g., Malaise traps) that can collect thousands of specimens per sample.
Lucas Sire +11 more
doaj +2 more sources
Ecology and Evolution, 2022 Ecological research is often hampered by the inability to quantify animal diets. Diet composition can be tracked through DNA metabarcoding of fecal samples, but whether (complex) diets can be quantitatively determined with metabarcoding is still debated ...
Yvonne I. Verkuil +8 more
doaj +1 more source
Environmental DNA, 2021 Protecting freshwater biodiversity is considered an ultimate challenge but depends on reliable surveys of species distribution and abundance which eDNA metabarcoding (environmental DNA metabarcoding) may offer.
Martin Laporte +8 more
doaj +1 more source
Diversity, 2022 We compared two sampling methods, eDNA metabarcoding and microscope identification (MSI), for the analysis of zooplankton diversity in reservoirs with its inflow and outflow streams. The dynamic patterns of Cladocera and Rotifera at different time points
Chang Woo Ji +4 more
doaj +1 more source
Scientific Reports, 2023 Environmental DNA metabarcoding is increasingly implemented in biodiversity monitoring, including phytoplankton studies. Using 21 mock communities composed of seven unicellular diatom and dinoflagellate algae, assembled with different composition and ...
Nadia Marinchel +6 more
doaj +1 more source
Mycobiology, 2022 Lichen is a symbiotic mutualism of mycobiont and photobiont that harbors diverse organisms including endolichenic fungi (ELF). Despite the taxonomic and ecological significance of ELF, no comparative investigation of an ELF community involving isolation ...
Ji Ho Yang +3 more
doaj +1 more source
An Optimized Metabarcoding Method for Mimiviridae [PDF]
Microorganisms, 2020 Mimiviridae is a group of viruses with large genomes and virions. Ecological relevance of Mimiviridae in marine environments has been increasingly recognized through the discoveries of novel isolates and metagenomic studies. To facilitate ecological profiling of Mimiviridae, we previously proposed a meta-barcoding approach based on 82 degenerate primer
Florian Prodinger +12 more
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Quantification of marine benthic communities with metabarcoding [PDF]
Molecular Ecology Resources, 2021 AbstractDNA metabarcoding methods have been implemented in studies aimed at detecting and quantifying marine benthic biodiversity. In such surveys, universal barcodes are amplified and sequenced from environmental DNA. To quantify biodiversity with DNA metabarcoding, a relation between the number of DNA sequences of a species and its biomass and/or the
Lise Klunder +5 more
openaire +3 more sources
PIMBA: A PIpeline for MetaBarcoding Analysis [PDF]
, 2021 ABSTRACTSummaryDNA metabarcoding is an emerging monitoring method capable of assessing biodiversity from environmental samples (eDNA). Advances in computational tools have been required due to the increase of Next-Generation Sequencing data. Tools for DNA metabarcoding analysis, such as MOTHUR, QIIME, Obitools, and mBRAVE have been widely used in ...
Renato R. M. Oliveira +3 more
openaire +1 more source