Analysing microbial community composition through amplicon sequencing: from sampling to hypothesis testing

LW Hugerth, AF Andersson - Frontiers in microbiology, 2017 - frontiersin.org
Microbial ecology as a scientific field is fundamentally driven by technological advance. The
past decade's revolution in DNA sequencing cost and throughput has made it possible for …

Fungal community analysis by high‐throughput sequencing of amplified markers–a user's guide

BD Lindahl, RH Nilsson, L Tedersoo… - New …, 2013 - Wiley Online Library
Novel high‐throughput sequencing methods outperform earlier approaches in terms of
resolution and magnitude. They enable identification and relative quantification of …

[图书][B] Environmental DNA: For biodiversity research and monitoring

P Taberlet, A Bonin, L Zinger, E Coissac - 2018 - books.google.com
Environmental DNA (eDNA) refers to DNA that can be extracted from environmental
samples (such as soil, water, feces, or air) without the prior isolation of any target organism …

A census-based estimate of Earth's bacterial and archaeal diversity

S Louca, F Mazel, M Doebeli, LW Parfrey - PLoS biology, 2019 - journals.plos.org
The global diversity of Bacteria and Archaea, the most ancient and most widespread forms
of life on Earth, is a subject of intense controversy. This controversy stems largely from the …

Strategies for sample labelling and library preparation in DNA metabarcoding studies

K Bohmann, V Elbrecht, C Carøe, I Bista… - Molecular Ecology …, 2022 - Wiley Online Library
Metabarcoding of DNA extracted from environmental or bulk specimen samples is
increasingly used to profile biota in basic and applied biodiversity research because of its …

Forgotten fungi—the gut mycobiome in human health and disease

CE Huseyin, PW O'Toole, PD Cotter… - FEMS Microbiology …, 2017 - academic.oup.com
The human body is home to a complex and diverse microbial ecosystem that plays a central
role in host health. This includes a diversity of fungal species that is collectively referred to …

Illumina metabarcoding of a soil fungal community

PA Schmidt, M Bálint, B Greshake, C Bandow… - Soil Biology and …, 2013 - Elsevier
Next generation metabarcoding is becoming an indispensable tool in fungal community
ecology. Here we tested Illumina metabarcoding, a method that generates shorter reads but …

A comprehensive, automatically updated fungal ITS sequence dataset for reference-based chimera control in environmental sequencing efforts

RH Nilsson, L Tedersoo, M Ryberg… - Microbes and …, 2015 - jstage.jst.go.jp
The nuclear ribosomal internal transcribed spacer (ITS) region is the most commonly chosen
genetic marker for the molecular identification of fungi in environmental sequencing and …

Accurate multiplexing and filtering for high-throughput amplicon-sequencing

P Esling, F Lejzerowicz, J Pawlowski - Nucleic acids research, 2015 - academic.oup.com
Tagging amplicons with tag sequences appended to PCR primers allow the multiplexing of
numerous samples for high-throughput sequencing (HTS). This approach is routinely used …

Censusing marine eukaryotic diversity in the twenty-first century

M Leray, N Knowlton - … of the Royal Society B: Biological …, 2016 - royalsocietypublishing.org
The ocean constitutes one of the vastest and richest biomes on our planet. Most recent
estimations, all based on indirect approaches, suggest that there are millions of marine …