Best practices in metabarcoding of fungi: from experimental design to results

L Tedersoo, M Bahram, L Zinger, RH Nilsson… - Molecular …, 2022 - Wiley Online Library
The development of high‐throughput sequencing (HTS) technologies has greatly improved
our capacity to identify fungi and unveil their ecological roles across a variety of ecosystems …

Methods used for the study of endophytic fungi: a review on methodologies and challenges, and associated tips

JBA Dos Reis, AS Lorenzi, HMM do Vale - Archives of Microbiology, 2022 - Springer
Endophytic fungi are microorganisms that colonize the interior of plant tissues (eg leaves,
seeds, stem, trunk, roots, fruits, flowers) in intracellular and/or extracellular spaces without …

The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered

K Abarenkov, RH Nilsson, KH Larsson… - Nucleic Acids …, 2024 - academic.oup.com
Abstract UNITE (https://unite. ut. ee) is a web-based database and sequence management
environment for molecular identification of eukaryotes. It targets the nuclear ribosomal …

FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles

S Põlme, K Abarenkov, R Henrik Nilsson, BD Lindahl… - Fungal diversity, 2020 - Springer
The cryptic lifestyle of most fungi necessitates molecular identification of the guild in
environmental studies. Over the past decades, rapid development and affordability of …

The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications

RH Nilsson, KH Larsson, AFS Taylor… - Nucleic acids …, 2019 - academic.oup.com
Abstract UNITE (https://unite. ut. ee/) is a web-based database and sequence management
environment for the molecular identification of fungi. It targets the formal fungal barcode—the …

FungalRoot: global online database of plant mycorrhizal associations

NA Soudzilovskaia, S Vaessen, M Barcelo… - New …, 2020 - Wiley Online Library
Testing of ecological, biogeographical and phylogenetic hypotheses of mycorrhizal traits
requires a comprehensive reference dataset about plant mycorrhizal associations. Here we …

FUNGuild: an open annotation tool for parsing fungal community datasets by ecological guild

NH Nguyen, Z Song, ST Bates, S Branco, L Tedersoo… - Fungal ecology, 2016 - Elsevier
Fungi typically live in highly diverse communities composed of multiple ecological guilds.
Although high-throughput sequencing has greatly increased the ability to quantify the …

The taxon hypothesis paradigm—on the unambiguous detection and communication of taxa

U Kõljalg, HR Nilsson, D Schigel, L Tedersoo… - Microorganisms, 2020 - mdpi.com
Here, we describe the taxon hypothesis (TH) paradigm, which covers the construction,
identification, and communication of taxa as datasets. Defining taxa as datasets of …

Fungal diversity notes 1036–1150: taxonomic and phylogenetic contributions on genera and species of fungal taxa

KD Hyde, DS Tennakoon, R Jeewon, DJ Bhat… - Fungal diversity, 2019 - Springer
This article is the tenth series of the Fungal Diversity Notes, where 114 taxa distributed in
three phyla, ten classes, 30 orders and 53 families are described and illustrated. Taxa …

Towards a unified paradigm for sequence‐based identification of fungi

U Kõljalg, RH Nilsson, K Abarenkov, L Tedersoo… - 2013 - Wiley Online Library
The nuclear ribosomal internal transcribed spacer (ITS) region is the formal fungal barcode
and in most cases the marker of choice for the exploration of fungal diversity in …