Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding?
True fungi (Fungi) and fungus-like organisms (eg Mycetozoa, Oomycota) constitute the
second largest group of organisms based on global richness estimates, with around 3 …
second largest group of organisms based on global richness estimates, with around 3 …
Metagenomic analysis using phylogenetic placement—a review of the first decade
Phylogenetic placement refers to a family of tools and methods to analyze, visualize, and
interpret the tsunami of metagenomic sequencing data generated by high-throughput …
interpret the tsunami of metagenomic sequencing data generated by high-throughput …
Unifying the known and unknown microbial coding sequence space
Genes of unknown function are among the biggest challenges in molecular biology,
especially in microbial systems, where 40–60% of the predicted genes are unknown …
especially in microbial systems, where 40–60% of the predicted genes are unknown …
Meteora sporadica, a protist with incredible cell architecture, is related to Hemimastigophora
Summary" Kingdom-level" branches are being added to the tree of eukaryotes at a rate
approaching one per year, with no signs of slowing down. 1, 2, 3, 4 Some are completely …
approaching one per year, with no signs of slowing down. 1, 2, 3, 4 Some are completely …
An integrated multi-disciplinary perspective for addressing challenges of the human gut microbiome
Our understanding of the human gut microbiome has grown exponentially. Advances in
genome sequencing technologies and metagenomics analysis have enabled researchers to …
genome sequencing technologies and metagenomics analysis have enabled researchers to …
Scalable methods for analyzing and visualizing phylogenetic placement of metagenomic samples
L Czech, A Stamatakis - PLoS One, 2019 - journals.plos.org
Background The exponential decrease in molecular sequencing cost generates
unprecedented amounts of data. Hence, scalable methods to analyze these data are …
unprecedented amounts of data. Hence, scalable methods to analyze these data are …
PEMA: a flexible pipeline for environmental DNA metabarcoding analysis of the 16S/18S ribosomal RNA, ITS, and COI marker genes
H Zafeiropoulos, HQ Viet, K Vasileiadou… - …, 2020 - academic.oup.com
Background Environmental DNA and metabarcoding allow the identification of a mixture of
species and launch a new era in bio-and eco-assessment. Many steps are required to …
species and launch a new era in bio-and eco-assessment. Many steps are required to …
Formal description of sequence-based voucherless Fungi: promises and pitfalls, and how to resolve them
R Lücking, DL Hawksworth - IMA fungus, 2018 - Springer
There is urgent need for a formal nomenclature of sequence-based, voucherless Fungi,
given that environmental sequencing has accumulated more than one billion fungal ITS …
given that environmental sequencing has accumulated more than one billion fungal ITS …
Complete arsenic-based respiratory cycle in the marine microbial communities of pelagic oxygen-deficient zones
JK Saunders, CA Fuchsman… - Proceedings of the …, 2019 - National Acad Sciences
Microbial capacity to metabolize arsenic is ancient, arising in response to its pervasive
presence in the environment, which was largely in the form of As (III) in the early anoxic …
presence in the environment, which was largely in the form of As (III) in the early anoxic …
Improving environmental monitoring of Vibrionaceae in coastal ecosystems through 16S rRNA gene amplicon sequencing
The Vibrionaceae family groups genetically and metabolically diverse bacteria thriving in all
marine environments. Despite often representing a minor fraction of bacterial assemblages …
marine environments. Despite often representing a minor fraction of bacterial assemblages …