Diversity Measures in Environmental Sequences Are Highly Dependent on Alignment Quality—Data from ITS and New LSU Primers Targeting Basidiomycetes

Intragenomic variation in the ITS rDNA region obscures phylogenetic relationships and inflates estimates of operational taxonomic units in genus Laetiporus

(2011) Daniel L. Lindner et al.   MYCOLOGIA

Current state and perspectives of fungal DNA barcoding and rapid identification procedures

(2010) Dominik Begerow et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

An In silico approach for the evaluation of DNA barcodes

(2010) Gentile Ficetola et al.   BMC GENOMICS

Automated Removal of Noisy Data in Phylogenomic Analyses

(2010) Vadim V. Goremykin et al.   JOURNAL OF MOLECULAR EVOLUTION

Soil Microbial Communities Associated with Douglas-fir and Red Alder Stands at High- and Low-Productivity Forest Sites in Oregon, USA

(2010) Stephanie A. Yarwood et al.   MICROBIAL ECOLOGY

Species abundance distributions and richness estimations in fungal metagenomics - lessons learned from community ecology

(2010) MARTIN UNTERSEHER et al.   MOLECULAR ECOLOGY

Phylogenetic similarity and structure of Agaricomycotina communities across a forested landscape

(2010) IVAN P. EDWARDS et al.   MOLECULAR ECOLOGY

Quantifying microbial communities with 454 pyrosequencing: does read abundance count?

(2010) ANTHONY S. AMEND et al.   MOLECULAR ECOLOGY

An open source chimera checker for the fungal ITS region

(2010) R. H. NILSSON et al.   Molecular Ecology Resources

The UNITE database for molecular identification of fungi - recent updates and future perspectives

(2010) Kessy Abarenkov et al.   NEW PHYTOLOGIST

Phylogenetic assessment of alignments reveals neglected tree signal in gaps

(2010) Christophe Dessimoz et al.   GENOME BIOLOGY

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenetic inference under varying proportions of indel-induced alignment gaps

(2009) Bhakti Dwivedi et al.   BMC EVOLUTIONARY BIOLOGY

POY version 4: phylogenetic analysis using dynamic homologies

(2009) Andrés Varón et al.   CLADISTICS

Repetitive sequence variation and dynamics in the ribosomal DNA array of Saccharomyces cerevisiae as revealed by whole-genome resequencing

(2009) S. A. James et al.   GENOME RESEARCH

Using Data-Display Networks for Exploratory Data Analysis in Phylogenetic Studies

(2009) D. A. Morrison   MOLECULAR BIOLOGY AND EVOLUTION

SeaView Version 4: A Multiplatform Graphical User Interface for Sequence Alignment and Phylogenetic Tree Building

(2009) M. Gouy et al.   MOLECULAR BIOLOGY AND EVOLUTION

Progress towards DNA barcoding of fungi

(2009) KEITH A. SEIFERT   Molecular Ecology Resources

Using heterozygosity to estimate a percentage DNA sequence similarity for environmental species’ delimitation across basidiomycete fungi

(2009) Karen W. Hughes et al.   NEW PHYTOLOGIST

The Ascomycota Tree of Life: A Phylum-wide Phylogeny Clarifies the Origin and Evolution of Fundamental Reproductive and Ecological Traits

(2009) Conrad L. Schoch et al.   SYSTEMATIC BIOLOGY

Mining metadata from unidentified ITS sequences in GenBank: A case study in Inocybe (Basidiomycota)

(2008) Martin Ryberg et al.   BMC EVOLUTIONARY BIOLOGY

Fungal Taxa Target Different Carbon Sources in Forest Soil

(2008) China A. Hanson et al.   ECOSYSTEMS

Diversity and Decomposing Ability of Saprophytic Fungi from Temperate Forest Litter

(2008) Ariana Kubartová et al.   MICROBIAL ECOLOGY

Fruiting body and soil rDNA sampling detects complementary assemblage of Agaricomycotina (Basidiomycota, Fungi) in a hemlock-dominated forest plot in southern Ontario

(2008) TERESITA M. PORTER et al.   MOLECULAR ECOLOGY

Spatial distribution of fungal communities in a coastal grassland soil

(2008) Clare H. Robinson et al.   SOIL BIOLOGY & BIOCHEMISTRY

CE-SSCP and CE-FLA, simple and high-throughput alternatives for fungal diversity studies

(2007) Lucie Zinger et al.   JOURNAL OF MICROBIOLOGICAL METHODS