Basidiomycete yeasts in the cortex of ascomycete macrolichens

Cyphobasidium gen. nov., a new lichen-inhabiting lineage in the Cystobasidiomycetes (Pucciniomycotina, Basidiomycota, Fungi)

(2016) Ana M. Millanes et al.   Fungal Biology

Understanding Microbial Multi-Species Symbioses

(2016) Ines A. Aschenbrenner et al.   Frontiers in Microbiology

Molecular sequence data from populations of Bryoria fuscescens s. lat. in the mountains of central Spain indicates a mismatch between haplotypes and chemotypes

(2015) Carlos G. Boluda et al.   LICHENOLOGIST

Phylogenetic classification of yeasts and related taxa within Pucciniomycotina

(2015) Q.-M. Wang et al.   STUDIES IN MYCOLOGY

Phylogeny of yeasts and related filamentous fungi within Pucciniomycotina determined from multigene sequence analyses

(2015) Q.-M. Wang et al.   STUDIES IN MYCOLOGY

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

High fungal selectivity for algal symbionts in the genus Bryoria

(2014) Hanna LINDGREN et al.   LICHENOLOGIST

Novel Information Theory-Based Measures for Quantifying Incongruence among Phylogenetic Trees

(2014) Leonidas Salichos et al.   MOLECULAR BIOLOGY AND EVOLUTION

A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families

(2014) Jolanta Miadlikowska et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

How Do You Solve a Problem like Letharia? A New Look at Cryptic Species in Lichen-Forming Fungi Using Bayesian Clustering and SNPs from Multilocus Sequence Data

(2014) Susanne Altermann et al.   PLoS One

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

PhyloBayes MPI: Phylogenetic Reconstruction with Infinite Mixtures of Profiles in a Parallel Environment

(2013) Nicolas Lartillot et al.   SYSTEMATIC BIOLOGY

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

(2012) R. Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

The simple fool's guide to population genomics via RNA-Seq: an introduction to high-throughput sequencing data analysis

(2012) Pierre De Wit et al.   Molecular Ecology Resources

A review of the lichen family Parmeliaceae - history, phylogeny and current taxonomy

(2012) Arne Thell et al.   NORDIC JOURNAL OF BOTANY

Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi

(2012) C. L. Schoch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks

(2012) Daniel H. Huson et al.   SYSTEMATIC BIOLOGY

A preliminary survey of lichen associated eukaryotes using pyrosequencing

(2011) Scott T. BATES et al.   LICHENOLOGIST

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Origin and Diversification of Major Clades in Parmelioid Lichens (Parmeliaceae, Ascomycota) during the Paleogene Inferred by Bayesian Analysis

(2011) Guillermo Amo de Paz et al.   PLoS One

pegas: an R package for population genetics with an integrated-modular approach

(2010) E. Paradis   BIOINFORMATICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Community Analysis Reveals Close Affinities Between Endophytic and Endolichenic Fungi in Mosses and Lichens

(2010) Jana M. U’Ren et al.   MICROBIAL ECOLOGY

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

The relative ages of ectomycorrhizal mushrooms and their plant hosts estimated using Bayesian relaxed molecular clock analyses

(2009) David S Hibbett et al.   BMC BIOLOGY

Molecular data show that Bryoria fremontii and B. tortuosa ( Parmeliaceae) are conspecific

(2009) Saara VELMALA et al.   LICHENOLOGIST

In Situ Detection of Freshwater Fungi in an Alpine Stream by New Taxon-Specific Fluorescence In Situ Hybridization Probes

(2008) C. Baschien et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY