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Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra

Lagostina Huini Wu 0 Christian Printzen H.?Thorsten?Lumbsch 0 0 Integrative Research Center, Science and Education, Field Museum of Natural History , 1400 S Lake Shore Drive, Chicago, IL 60605 , USA 2 ... Overview of RADseq results after individual steps of RAD analyses Authors:FelixGrewe,ElisaLagostina,HuiniWu,ChristianPrintzen,H.?Thorsten?Lumbsch Data type: molecular data Copyright notice: This dataset is

Architrypethelium murisporum (Ascomycota, Trypetheliaceae), a remarkable new lichen species from Thailand challenging ascospore septation as an indicator of phylogenetic relationships

Theerapat Luangsuphabool 0 H. Thorsten Lumbsch Jittra Piapukiew Ek Sangvichien 0 0 Department of Biology, Faculty of Science, Ramkhamhaeng University, Bangkok, Thailand 2 Science & Education, The Field Museum

A new species of Lecidea (Lecanorales, Ascomycota) from Pakistan

We describe here a new species, Lecidea aptrootii, in Lecidea sensu stricto from Swat Valley, Pakistan. It is most similar to L. fuscoatra in having an areolate thallus and black, lecideine apothecia with a persistent margin. However, L. aptrootii can be readily distinguished by having smaller ascospores (average length 8-10 µm). In phylogenetic analyses, using ITS and nuLSU rDNA...

Phylogenetic study and taxonomic revision of the Xanthoparmelia mexicana group, including the description of a new species (Parmeliaceae, Ascomycota)

Xanthoparmelia (Parmeliaceae, Ascomycota) is the most species-rich genus of lichen-forming fungi. Species boundaries are based on morphological and chemical features, varying reproductive strategies and, more recently, molecular sequence data. The isidiate Xanthoparmelia mexicana group is common in arid regions of North and Central America and includes a range of morphological...

Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters

phenotypical characters Garima Singh 0 Andr? Aptroot V?ctor J. Rico J?rgen Otte 0 Pradeep?K.?Divakar Ana Crespo Marcela Eugenia da Silva C?ceres H.?Thorsten?Lumbsch Imke Schmitt 0 Imke Schmitt () 0 Senckenberg

Testing the impact of effective population size on speciation rates – a negative correlation or lack thereof in lichenized fungi

Lumbsch OPEN The effect of microevolutionary processes on macroevolutionary patterns, and vice versa, is an important but under-investigated question. Here we present an integrative population genetic and

Reference-based RADseq resolves robust relationships among closely related species of lichen-forming fungi using metagenomic DNA

. Thorsten Lumbsch Published: xx xx xxxx Despite increasing availability of phylogenomic datasets, strategies to generate genome-scale data from organisms involved in symbiotic relationships remains

Hidden Genetic Diversity in an Asexually Reproducing Lichen Forming Fungal Group

Asexual species with vegetative propagation of both symbiont partners (soredia) in lichens may harbor lower species diversity because they may indeed represent evolutionary dead ends or clones. In this study we aim to critically examine species boundaries in the sorediate lichen forming fungi Parmotrema reticulatum–Parmotrema pseudoreticulatum complex applying coalescent-based...

Circumscription of the genus Lepra, a recently resurrected genus to accommodate the “Variolaria”-group of Pertusaria sensu lato (Pertusariales, Ascomycota)

. Thorsten Lumbsch. Formal analysis: Xinli Wei. Investigation: H. Thorsten Lumbsch. Methodology: Imke Schmitt, JuÈrgen Otte, Anjuli Meiser. Writing ± original draft: H. Thorsten Lumbsch. Writing ± review ... Botany, Polish Academy of Sciences. We are very grateful to Alan Archer (Sydney) for support, help with literature, and constructive criticism of our manuscript. Author Contributions Conceptualization: H

Limitations of Species Delimitation Based on Phylogenetic Analyses: A Case Study in the Hypogymnia hypotrypa Group (Parmeliaceae, Ascomycota)

Delimiting species boundaries among closely related lineages often requires a range of independent data sets and analytical approaches. Similar to other organismal groups, robust species circumscriptions in fungi are increasingly investigated within an empirical framework. Here we attempt to delimit species boundaries in a closely related clade of lichen-forming fungi endemic to...

An Integrative Approach for Understanding Diversity in the Punctelia rudecta Species Complex (Parmeliaceae, Ascomycota)

High levels of cryptic diversity have been documented in lichenized fungi, especially in Parmeliaceae, and integrating various lines of evidence, including coalescent-based species delimitation approaches, help establish more robust species circumscriptions. In this study, we used an integrative taxonomic approach to delimit species in the lichen-forming fungal genus Punctelia...

Phylogenetic Classification at Generic Level in the Absence of Distinct Phylogenetic Patterns of Phenotypical Variation: A Case Study in Graphidaceae (Ascomycota)

) Sittiporn Parnmen 0 Robert Lu cking 0 H. Thorsten Lumbsch 0 Patrick O'Grady, University of California, Berkeley, United States of America 0 Botany Department, The Field Museum , Chicago, Illinois , United

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

The inclusion of molecular data is increasingly an integral part of studies assessing species boundaries. Analyses based on predefined groups may obscure patterns of differentiation, and population assignment tests provide an alternative for identifying population structure and barriers to gene flow. In this study, we apply population assignment tests implemented in the programs...

Pleistocene Speciation in North American Lichenized Fungi and the Impact of Alternative Species Circumscriptions and Rates of Molecular Evolution on Divergence Estimates

Pleistocene climatic fluctuations influenced patterns of genetic variation and promoted speciation across a wide range of species groups. Lichens are commonly found in habitats that were directly impacted by glacial cycles; however, the role of Pleistocene climate in driving speciation in most lichen symbionts remains unclear. This uncertainty is due in part to limitations in our...

Understanding Phenotypical Character Evolution in Parmelioid Lichenized Fungi (Parmeliaceae, Ascomycota)

Parmelioid lichens form a species-rich group of predominantly foliose and fruticose lichenized fungi encompassing a broad range of morphological and chemical diversity. Using a multilocus approach, we reconstructed a phylogeny including 323 OTUs of parmelioid lichens and employed ancestral character reconstruction methods to understand the phenotypical evolution within this...

Using Phylogenetic and Coalescent Methods to Understand the Species Diversity in the Cladia aggregata Complex (Ascomycota, Lecanorales)

The Cladia aggregata complex is one of the phenotypically most variable groups in lichenized fungi, making species determination difficult and resulting in different classifications accepting between one to eight species. Multi-locus DNA sequence data provide an avenue to test species delimitation scenarios using genealogical and coalescent methods, employing gene and species...

Ancient Horizontal Gene Transfer from Bacteria Enhances Biosynthetic Capabilities of Fungi

Background Polyketides are natural products with a wide range of biological functions and pharmaceutical applications. Discovery and utilization of polyketides can be facilitated by understanding the evolutionary processes that gave rise to the biosynthetic machinery and the natural product potential of extant organisms. Gene duplication and subfunctionalization, as well as...

Transoceanic Dispersal and Subsequent Diversification on Separate Continents Shaped Diversity of the Xanthoparmelia pulla Group (Ascomycota)

In traditional morphology-based concepts many species of lichenized fungi have world-wide distributions. Molecular data have revolutionized the species delimitation in lichens and have demonstrated that we underestimated the diversity of these organisms. The aim of this study is to explore the phylogeography and the evolutionary patterns of the Xanthoparmelia pulla group, a...