Publications
The Johannesson lab has published work in fields such as evolution, genomics, phylogenetics, bioinformatics, and genetics of fungi.
2024
The global speciation continuum of the cyanobacterium Microcoleus
Nature Communications
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08 Mar 2024
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doi:10.1038/s41467-024-46459-6
High-quality genome assemblies of four members of the Podospora anserina species complex
Genome Biology and Evolution
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22 Feb 2024
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doi:10.1093/gbe/evae034
Evolutionary dynamics of the LTR-retrotransposon crapaud in the Podospora anserina species complex and the interaction with repeat-induced point mutations
Mobile DNA
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13 Jan 2024
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https://doi.org/10.1186/s13100-023-00311-8
2023
Genome-scale phylogeny and comparative genomics of the fungal order Sordariales
Molecular Phylogenetics and Evolution
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01 Dec 2023
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doi:10.1016/j.ympev.2023.107938
Cytological studies reveal high variation in ascospore number and shape and conidia produced directly from ascospores in Morchella galilaea
Frontiers in Microbiology
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09 Nov 2023
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doi:10.3389/fmicb.2023.1286501
2022
Stage-specific transposon activity in the life cycle of the fairy-ring mushroom
Marasmius oreades
Proceedings of the National Academy of Sciences
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07 Nov 2022
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doi:10.1073/pnas.2208575119
To self or not to self? Absence of mate choice despite costly outcrossing in the fungus Podospora anserina
Journal of Evolutionary Biology
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20 Oct 2022
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doi:10.1111/jeb.14108
Meiotic drive is associated with sexual incompatibility in
Neurospora
Evolution
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03 Oct 2022
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doi:10.1111/evo.14630
On the Mechanistic Basis of Killer Meiotic Drive in Fungi
Annual Review of Microbiology
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08 Sep 2022
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doi:10.1146/annurev-micro-041320-113730
Nuclear-specific gene expression in heterokaryons of the filamentous ascomycete
Neurospora tetrasperma
Proceedings of the Royal Society B: Biological Sciences
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10 Aug 2022
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doi:10.1098/rspb.2022.0971
Allorecognition genes drive reproductive isolation in Podospora anserina
Nature Ecology & Evolution
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12 May 2022
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doi:10.1038/s41559-022-01734-x
Transposon- and Genome Dynamics in the Fungal Genus Neurospora: Insights from Nearly Gapless Genome Assemblies
Fungal Genetics Reports
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18 Feb 2022
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doi:10.4148/1941-4765.2177
The spore killers, fungal meiotic driver elements
Mycologia
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02 Jan 2022
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doi:10.1080/00275514.2021.1994815
2021
Molecular Mechanisms and Evolutionary Consequences of Spore Killers in Ascomycetes
Microbiology and Molecular Biology Reviews
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15 Dec 2021
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doi:10.1128/MMBR.00016-21
In-depth Phylogenomic Analysis of Arbuscular Mycorrhizal Fungi Based on a Comprehensive Set of de novo Genome Assemblies
Frontiers in Fungal Biology
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29 Sep 2021
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doi:10.3389/ffunb.2021.716385
The Assembled and Annotated Genome of the Fairy-Ring Fungus Marasmius oreades
Genome Biology and Evolution
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29 May 2021
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doi:10.1093/gbe/evab126
The Plot Thickens: Haploid and Triploid-Like Thalli, Hybridization, and Biased Mating Type Ratios in Letharia
Frontiers in Fungal Biology
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26 May 2021
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doi:10.3389/ffunb.2021.656386
Invasion and maintenance of meiotic drivers in populations of ascomycete fungi
Evolution
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01 May 2021
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doi:10.1111/evo.14214
The Enterprise, a massive transposon carrying Spok meiotic drive genes
Genome Research
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19 Apr 2021
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doi:10.1101/gr.267609.120
An introgressed gene causes meiotic drive in Neurospora sitophila
Proceedings of the National Academy of Sciences
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19 Apr 2021
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doi:10.1073/pnas.2026605118
Size Variation of the Nonrecombining Region on the Mating-Type Chromosomes in the Fungal Podospora anserina Species Complex
Molecular Biology and Evolution
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08 Feb 2021
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doi:10.1093/molbev/msab040
2020
The taxonomy of the model filamentous fungus Podospora anserina
MycoKeys
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25 Nov 2020
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doi:10.3897/mycokeys.75.55968
ARBitR: an overlap-aware genome assembly scaffolder for linked reads
Bioinformatics
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20 Nov 2020
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doi:10.1093/bioinformatics/btaa975
Comparative analysis of genome-wide DNA methylation in Neurospora
Epigenetics
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31 Mar 2020
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doi:10.1080/15592294.2020.1741758
Building de novo reference genome assemblies of complex eukaryotic microorganisms from single nuclei
Scientific Reports
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28 Jan 2020
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doi:10.1038/s41598-020-58025-3
Neurospora from Natural Populations: Population Genomics Insights into the Life History of a Model Microbial Eukaryote
Methods in Molecular Biology
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01 Jan 2020
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doi:10.1007/978-1-0716-0199-0_13
2019
Maintenance of High Genome Integrity over Vegetative Growth in the Fairy-Ring Mushroom Marasmius oreades
Current Biology
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01 Aug 2019
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doi:10.1016/j.cub.2019.07.025
Combinations of Spok genes create multiple meiotic drivers in Podospora
eLife
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26 Jul 2019
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doi:10.7554/eLife.46454
Identification ofrfk-1, a Meiotic Driver Undergoing RNA Editing inNeurospora
Genetics
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27 Mar 2019
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doi:10.1534/genetics.119.302122
Two Basidiomycete Fungi in the Cortex of Wolf Lichens
Current Biology
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01 Feb 2019
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doi:10.1016/j.cub.2018.12.022
2018
Asexual reproduction and growth rate: independent and plastic life history traits in Neurospora crassa
The ISME Journal
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09 Nov 2018
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doi:10.1038/s41396-018-0294-7
Convergent evolution of complex genomic rearrangements in two fungal meiotic drive elements
Nature Communications
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12 Oct 2018
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doi:10.1038/s41467-018-06562-x
Host genetic variation strongly influences the microbiome structure and function in fungal fruiting‐bodies
Environmental Microbiology
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25 Mar 2018
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doi:10.1111/1462-2920.14069
Sharing of photobionts in sympatric populations of Thamnolia and Cetraria lichens: evidence from high-throughput sequencing
Scientific Reports
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13 Mar 2018
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doi:10.1038/s41598-018-22470-y
Multilevel Selection in the Filamentous Ascomycete Neurospora tetrasperma
The American Naturalist
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01 Mar 2018
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doi:10.1086/695803
Thamnolia tundrae sp. nov., a cryptic species and putative glacial relict
The Lichenologist
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01 Jan 2018
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doi:10.1017/S0024282917000615
2017
Large-scale suppression of recombination predates genomic rearrangements in Neurospora tetrasperma
Nature Communications
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26 Oct 2017
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doi:10.1038/s41467-017-01317-6
A worldwide phylogeography of the whiteworm lichens Thamnolia reveals three lineages with distinct habitats and evolutionary histories
Ecology and Evolution
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13 Apr 2017
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doi:10.1002/ece3.2917
2016
Epigenetic Control of Phenotypic Plasticity in the Filamentous Fungus Neurospora crassa
G3 Genes|Genomes|Genetics
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01 Dec 2016
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doi:10.1534/g3.116.033860
Basidiomycete yeasts in the cortex of ascomycete macrolichens
Science
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29 Jul 2016
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doi:10.1126/science.aaf8287
The Ecology and Evolutionary Dynamics of Meiotic Drive
Trends in Ecology & Evolution
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01 Apr 2016
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doi:10.1016/j.tree.2016.02.001
Introgression maintains the genetic integrity of the mating-type determining chromosome of the fungus Neurospora tetrasperma
Genome Research
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18 Feb 2016
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doi:10.1101/gr.197244.115
2015
Contrasted patterns in mating-type chromosomes in fungi: Hotspots versus coldspots of recombination
Fungal Biology Reviews
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01 Dec 2015
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doi:10.1016/j.fbr.2015.06.001
2014
Intron evolution in Neurospora: the role of mutational bias and selection
Genome Research
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23 Oct 2014
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doi:10.1101/gr.175653.114
A global multilocus analysis of the model fungus Neurospora reveals a single recent origin of a novel genetic system
Molecular Phylogenetics and Evolution
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01 Sep 2014
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doi:10.1016/j.ympev.2014.05.007
Nuclear interactions in a heterokaryon: insight from the modelNeurospora tetrasperma
Proceedings of the Royal Society B: Biological Sciences
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07 Jul 2014
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doi:10.1098/rspb.2014.0084
Dynamics of transcriptome evolution in the model eukaryote N eurospora
Journal of Evolutionary Biology
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22 May 2014
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doi:10.1111/jeb.12386
2013
Coexistence and expression profiles of two alternative splice variants of the pheromone receptor gene pre-1 in Neurospora crassa
Archives of Microbiology
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11 Sep 2013
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doi:10.1007/s00203-013-0923-5
Evolutionary Dynamics of Sex-Biased Genes in a Hermaphrodite Fungus
Molecular Biology and Evolution
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20 Aug 2013
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doi:10.1093/molbev/mst143
Sex-linked transcriptional divergence in the hermaphrodite fungusNeurospora tetrasperma
Proceedings of the Royal Society B: Biological Sciences
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07 Aug 2013
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doi:10.1098/rspb.2013.0862
Neurospora and the dead-end hypothesis: genomic consequences of selfing in the model genus
Evolution
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05 Aug 2013
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doi:10.1111/evo.12206
2012
Analyses of expressed sequence tags in Neurosporareveal rapid evolution of genes associated with the early stages of sexual reproduction in fungi
BMC Evolutionary Biology
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27 Nov 2012
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doi:10.1186/1471-2148-12-229
Neurospora as a model to empirically test central hypotheses in eukaryotic genome evolution
BioEssays
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12 Sep 2012
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doi:10.1002/bies.201200110
Quantifying functional heterothallism in the pseudohomothallic ascomycete Neurospora tetrasperma
Fungal Biology
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01 Sep 2012
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doi:10.1016/j.funbio.2012.06.006
Deciphering the Relationship between Mating System and the Molecular Evolution of the Pheromone and Receptor Genes in Neurospora
Molecular Biology and Evolution
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31 Aug 2012
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doi:10.1093/molbev/mss193
Large-Scale Introgression Shapes the Evolution of the Mating-Type Chromosomes of the Filamentous Ascomycete Neurospora tetrasperma
PLoS Genetics
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26 Jul 2012
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doi:10.1371/journal.pgen.1002820
Unidirectional Evolutionary Transitions in Fungal Mating Systems and the Role of Transposable Elements
Molecular Biology and Evolution
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10 Jul 2012
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doi:10.1093/molbev/mss132
Sex-specific gene expression during asexual development of Neurospora crassa
Fungal Genetics and Biology
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01 Jul 2012
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doi:10.1016/j.fgb.2012.05.004
Occurrence and impact of the root-rot biocontrol agent Phlebiopsis gigantea on soil fungal communities in Picea abies forests of northern Europe
FEMS Microbiology Ecology
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18 Apr 2012
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doi:10.1111/j.1574-6941.2012.01366.x
Genome-Wide Selection on Codon Usage at the Population Level in the Fungal Model Organism Neurospora crassa
Molecular Biology and Evolution
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14 Feb 2012
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doi:10.1093/molbev/mss065
2011
Initial fungal colonizer affects mass loss and fungal community development in Picea abies logs 6yr after inoculation
Fungal Ecology
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01 Dec 2011
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doi:10.1016/j.funeco.2011.07.001
Consequences of reproductive mode on genome evolution in fungi
Fungal Genetics and Biology
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01 Jul 2011
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doi:10.1016/j.fgb.2011.02.005
A comprehensive phylogeny of Neurospora reveals a link between reproductive mode and molecular evolution in fungi
Molecular Phylogenetics and Evolution
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01 Jun 2011
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doi:10.1016/j.ympev.2011.03.023
Degeneration in Codon Usage within the Region of Suppressed Recombination in the Mating-Type Chromosomes of Neurospora tetrasperma
Eukaryotic Cell
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01 Apr 2011
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doi:10.1128/EC.00284-10
Evidence of the accumulation of allele-specific non-synonymous substitutions in the young region of recombination suppression within the mating-type chromosomes of Neurospora tetrasperma
Heredity
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09 Mar 2011
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doi:10.1038/hdy.2011.11
Evolution of Synonymous Codon Usage in Neurospora tetrasperma and Neurospora discreta
Genome Biology and Evolution
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01 Jan 2011
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doi:10.1093/gbe/evr018
12 Evolution of Mating-Type Loci and Mating-Type Chromosomes in Model Species of Filamentous Ascomycetes
Evolution of Fungi and Fungal-Like Organisms
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01 Jan 2011
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doi:10.1007/978-3-642-19974-5_12
2010
Conflict between reproductive gene trees and species phylogeny among heterothallic and pseudohomothallic members of the filamentous ascomycete genus Neurospora
Fungal Genetics and Biology
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01 Oct 2010
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doi:10.1016/j.fgb.2010.06.008
Gene genealogies indicates abundant gene conversions and independent evolutionary histories of the mating-type chromosomes in the evolutionary history of Neurospora tetrasperma
BMC Evolutionary Biology
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31 Jul 2010
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doi:10.1186/1471-2148-10-234
2009
Phylogenetic and biological species diversity within the Neurospora tetrasperma complex
Journal of Evolutionary Biology
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19 Aug 2009
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doi:10.1111/j.1420-9101.2009.01801.x
Trikaryon formation and nuclear selection in pairings between heterokaryons and homokaryons of the root rot pathogen Heterobasidion parviporum
Mycological Research
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01 May 2009
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doi:10.1016/j.mycres.2009.01.006
2008
Evolutionary significance of imbalanced nuclear ratios within heterokaryons of the Basidiomycete fungus Heterobasidium parviporum
Evolution
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01 Sep 2008
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doi:10.1111/j.1558-5646.2008.00462.x
The evolutionary trajectory of the mating-type (mat) genes in Neurosporarelates to reproductive behavior of taxa
BMC Evolutionary Biology
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11 Apr 2008
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doi:10.1186/1471-2148-8-109
The Mating-Type Chromosome in the Filamentous Ascomycete Neurospora tetrasperma Represents a Model for Early Evolution of Sex Chromosomes
PLoS Genetics
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14 Mar 2008
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doi:10.1371/journal.pgen.1000030
2007
The Evolution of the Pheromonal Signal System and Its Potential Role for Reproductive Isolation in Heterothallic Neurospora
Molecular Biology and Evolution
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17 Nov 2007
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doi:10.1093/molbev/msm253
Fungal species: Thoughts on their recognition, maintenance and selection. In G. Gadd, S. Watkinson, & P. Dyer (Eds.), Fungi in the Environment
Cambridge University Press
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12 Apr 2007
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doi:10.1017/CBO9780511541797
2006
Phase-specific gene expression underlying morphological adaptations of the dimorphic human pathogenic fungus, Coccidioides posadasii
Fungal Genetics and Biology
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01 Aug 2006
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doi:10.1016/j.fgb.2006.02.003
2005
Concerted Evolution in the Repeats of an Immunomodulating Cell Surface Protein, SOWgp, of the Human Pathogenic Fungi Coccidioides immitis and C. posadasii
Genetics
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01 Sep 2005
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doi:10.1534/genetics.105.040923
2004
Nuclear reassortment between vegetative mycelia in natural populations of the basidiomycete Heterobasidion annosum
Fungal Genetics and Biology
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01 May 2004
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doi:10.1016/j.fgb.2004.01.002
Positive Directional Selection in the Proline-Rich Antigen (PRA) Gene Among the Human Pathogenic Fungi Coccidioides immitis, C. posadasii and Their Closest Relatives
Molecular Biology and Evolution
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12 Feb 2004
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doi:10.1093/molbev/msh124
2003
Albatrellus citrinus sp. nov., connected to Picea abies on lime rich soils
Mycological Research
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01 Oct 2003
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doi:10.1017/S0953756203008359
Molecular markers reveal genetic isolation and phylogeography of the S and F intersterility groups of the wood-decay fungus Heterobasidion annosum
Molecular Phylogenetics and Evolution
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01 Oct 2003
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doi:10.1016/S1055-7903(03)00087-3
Parental tracking in the postfire wood decay ascomycete Daldinia loculata using highly variable nuclear gene loci
Molecular Ecology
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27 May 2003
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doi:10.1046/j.1365-294X.2003.01858.x
2002
Differential decay extension capability of Daldinia spp. in wood of Betula pendula, Alnus glutinosa and Fraxinus excelsior
Forest Ecology and Management
·
01 Aug 2002
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doi:10.1016/S0378-1127(01)00716-2
Transmission of double-stranded RNA in Heterobasidion annosum
Fungal Genetics and Biology
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01 Jul 2002
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doi:10.1016/S1087-1845(02)00011-7
2001
Post-fire legacy of ectomycorrhizal fungal communities in the Swedish boreal forest in relation to fire severity and logging intensity
Biological Conservation
·
01 Aug 2001
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doi:10.1016/S0006-3207(00)00230-5
Genetic differentiation in Eurasian populations of the postfire ascomycete Daldinia loculata
Molecular Ecology
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01 Jul 2001
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doi:10.1046/j.1365-294X.2001.01317.x
Local population structure of the wood decay ascomycete Daldinia loculata
Mycologia
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01 May 2001
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doi:10.1080/00275514.2001.12063176
2000
Molecular and morphological investigation of Daldinia in northern Europe
Mycological Research
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01 Mar 2000
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doi:10.1017/S0953756299001719
Development of primer sets to amplify fragments of conserved genes for use in population studies of the fungus Daldinia loculata
Molecular Ecology
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01 Mar 2000
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doi:10.1046/j.1365-294x.2000.00874-6.x
Taxonomy of Antrodiella inferred from morphological and molecular data
Mycological Research
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01 Jan 2000
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doi:10.1017/S0953756299008953
1999
Sarcodon imbricatus and S. squamosus — two confused species
Mycological Research
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01 Nov 1999
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doi:10.1017/S0953756299008709
Cladistic analysis of European species of Rhizopogon (Basidiomycotina) based on morphological and molecular characters
Mycotaxon
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30 Jun 1999
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url:http://www.cybertruffle.org.uk/cyberliber/59575/0071/0267.htm
Molecular relationships within the genus Amylostereum as determined by internal transcribed spacer sequences of the ribosomal DNA
Mycotaxon
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30 Jun 1999
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url:http://www.cybertruffle.org.uk/cyberliber/59575/0071/0155.htm
Molecular identification of wood-inhabiting fungi in an unmanaged Picea abies forest in Sweden
Forest Ecology and Management
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01 Mar 1999
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doi:10.1016/S0378-1127(98)00399-5