Publications

Rhoades, N. A.,  Harvey, A. M., Samarajeewa, D. A., Svedberg, J.,  Yusifov, A., Abusharekh, A., Manitchotpisit, P., Brown, D. W., Sharp, K. J., Rehard, D. G., Peters, J., Ostolaza-Maldonado, X., Stephenson, J., Shiu, P. K. T., Johannesson, H., Hammond, T. M. (2019). Identification of rfk-1, a meiotic driver undergoing RNA editing in Neurospora. Genetics (in press)

Tuovinen, V., Ekman, S.,  Thor, G., Vanderpool, D., Spribille, T, Johannesson, H. (2019) Two basidiomycete fungi in the cortex of wolf lichens. Current Biology 29, 1–8

Vogan, A. A., Ament-Velásquez, S. L., Granger-Farbos, A., Svedberg, J., Bastiaans, E., Debets, A. J. M., Coustou, V., Yvanne, H., Clavé, C., Saupe, S. J., Johannesson, H. (2019)Combinations of Spok genes create multiple meiotic drivers in Podospora. bioRxiv, doi:https://doi.org/10.1101/562892

Svedberg, J., Hosseini, S., Chen, J., Vogan, A. A., Mozgova, I., Hennig, L., Manitchotpisit, P., Abusharekh, A., Hammond, T. M., Lascoux, M., Johannesson, H. (2018) Convergent evolution of complex genomic rearrangements in two fungal meiotic drive elements. Nature Communications 9: 4242

J. L. Anderson, J. A., Nieuwenhuis, B., Johannesson, H. (2018). Asexual reproduction and growth rate: Independent and plastic life history traits in Neurospora crassa. The ISME Journal doi:10.1038/s41396-018-0294-7

Pent, M., Hiltunen, M., Põldmaa, K., Furneaux, B., Hildebrand, H., Johannesson, H., Ryberg, H., Bahram, M. (2018). Host genetic variation strongly influences the microbiome structure and function in fungal fruiting‐bodies. Environmental microbiology 20 (5): 1641-1650

Onut-Brännström, I., Benjamin, M., Scofield, D.G., Heiðmarsson, S., Andersson, M.G.I., Lindström, E.S., Johannesson, H. (2018). Sharing of photobionts in sympatric populations of Thamnolia and Cetraria lichens: evidence from high-throughput sequencing. Scientific Reports 8:4406.

Meunier, C., Hosseini, S., Heidari, N., Maryush, Z., Johannesson, H., (2018). Multilevel selection in the filamentous ascomycete Neurospora tetrasperma. American Naturalist 191: 290-305.

Onut-Brännström, I., Johannesson, H., Tibell, L. (2018). Thamnolia tundrae sp. nov., a cryptic species and putative glacial relict. The Lichenologist 50: 59-75.

Sun, Y., Svedberg, J., Hiltunen, M., Corcoran, P., Johannesson, H. (2017). Large-scale suppression of recombination predates genomic rearrangements in Neurospora tetrasperma. Nature Communications 8: 1140.

Onut-Brännström, I., Tibell, L., Johannesson, H. (2017) A worldwide phylogeography of the whiteworm Thamnolia vermicularis reveals three lineages with distinct habitats and evolutionary histories. Ecology and Evolution 7, 3602-3615.

Kronholm, I., Johannesson, H., and Ketola, T. (2016). Epigenetic control of phenotypic plasticity in the filamentous fungus Neurospora crassa. G3 g3.116.033860.

Spribille, T., Tuovinen, V., Resl, P.,  Vanderpool, D., Wolinski, H., Aime, M. C., Schneider, K., Stabentheiner, E., Toome-Heller, M., Thor, G., Mayrhofer, H., Johannesson, H., McCutcheon, J. P. (2016). Basidiomycete yeasts in the cortex of ascomycete macrolichens. Science 353: 488-492

Corcoran, P., Anderson, J. L., Jacobson, D. J., Sun, Y., Ni, P., Lascoux, M., Johannesson, H. (2016). Introgression maintains the genetic integrity of the mating-type determining chromosome of Neurospora tetrasperma. Genome Research 26: 486-498

Lindholm, A. K., Dyer, K. A., Firman, R. C., Fishman, L., Forstmeier, W., Holman, L., Johannesson, H., Knief, U., Kokko, H., Larracuente, A. M., Manser, A., Montchamp-Moreau, C., Petrosyan, V. G., Pomiankowski, A., Presgraves, D. C., Safronova, L. D., Sutter, A., Unckless, R. L., Verspoor, R. L., Wedell, N., Wilkinson, G. S. & Price, T. A. R. (2016). The ecology and evolutionary dynamics of meiotic drive. Trends in Ecology & Evolution 31(4): 315-26

Idnurm, A., Hood, M.E., Johannesson, H., Giraud, T. (2015). Contrasted patterns in mating-type chromosomes in fungi: hotspots versus coldspots of recombination. Fungal Biology Reviews 29(3-4): 220-229

Sun, Y., Whittle, C. A., Corcoran, P., Johannesson, H. (2015). Intron evolution in Neurospora: the role of mutational bias and selection. Genome Research 25(1):100-10

Corcoran, P., Dettman, J. R., Sun, Y., Luque, E. M., Corrochano, L. M., Taylor, J. W., Lascoux, M., Johannesson, H. (2014). A global multilocus analysis of the model fungus Neurospora reveals a single recent origin of a novel genetic system. Molecular Phylogenetics and Evolution 78: 136-147

Samils, N., Oliva, J., Johannesson, H. (2014). Nuclear interactions in a heterokaryon: insight from the model Neurospora tetrasperma. Proceedings of the Royal Society B: Biological Sciences 281: 20140084

Whittle, C. A., Sun, Y., Johannesson, H. (2014). Dynamics of transcriptome evolution in the model eukaryote Neurospora. Journal of Evolutionary Biology 27: 1125-1135

Strandberg, R., Tzelepis, G., Johannesson, H., Karlsson, M. (2013). Co-existence and expression profiles of two alternative splice variants of the pheromone receptor gene pre-1 in Neurospora crassa. Archives in Microbiology 195:773-780

Whittle, C. A., Johannesson, H. (2013). Evolutionary dynamics of sex-biased genes in a hermaphrodite fungus. Molecular Biology and Evolution 30(11):2435-2446

Samils, N., Gioti, A., Karlsson, M., Sun, Y., Kasuga, T., Bastiaans, E., Wang, Z., Li, N., Townsend, J.P., Johannesson, H. (2013). Sex-linked transcriptional divergence in the hermaphrodite fungus Neurospora tetrasperma. Proceedings of the Royal Society B: Biological Sciences 280(1764):20130862

Gioti, A., Stajich, J. E., Johannesson, H. (2013). Neurospora and the dead-end hypothesis: Genomic consequences of selfing in the model genus. Evolution 67 (12): 3600-3616 

Corcoran, P., Jacobson, D.J., Bidartondo, M.I., Hickey, P.C., Kerekes, J., Taylor J.W., Johannesson, H. (2012). Quantifying functional heterothallism in the pseudohomothallic ascomycete Neurospora tetrasperma. Fungal Biology 116: 962-975

Gioti, A., Mushegian, A., Strandberg, R., Stajich, J.E., Johannesson, H. (2012). Unidirectional evolutionary transitions in fungal mating systems and the role of transposable elements. Molecular Biology and Evolution 29(10):3215-3226

Menkis, A., Burokiene, D., Gaitnieks, T., Uotila, T., Johannesson, H., Rosling, A., Finlay, R., Stenlid, J., Vasaitis, R. (2012). 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, 81 (2): 438-445.

Nygren, K., Strandberg, R., Gioti, R., Karlsson, M., Johannesson, H. (2012). Deciphering the relationship between mating system and the molecular evolution of the pheromone and receptor genes in Neurospora. Molecular Biology and Evolution 29(12): 3827-3842

Nygren, K., Wallberg, A., Samils, N., Stajich, J. E., Townsend, J. P., Karlsson, M., Johannesson, H. (2012). Analyses of expressed sequence tags in Neurospora reveal rapid evolution of genes associated with the early stages of sexual reproduction in fungi. BMC Evolutionary Biology 12: 229

Sun, Y., Corcoran, P., Menkis, A., Whittle, C.A., Andersson, S.G.E., Johannesson, H. (2012). Large-scale introgression shapes the evolution of the mating-type chromosomes of the filamentous ascomycete Neurospora tetrasperma. PLoS Genetics 8(7): e1002820.

Wang, Z., Kin, K., Lopez-Giraldez, F., Johannesson, H., Townsend, J.P. (2012). Sex-specific gene expression during asexual development of Neurospora crassa. Fungal Genetics and Biology 48(7): 533-543.

Whittle, C. A., Johannesson, H. (2012). Neurospora as a model to empirically test central hypotheses in eukaryotic genome evolution: Why this fungal genus offers promising opportunities. Bioessays 34:934-937

Whittle, C. A., Sun, Y., Johannesson, H. (2012). Genome-wide selection on codon usage at the population level in the fungal model organism Neurospora crassa. Molecular Biology and evolution 29: 1975-1986.

Lindner, D. L., Vasaitis, R., Kubartová, A., Allmér, J., Johannesson, H., Banika, M. T., Stenlid, J. (2011). Initial fungal colonizer affects mass loss and fungal community development in Picea abies logs 6 yr after inoculation. Fungal Ecology 4: 449–460.

Nygren, K., Strandberg, R., Wallberg, A., Nabholz, B., Gustafsson, T., García, D., Cano, J., Guarro, J., Johannesson, H.(2011). A comprehensive phylogeny of Neurospora reveals a link between reproductive mode and molecular evolution in fungi. Molecular Phylogenetics and Evolution 59:649-663.

Whittle, C. A., Nygren, K., Johannesson, H. (2011). Consequences of reproductive mode on genome evolution in fungi. Fungal Genetics and Biology reviews 48: 661-667.

Whittle, C.A., Johannesson, H. (2011). Evolution of mating-type loci and mating-type chromosomes in model species of filamentous ascomycetes In ”THE MYCOTA XIV, Evolution of fungi and fungal-like organisms” J. Wöstemeyer and S.Pöeggeler (eds.), vol. XIV. Springer Verlag, Heidelberg.

Whittle, C. A., Sun, Y., Johannesson, H. (2011). Evolution of synonymous codon usage in Neurospora tetrasperma and Neurospora discreta. Genome Biology and Evolution 3:332-343.

Whittle, C. A., Sun, Y., Johannesson, H. (2011). Degeneration in codon usage within the region of suppressed recombination in the mating type chromosomes of Neurospora tetrasperma. Eukaryotic Cell 10: 594-603.

Whittle, C. A., Johannesson, H. (2011). 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 4: 305-314.

Menkis, A., Whittle, C. A., Johannesson, H. (2010). 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 10:234.

Strandberg, R., Nygren, K., Menkis, A., James, T. Y., Wik, L., Stajich, J. E., Johannesson, H. (2010). Conflict between reproductive gene trees and species phylogeny among heterothallic andpseudohomothallic members of the filamentous ascomycete genus Neurospora. Fungal Genetics and Biology 47: 869-878.

James, T.Y., Johansson, S., Johannesson H. (2009). Trikaryon formation and nuclear selection in pairings between heterokaryons and homokaryons of the root rot pathogen Heterobasidion parviporum. Mycological Research 113: 583-590.

Menkis, A., Bastiaans, E., Jacobson, D.J., Johannesson, H. (2009). Phylogenetic and biological species diversity within the Neurospora tetrasperma complex. Journal of Evolutionary Biology 22(9): 1923-1936.

James, T. Y., Olson, Å., Stenlid, J., Johannesson, H. (2008). Evolutionary significance of imbalanced nuclear ratios within heterokaryons of the basidiomycete fungus Heterobasidion parviporum. Evolution62 (9): 2279-2296.

Karlsson, M., Nygren, K., Johannesson, H. (2008). The evolution of the pheromonal signal system and its potential role for reproductive isolation in heterothallic Neurospora. Molecular Biology and Evolution, 25 (1):168-178.

Menkis, A., Jacobson, D. J., Gustafsson, T., Johannesson, H. (2008) The mating-type chromosome in the filamentous ascomycete Neurospora tetrasperma represents a model for early evolution of sexchromosomes. PLoS GENETICS, 4 (3): e1000030.

Wik, L., Karlsson, M., Johannesson, H. (2008)The evolutionary trajectory of the mating-type (mat) genes in Neurospora relates to reproductive behavior of taxa. BMC Evolutionary Biology, 8:109.

Johannesson, H., Kasuga, T., Schaller, R., Townsend, J. P., Cole, G. T. and Taylor, J.W. (2006).Phase-specific gene expression underlying morphological adaptations of the dimorphic human pathogenic fungus, Coccidioides posadasii. Fungal Genetics and Biology, 43: 545-559.

Taylor, J.W., Turner, E., Pringle, A., Dettman, J., Johannesson H. (2006). Fungal species: thoughts on their recognition, maintenance and selection. In 'Fungi in the Environment' eds. GM Gadd, SC Watkinson, PS Dyer. Cambridge: Cambridge University Press.

Johannesson, H., Townsend, J.P., and Taylor, J.W. (2005). Concerted evolution by unequal crossing over in the gene encoding a parasitic cell surface glycoprotein (SOWgp) of the human pathogenic fungi Coccidioides immitis and C.posadasii. Genetics171: 109-117.

Johannesson, H., Stenlid, J. (2004). Nuclear reassortment between vegetative mycelia in natural populations of the basidiomycete Heterobasidion annosum. Fungal Genetics and Biology 41 (5): 563-570. 

Johannesson, H., Vidal, P., Guarro, J., Herr, R.A., Cole, G.T., and Taylor, J.W. (2004). 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 21 (6): 1134-1145.

Guidot A., Johannesson H., Dahlberg A. and Stenlid J. (2003). Parental tracking in the postfire wood decay ascomycete Daldinia loculata using highly variable nuclear gene loci. Molecular Ecology 12 (7): 1717-1730.

Johannesson, H. and Stenlid, J. (2003). 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 29: 94-101.

Ryman S., Fransson P., Johannesson H., Danell E. (2003). Albatrellus citrinus sp nov., connected to Picea abies on lime rich soils. Mycological Research 107: 1243-1246 2003.

Ihrmark, K., Johannesson, H., Stenström, E. and Stenlid, J. (2002). Transmission of double-stranded DNA in Heterobasidion annosum. Fungal Genetics and Biology 36 (2): 147-154.

Johannesson, H., Ihrmark, K. and Stenlid J. (2002). Differential decay extension capability of Daldinia spp. in wood of Betula pendula, Alnus glutinosa and Fraxinus excelsior. Forest Ecology and Managment 167: (1-3) 295-302.

Dahlberg, A., Schimmel, J., Taylor, A. and Johannesson, H. (2001). Post-fire legacy of ectomycorrhizal fungal communities in the Swedish boreal forest in relation to fire severity and logging intensity. Biological conservation 100 (2): 151-161.

Johannesson, H., Vasiliauskas, R., Dahlberg, A., Penttilä, R. and Stenlid, J. (2001). Genetic differentiation in Eurasian populations of the postfire ascomycete Daldinia loculata. Molecular Ecology 10: 1665-1677.

Johannesson, H., Gustafsson, M. and Stenlid, J. (2001). Local population structure of the wood-decay ascomycete Daldinia loculata. Mycologia 93(3): 440-446.

Johannesson, H., Johannesson H. and Stenlid, J. (2000). Development of a set of PCR primers to amplify conserved genes of Daldinia loculata for use in population studies. Molecular Ecology 9: 375-378.

Johannesson, H., Læssøe, T. and Stenlid, J. (2000). Molecular and morphological investigation of the genus Daldinia in northern Europe. Mycological Research 104 (3): 275-280. Number of citations: 19

Johannesson, H., Ryman, S., Lundmark, H and Danell, E. (2000). Wood dyeing with Sarcodon imbricatus - difficulties due to confusion with S. squamosus. Mycological Research 103 (11): 1447-1452.

Johannesson, H., Renvall, P and Stenlid, J. (2000). Taxonomy of the Antrodiella semisupina complex inferred from morphological and molecular characters. Mycological Research 104 (01): 92-99. Number of citations: 10

Martín, M.P. and Johannesson, H. (2000). Battarrea phalloides and B.stevenii, insigth into a long-standing taxonomic puzzle? Mycotaxon 76: 67-75.

Johannesson, H. and Martín, M.P. (1999). Cladistic studies of Rhizopogon based on morphological and molecular characters. Mycotaxon 71: 267-283.

Johannesson, H. and Stenlid, J. (1999). Molecular identification of wood-inhabiting fungi in canopy gaps of Fiby forest. Forest Ecology and Management 115: 203-211.

Swedjemark, G., Johannesson, H. and Stenlid, J. (1999). Intraspecific variation in Heterobasidion annosum for growth in sapwood of Picea abies and Pinus sylvestris. European Journal of Forest Pathology 29 (4): 249-258.

Vasiliauskas, R., Johannesson, H. and Stenlid, J. (1999). Molecular relationships within the genus Amylostereum as determined by internal transcribed spacer sequences of the ribosomal DNA. Mycotaxon 71: 155-161.