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Genome expansion and lineage-specific genetic innovations in the forest pathogenic fungi Armillaria.

  • Sipos G Functional Genomics and Bioinformatics Group, Research Center for Forestry and Wood Industry, University of Sopron, Sopron, 9400, Hungary. gyoergy.sipos@wsl.ch.
  • Prasanna AN Synthetic and Systems Biology Unit, Biological Research Center, Hungarian Academy of Sciences, Szeged, 6726, Hungary.
  • Walter MC Department of Genome-oriented Bioinformatics, Center of Life and Food Science Weihenstephan, Technische Universität München, Freising, 80333, Germany.
  • O'Connor E Department of Biology, University Maynooth County, Kildare, W23 A023, Ireland.
  • Bálint B Seqomics Ltd. Mórahalom, Mórahalom, 6782, Hungary.
  • Krizsán K Synthetic and Systems Biology Unit, Biological Research Center, Hungarian Academy of Sciences, Szeged, 6726, Hungary.
  • Kiss B Synthetic and Systems Biology Unit, Biological Research Center, Hungarian Academy of Sciences, Szeged, 6726, Hungary.
  • Hess J Department of Botany and Biodiversity Research, University of Vienna, Vienna, 1010, Austria.
  • Varga T Synthetic and Systems Biology Unit, Biological Research Center, Hungarian Academy of Sciences, Szeged, 6726, Hungary.
  • Slot J Department of Plant Pathology, Ohio State University, Columbus, OH, 43210, USA.
  • Riley R Joint Genome Institute US Department of Energy (DOE), Walnut Creek, CA, 2800, USA.
  • Bóka B Department of Microbiology, University of Szeged, Szeged, 6726, Hungary.
  • Rigling D Swiss Federal Research Institute WSL, Birmensdorf, 8903, Switzerland.
  • Barry K Joint Genome Institute US Department of Energy (DOE), Walnut Creek, CA, 2800, USA.
  • Lee J Joint Genome Institute US Department of Energy (DOE), Walnut Creek, CA, 2800, USA.
  • Mihaltcheva S Joint Genome Institute US Department of Energy (DOE), Walnut Creek, CA, 2800, USA.
  • LaButti K Joint Genome Institute US Department of Energy (DOE), Walnut Creek, CA, 2800, USA.
  • Lipzen A Joint Genome Institute US Department of Energy (DOE), Walnut Creek, CA, 2800, USA.
  • Waldron R Department of Biology, University Maynooth County, Kildare, W23 A023, Ireland.
  • Moloney NM Department of Biology, University Maynooth County, Kildare, W23 A023, Ireland.
  • Sperisen C Swiss Federal Research Institute WSL, Birmensdorf, 8903, Switzerland.
  • Kredics L Department of Microbiology, University of Szeged, Szeged, 6726, Hungary.
  • Vágvölgyi C Department of Microbiology, University of Szeged, Szeged, 6726, Hungary.
  • Patrignani A Functional Genomics Center, ETH and University of Zurich, Zurich, 8006, Switzerland.
  • Fitzpatrick D Department of Biology, University Maynooth County, Kildare, W23 A023, Ireland.
  • Nagy I Seqomics Ltd. Mórahalom, Mórahalom, 6782, Hungary.
  • Doyle S Department of Biology, University Maynooth County, Kildare, W23 A023, Ireland.
  • Anderson JB Department of Biology, University of Toronto, Toronto, ON, M5S, Canada.
  • Grigoriev IV Joint Genome Institute US Department of Energy (DOE), Walnut Creek, CA, 2800, USA.
  • Güldener U Department of Genome-oriented Bioinformatics, Center of Life and Food Science Weihenstephan, Technische Universität München, Freising, 80333, Germany.
  • Münsterkötter M Functional Genomics and Bioinformatics Group, Research Center for Forestry and Wood Industry, University of Sopron, Sopron, 9400, Hungary.
  • Nagy LG Synthetic and Systems Biology Unit, Biological Research Center, Hungarian Academy of Sciences, Szeged, 6726, Hungary. lnagy@fungenomelab.com.
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  • 2017-11-01
Published in:
  • Nature ecology & evolution. - 2017
Armillaria
Fungal Proteins
Genome, Fungal
Proteomics
Sequence Analysis, RNA
Species Specificity
Transcriptome
English Armillaria species are both devastating forest pathogens and some of the largest terrestrial organisms on Earth. They forage for hosts and achieve immense colony sizes via rhizomorphs, root-like multicellular structures of clonal dispersal. Here, we sequenced and analysed the genomes of four Armillaria species and performed RNA sequencing and quantitative proteomic analysis on the invasive and reproductive developmental stages of A. ostoyae. Comparison with 22 related fungi revealed a significant genome expansion in Armillaria, affecting several pathogenicity-related genes, lignocellulose-degrading enzymes and lineage-specific genes expressed during rhizomorph development. Rhizomorphs express an evolutionarily young transcriptome that shares features with the transcriptomes of both fruiting bodies and vegetative mycelia. Several genes show concomitant upregulation in rhizomorphs and fruiting bodies and share cis-regulatory signatures in their promoters, providing genetic and regulatory insights into complex multicellularity in fungi. Our results suggest that the evolution of the unique dispersal and pathogenicity mechanisms of Armillaria might have drawn upon ancestral genetic toolkits for wood-decay, morphogenesis and complex multicellularity.
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  • English
Open access status
hybrid
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Persistent URL
https://sonar.ch/global/documents/127266
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