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Mushroomics SIGNED

Functional genomics in Schizophyllum commune: leveraging the diversity in this hypervariable fungus to understand mushroom development

Total Cost €

EC-Contrib. €

Partnership

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Outcomes and
results

Mushroomics project word cloud

Explore the words cloud of the Mushroomics project. It provides you a very rough idea of what is the project "Mushroomics" about.

predicted function highest feasibility 1000 genomics initiate elucidate seq chip fungi differences illustrated knock followed model reproduce strategies 313 snps few phenotypes light me ing sampled shows eukaryotes huge shown forming genetics co2 toolbox diversity 150 expertise commune mushrooms rna base reproductive regulation stimuli molecular exact strain pairs bulk leverage strains biology sexually subsequently species structures variability tfs segregant tf genes alleles learned schizophyllum mushroom world mapped sequencing environmental collection intraspecies morphology basidiomycetes implicated transcription sexual genome extraordinary dna play responsible initial hypervariabity unknown systematically generating functional

Project "Mushroomics" data sheet

The following table provides information about the project.

Coordinator	UNIVERSITEIT UTRECHT Organization address address: HEIDELBERGLAAN 8 city: UTRECHT postcode: 3584 CS website: www.uu.nl contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.
Coordinator Country	Netherlands [NL]
Total cost	1˙500˙000 €
EC max contribution	1˙500˙000 € (100%)
Programme	1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC))
Code Call	ERC-2016-STG
Funding Scheme	ERC-STG
Starting year	2017
Duration (year-month-day)	from 2017-01-01 to 2021-12-31

Partnership

Take a look of project's partnership.

#	participants	country	role	EC contrib. [€]
1	UNIVERSITEIT UTRECHT UNIVERSITEIT UTRECHT Organization address address: HEIDELBERGLAAN 8 city: UTRECHT postcode: 3584 CS website: www.uu.nl contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	NL (UTRECHT)	coordinator	1˙500˙000.00

Map

Project objective

Mushrooms are the sexual reproductive structures of basidiomycetes. Much remains to be learned about the molecular regulation of mushroom development. Only a few genes have been implicated in this process, but their exact function remains unknown. Schizophyllum commune is a model system for mushroom-forming fungi. It was recently shown that this species shows the highest intraspecies DNA variability in eukaryotes with 150 SNPs per 1000 base pairs, yet they can still reproduce sexually. This hypervariabity is also illustrated by variability in the response to environmental factors that initiate mushroom development and by the differences in morphology within this species. I propose a functional genomics approach to elucidate the molecular genetics of mushroom development. We have a collection of 100 S. commune strains sampled world-wide. I propose to leverage the extraordinary diversity among these strains. I will identify genes that explain differences in mushroom morphology and in responses to environmental stimuli such as light and CO2. The genes/alleles responsible for these phenotypes will by mapped by genome sequencing followed by bulk segregant analysis. Transcription factors (TFs) are expected to play an important role in regulation of mushroom development. Therefore I propose to systematically study TF function by generating a knock-down collection of all predicted 313 TFs. The phenotypes of the resulting strains will be analyzed and target genes of TFs will be identified by RNA-Seq and ChIP-Seq. The genes identified by these strategies will subsequently be analyzed to determine their function. My initial results demonstrate the feasibility of this approach. The availability of the strain collection, the available molecular toolbox, and my strong expertise both in genomics and molecular biology of mushroom development will enable me to take a huge step forward in our understanding of mushroom development.

Publications

List of publications.
year	authors and title	journal	last update
2019	Krisztina KrizsÃ¡n, Ã‰va AlmÃ¡si, Zsolt MerÃ©nyi, Neha Sahu, MÃ¡tÃ© VirÃ¡gh, TamÃ¡s KÃ³szÃ³, Stephen Mondo, Brigitta Kiss, BalÃ¡zs BÃ¡lint, Ursula KÃ¼es, Kerrie Barry, Judit Cseklye, Botond HegedÃ¼s, Bernard Henrissat, Jenifer Johnson, Anna Lipzen, Robin A. Ohm, IstvÃ¡n Nagy, Jasmyn Pangilinan, Juying Yan, Yi Xiong, Igor V. Grigoriev, David S. Hibbett, LÃ¡szlÃ³ G. Nagy Transcriptomic atlas of mushroom development reveals conserved genes behind complex multicellularity in fungi published pages: 7409-7418, ISSN: 0027-8424, DOI: 10.1073/pnas.1817822116	Proceedings of the National Academy of Sciences 116/15	2019-11-08
2019	Peter Jan Vonk, Natalia Escobar, Han A. B. WÃ¶sten, Luis G. Lugones, Robin A. Ohm High-throughput targeted gene deletion in the model mushroom Schizophyllum commune using pre-assembled Cas9 ribonucleoproteins published pages: , ISSN: 2045-2322, DOI: 10.1038/s41598-019-44133-2	Scientific Reports 9/1	2019-11-08
2018	Peter Jan Vonk, Robin A. Ohm The role of homeodomain transcription factors in fungal development published pages: , ISSN: 1749-4613, DOI: 10.1016/j.fbr.2018.04.002	Fungal Biology Reviews	2019-06-13

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The information about "MUSHROOMICS" are provided by the European Opendata Portal: CORDIS opendata.