Westerdijk Fungal Biodiversity Institute - Fungal Natural Products

Research output

Research output per year 2018 2019 2020 2021 2022 2023

• 20 Article
• 8 Poster
• 2 Chapter
• 2 Book/Film/Article review
• 3 More
  • 2 Other contribution
  • 1 Online paper

Research output per year

Research output per year

Search results

• 2023

  Detection and quantification of the histone code in the fungal genus Aspergillus

  Zhang, X., Noberini, R., Vai, A., Bonaldi, T., Seidl, M. F. & Collemare, J., Jun 2023, In: Fungal Genetics and Biology. 167, 103800.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • Histone Code 100%
  • Aspergillus 99%
  • Post Translational Protein Processing 90%
  • Histones 82%
  • Acetylation 26%
  2 Citations (Scopus)

• Evolutionary histories of type I fatty acid synthases in fungi

  Collemare, J. & Guo, Y., Mar 2023.

  Research output: Contribution to conference › Poster › Scientific

• Functional analysis of two transcription factor-encoding genes within secondary metabolite biosynthetic clusters in Parastagonospora nodorum

  Collemare, J. & Choupannejad, R., Mar 2023.

  Research output: Contribution to conference › Poster › Scientific

• Unbiased mass spectrometry reveals the histone code in the fungal genus Aspergillus

  Collemare, J. & Zhang, X., Mar 2023.

  Research output: Contribution to conference › Poster › Scientific
• 2022

  A bioinformatics workflow for investigating fungal biosynthetic gene clusters

  Collemare, J. & Navarro-Munoz, J. C., 2022, Engineering Natural Product Biosynthesis: Methods and Protocols. Springer

  Research output: Chapter in book/volume › Chapter › Scientific
  3 Citations (Scopus)

• A genomic journey in the secondary metabolite diversity of fungal plant and insect pathogens: from functional to population genomics

  Kuhnert, E. & Collemare, J., Oct 2022, In: Current Opinion in Microbiology. 69, 102178.

  Research output: Contribution to journal/periodical › Book/Film/Article review › Scientific

  • Metagenomics 100%
  • bikaverin 88%
  • Insecta 84%
  • Fungi 72%
  • Polyketides 60%
  6 Citations (Scopus)

• Characterization of NRPS and PKS genes involved in the biosynthesis of SMs in Alternaria dauci including the phytotoxic polyketide aldaulactone

  Courtial, J., Helesbeux, J. J., Oudart, H., Aligon, S., Bahut, M., Hamon, B., N’Guyen, G., Pigné, S., Hussain, A. G., Pascouau, C., Bataillé-Simoneau, N., Collemare, J., Berruyer, R. & Poupard, P., Dec 2022, In: Scientific Reports. 12, 1, 8155.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • Polyketides 100%
  • Alternaria 96%
  • Lactones 65%
  • Secondary Metabolism 52%
  • Daucus carota 49%
  9 Citations (Scopus)

• Developing fungal heterologous expression platforms to explore and improve the production of natural products from fungal biodiversity

  Meng, X., Fang, Y., Ding, M., Zhang, Y., Jia, K., Li, Z., Collemare, J. & Liu, W., 01 Jan 2022, In: BIOTECHNOLOGY ADVANCES. 54, 107866.

  Research output: Contribution to journal/periodical › Book/Film/Article review › Scientific

  Open Access

  • Biodiversity 100%
  • Fungi 95%
  • Multigene Family 75%
  • Biological Products 68%
  • Genes 66%
  41 Citations (Scopus)

• Evolutionary relationships of adenylation domains in fungi

  Noriler, S., Navarro-Muñoz, J. C., Glienke, C. & Collemare, J., Nov 2022, In: Genomics. 114, 6, 110525.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • non-ribosomal peptide synthase 100%
  • Fungi 56%
  • Oxidoreductases 32%
  • Enzymes 29%
  • Coenzyme A 22%
  3 Citations (Scopus)

• Hybridizations Between formae speciales of Venturia inaequalis Pave the Way for a New Biocontrol Strategy to Manage Fungal Plant Pathogens

  Caffier, V., Shiller, J., Bellanger, M. N., Collemare, J., Expert, P., Gladieux, P., Pascouau, C., Sannier, M. & Le Cam, B., Jul 2022, In: Phytopathology. 112, 7, p. 1401-1405 5 p.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • Pyracantha 100%
  • Venturia inaequalis 77%
  • Malus 73%
  • plant pathogens 51%
  • biological control 46%
  1 Citation (Scopus)

• The histone code of the fungal genus Aspergillus uncovered by evolutionary and proteomic analyses

  Zhang, X., Noberini, R., Bonaldi, T., Collemare, J. & Seidl, M. F., 2022, In: Microbial genomics. 8, 9, 000856.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • Histone Code 100%
  • Aspergillus 99%
  • Proteomics 80%
  • Chromatin 77%
  • Fungi 39%
  2 Citations (Scopus)
• 2021

  Diaporthe vochysiae from Pantanal as a source of fungal secondary metabolites

  Collemare, J., Nov 2021.

  Research output: Contribution to conference › Poster › Scientific

• Fusarium: more than a node or a foot-shaped basal cell

  Crous, P. W., Lombard, L., Sandoval-Denis, M., Seifert, K. A., Schroers, H-J., Chaverri, P., Gené, J., Guarro, J., Hirooka, Y., Bensch, K., Kema, G. H. J., Lamprecht, S. C., Cai, L., Rossman, A. Y., Stadler, M., Summerbell, R. C., Taylor, J. W., Ploch, S., Visagie, C. M., Yilmaz, N., & 107 othersFrisvad, J. C., Abdel-Azeem, A. M., Abdollahzadeh, J., Abdolrasouli, A., Akulov, A., Alberts, J. F., Araújo, J. P. M., Ariyawansa, H. A., Bakhshi, M., Bendiksby, M., Amor, A. B. H., Bezerra, J. D. P., Boekhout, T., Câmara, M. P. S., Carbia, M., Cardinali, G., Castañeda-Ruiz, R. F., Celis, A., Chaturvedi, V., Collemare, J., Croll, D., Damm, U., Decock, C. A., Vries, R. P. D., Ezekiel, C. N., Fan, X. L., Fernández, N. B., Gaya, E., González, C. D., Gramaje, D., Groenewald, J. Z., Grube, M., Guevara-Suarez, M., Gupta, V. K., Guarnaccia, V., Haddaji, A., Hagen, F., Haelewaters, D., Hansen, K., Hashimoto, A., Hernández-Restrepo, M., Houbraken, J., Hubka, V., Hyde, K. D., Iturriaga, T., Jeewon, R., Johnston, P. R., Jurjević, Ž., Karalti, İ., Korsten, L., Kuramae, E. E., Kušan, I., Labuda, R., Lawrence, D. P., Lee, H. B., Lechat, C., Li, H. Y., Litovka, Y. A., Maharachchikumbura, S. S. N., Marin-Felix, Y., Kemkuignou, B. M., Matočec, N., McTaggart, A. R., Mlčoch, P., Mugnai, L., Nakashima, C., Nilsson, R. H., Noumeur, S. R., Pavlov, I. N., Peralta, M. P., Phillips, A. J. L., Pitt, J. I., Polizzi, G., Quaedvlieg, W., Rajeshkumar, K. C., Restrepo, S., Rhaiem, A., Robert, J., Robert, V., Rodrigues, A. M., Salgado-Salazar, C., Samson, R. A., Santos, A. C. S., Shivas, R. G., Souza-Motta, C. M., Sun, G. Y., Swart, W. J., Szoke, S., Tan, Y. P., Taylor, J. E., Taylor, P. W. J., Tiago, P. V., Váczy, K. Z., Wiele, N. V. D., Merwe, N. A. V. D., Verkley, G. J. M., Vieira, W. A. S., Vizzini, A., Weir, B. S., Wijayawardene, N. N., Xia, J. W., Yáñez-Morales, M. J., Yurkov, A., Zamora, J. C., Zare, R., Zhang, C. L. & Thines, M., Apr 2021, In: Studies in Mycology. 98, 184 p., 100116.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • Fusarium 100%
  • Foot 64%
  • Nectriaceae 51%
  • Gibberella 33%
  • cells 24%
  192 Citations (Scopus)

• Histone extraction for mass spectrometry-based analysis of post-translational modifications in the fungal genus Aspergillus

  Collemare, J., 2021, protocols.io.

  Research output: Working paper/discussion paper › Online paper › Scientific

  Open Access

• Secondary metabolite biosynthetic diversity in the fungal family Hypoxylaceae and Xylaria hypoxylon

  Kuhnert, E., Navarro-Muñoz, J. C., Becker, K., Stadler, M., Collemare, J. & Cox, R. J., Jun 2021, In: Studies in Mycology. 99, 100118.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • Hypoxylaceae 100%
  • Hypoxylon 74%
  • Xylaria 72%
  • Biosynthetic Pathways 46%
  • Fungi 43%
  31 Citations (Scopus)

• The biosynthesis of fungal secondary metabolites: From fundamentals to biotechnological applications

  Mosunova, O., Navarro-Muñoz, J. C. & Collemare, J., 01 Jun 2021, Encyclopedia of Mycology. Elsevier, p. 458-476 19 p.

  Research output: Chapter in book/volume › Chapter › Scientific › peer-review
  26 Citations (Scopus)
• 2020

  Evolutionary histories of type III polyketide synthases in fungi

  Collemare, J., Feb 2020.

  Research output: Contribution to conference › Poster › Scientific

• Evolutionary Histories of Type III Polyketide Synthases in Fungi

  Navarro-Muñoz, J. C. & Collemare, J., 21 Jan 2020, In: Frontiers in Microbiology. 10, 3018.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • flavanone synthetase 100%
  • Fungi 48%
  • Biosynthetic Pathways 29%
  • Multigene Family 19%
  • Gene Duplication 15%
  33 Citations (Scopus)

• Evolutionary Histories of Type III Polyketide Synthases in Fungi

  Collemare, J. & Navarro-Munoz, J. C., 21 Jan 2020, In: Frontiers in Microbiology.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

• Exploring fungal genomes for novel natural products

  Collemare, J., Feb 2020.

  Research output: Contribution to conference › Poster › Scientific

• Molecules from nature: Reconciling biodiversity conservation and global healthcare imperatives for sustainable use of medicinal plants and fungi

  Howes, MJ. R., Quave, C. L., Collemare, J., Tatsis, E. C., Twilley, D., Lulekal, E., Farlow, A., Li, L., Cazar, ME., Leaman, D. J., Prescott, T. A. K., Milliken, W., Martin, C., De Canha, M. N., Lall, N., Qin, H., Walker, B. E., Vásquez‐Londoño, C., Allkin, B., Rivers, M., & 8 othersSimmonds, M. S. J., Bell, E., Battison, A., Felix, J., Forest, F., Leon, C., Williams, C. & Nic Lughadha, E., Sept 2020, In: PLANTS, PEOPLE, PLANET. 2, 5, p. 463-481 19 p.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • plant and fungus 100%
  • medicinal fungi 91%
  • medicinal plant 89%
  • biodiversity conservation 80%
  • sustainable use 75%
  105 Citations (Scopus)

• MycoNews 2020: President’s message, news, reports, awards, personalia, book news, and correspondence

  Collemare, J., 31 Dec 2020

  Research output: Other contribution › Professional

• Selecting for useful properties of plants and fungi – Novel approaches, opportunities, and challenges

  Kersey, P. J., Collemare, J., Cockel, C., Das, D., Dulloo, E. M., Kelly, L. J., Lettice, E., Malécot, V., Maxted, N., Metheringham, C., Thormann, I. & Leitch, I. J., Sept 2020, In: PLANTS, PEOPLE, PLANET. 2, 5, p. 409-420 12 p.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • plant and fungus 100%
  • genetic diversity 56%
  • genetic variation 42%
  • fungi 40%
  • new variety 38%
  15 Citations (Scopus)

• State of the World’s Plants and Fungi 2020

  Collemare, J., 2020

  Research output: Other contribution › Scientific

  Open Access

• Transcriptome and proteome analyses of proteases in biotroph fungal pathogen Cladosporium fulvum

  Karimi Jashni, M., van der Burgt, A., Battaglia, E., Mehrabi, R., Collemare, J. & de Wit, P. J. G. M., 01 May 2020, In: Journal of Plant Pathology. 102, 2, p. 377-386 10 p.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • Passalora fulva 100%
  • proteome 64%
  • transcriptome 59%
  • proteinases 50%
  • pathogens 39%
  14 Citations (Scopus)

• Untapped resources for medical research

  Pérez-Escobar, O. A., Richardso, J. E., Howes, M. J. R., Lucas, E., De Róman, N. Á., Collemare, J., Graha, I. A., Gratzfeld, J., Kerse, P. J., Leitc, I. J., Paton, A., Hollingswort, P. M. & Antonelli, A., 14 Aug 2020, In: Science. 369, 6505, p. 781-782 2 p.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access
  8 Citations (Scopus)
• 2019

  Biosynthetic pathways elucidation of the fungal pigment xylindein

  Collemare, J., Mar 2019.

  Research output: Contribution to conference › Poster › Scientific

• Chromatin-dependent regulation of secondary metabolite biosynthesis in fungi: is the picture complete?

  Collemare, J. & Seidl, M. F., 20 Jun 2019, In: FEMS Microbiology Reviews.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access
  50 Citations (Scopus)

• Draft Genome Sequence of the Wood-Staining Ascomycete Chlorociboria aeruginascens DSM 107184

  Büttner, E., Liers, C., Gebauer, A. M., Collemare, J., Navarro-Muñoz, J. C., Hofrichter, M. & Kellner, H., 25 Apr 2019, In: Microbiology Resource Announcements. 8, 17

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • xylindein 100%
  • Naphthoquinones 60%
  • Ascomycota 58%
  • Fungi 34%
  • Genome 26%
  3 Citations (Scopus)

• Harnessing phylogenetic information to direct genome mining of biosynthetic gene clusters

  Collemare, J., Mar 2019.

  Research output: Contribution to conference › Poster › Scientific

• MIBiG 2.0: a repository for biosynthetic gene clusters of known function

  Kautsar, S. A., Blin, K., Shaw, S., Navarro-Muñoz, J. C., Terlouw, B. R., van der Hooft, J. J. J., van Santen, J. A., Tracanna, V., Suarez Duran, H. G., Pascal Andreu, V., Selem-Mojica, N., Alanjary, M., Robinson, S. L., Lund, G., Epstein, S. C., Sisto, A. C., Charkoudian, L. K., Collemare, J., Linington, R. G., Weber, T., & 1 othersMedema, M. H., 15 Oct 2019, In: Nucleic Acids Research.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • Multigene Family 100%
  • Chemical Databases 20%
  • Data Curation 19%
  • Microbial Genome 19%
  • Explosions 16%
  425 Citations (Scopus)

• Nonproteinaceous effectors: the terra incognita of plant-fungal interactions.

  Collemare, J., O'Connell, R. J. & Lebrun, M-H., 09 Mar 2019, In: New Phytologist.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access
  65 Citations (Scopus)

• Population genome sequencing of the scab fungal species Venturia inaequalis, Venturia pirina, Venturia aucupariae and Venturia asperata

  Le Cam, B., Sargent, D., Gouzy, J., Amselem, J., Bellanger, M. N., Bouchez, O., Brown, S., Caffier, V., De Gracia, M., Debuchy, R., Duvaux, L., Payen, T., Sannier, M., Shiller, J., Collemare, J. & Lemaire, C., 01 Aug 2019, In: G3: Genes, Genomes, Genetics. 9, 8, p. 2405-2414 10 p.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • DNA Transposable Elements 100%
  • AT Rich Sequence 79%
  • Genome 52%
  • Sorbus 49%
  • Single Nucleotide Polymorphism 43%
  28 Citations (Scopus)

• The High-Quality Complete Genome Sequence of the Opportunistic Fungal Pathogen Candida vulturna CBS 14366T

  Navarro-Muñoz, J. C., de Jong, A. W., Gerrits van den Ende, B., Haas, P-J., Then, E. R., Mohd Tap, R., Collemare, J. & Hagen, F., Dec 2019, In: Mycopathologia. 184, 6, p. 731-734 4 p.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access

  • Candida 100%
  • Genome 62%
  • pathogens 54%
  • genome 50%
  13 Citations (Scopus)
• 2018

  Assignment of a dubious gene cluster to melanin biosynthesis in the tomato fungal pathogen Cladosporium fulvum

  Collemare, J., 31 Dec 2018, In: PLoS One.

  Research output: Contribution to journal/periodical › Article › Scientific › peer-review

  Open Access
  16 Citations (Scopus)