CNR ExploRA

Articolo in rivista, 2023, ENG, 10.1186/s43008-023-00121-w

IMA genome-F18 : The re-identification of Penicillium genomes available in NCBI and draft genomes for Penicillium species from dry cured meat, Penicillium biforme, P. brevicompactum, P. solitum, and P. cvjetkovicii, Pewenomyces kutranfy, Pew. lalenivora, Pew. tapulicola, Pew. kalosus, Teratosphaeria carnegiei, and Trichoderma atroviride SC1

Cobus M Visagie 1 , Donato Magistà 2 , Massimo Ferrara 2 , Felipe Balocchi 3 , Tuan A Duong 1 , Ales Eichmeier 4 , David Gramaje 4 , Janneke Aylward 1 5 , Scott E Baker 6 7 , Irene Barnes 1 , Sara Calhoun 8 , Maria De Angelis 9 , Jens C Frisvad 10 , Eliska Hakalova 11 , Richard D Hayes 8 , Jos Houbraken 12 , Igor V Grigoriev 8 13 , Kurt LaButti 8 , Catarina Leal 4 , Anna Lipzen 8 , Vivian Ng 8 , Jasmyn Pangilinan 8 , Jakub Pecenka 11 , Giancarlo Perrone 2 , Anja Piso 1 , Emily Savage 8 , Milan Spetik 11 , Michael J Wingfield 1 , Yu Zhang 8 , Brenda D Wingfield 14

1Department of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa 2Institute of Sciences of Food Production (ISPA), National Research Council (CNR), Via G. Amendola 122/O, 70126 Bari, Italy 3Mendeleum - Institute of Genetics, Mendel University in Brno, Valticka 334, 691 44 Lednice, Czech Republic 4Instituto de Ciencias de la Vid y del Vino (ICVV), Consejo Superior de Investigaciones Científicas - Universidad de la Rioja - Gobierno de La Rioja, Ctra. LO-20 Salida 13, Finca La Grajera, 26071 Logroño, Spain 5Department of Conservation Ecology and Entomology, Stellenbosch University, Matieland, Private Bag X1, Stellenbosch, 7602 South Africa 6Functional and Systems Biology Group, Environmental Molecular Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354 USA 7DOE Joint Bioenergy Institute, Emeryville, CA 94608 USA 8US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720 USA 9Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads, Building 221, 2800 Kgs Lyngby, Denmark 10Westerdijk Fungal Biodiversity Institute, Utrecht, The Netherlands 11Department of Plant and Microbial Biology, University of California Berkeley, 110 Koshland Hall, Berkeley, CA 94720 USA 12Department of Plant and Soil Sciences, FABI, University of Pretoria, Pretoria, South Africa 13Department of Soil, Plant and Food Sciences, University of Bari "Aldo Moro", Via G. Amendola 165/a, 70126 Bari, Italy Brenda D. Wingfield, Email: az.ca.pu.ibaf@dleifgniW.adnerB.

Sequencing fungal genomes has now become very common and the list of genomes in this manuscript reflects this. Particularly relevant is that the first announcement is a re-identification of Penicillium genomes available on NCBI. The fact that more than 100 of these genomes have been deposited without the correct species names speak volumes to the fact that we must continue training fungal taxonomists and the importance of the International Mycological Association (after which this journal is named). When we started the genome series in 2013, one of the essential aspects was the need to have a phylogenetic tree as part of the manuscript. This came about as the result of a discussion with colleagues in NCBI who were trying to deal with the very many incorrectly identified bacterial genomes (at the time) which had been submitted to NCBI. We are now in the same position with fungal genomes. Sequencing a fungal genome is all too easy but providing a correct species name and ensuring that the fungus has in fact been correctly identified seems to be more difficult. We know that there are thousands of fungi which have not yet been described. The availability of sequence data has made identification of fungi easier but also serves to highlight the need to have a fungal taxonomist in the project to make sure that mistakes are not made.

IMA fungus (Online)