Investigation of inter- and intraspecies variation through genome sequencing of Aspergillus section Nigri

作者：Tammi Vesth, Jane Lind Nybo Rasmussen, Sebastian Theobald, Jens C. Frisvad, Thomas Ostenfeld Larsen, Kristian Fog Nielsen, Jakob Blæsbjerg Hoof, Julian Brandl, Asaf Salamov, Robert W. Riley, John M. Gladden, Pallavi A. Phatale, Morten Thrane Nielsen, Ellen Kirstine Lyhne, Martin E. Kogle, Kimchi Strasser, Erin McDonnell, Kerrie Barry, Alicia Clum, Cindy Chen, Kurt M. LaButti, Sajeet Haridas, Matt Nolan, Laura Sandor, Alan Kuo, Anna Lipzen, Matthieu Hainaut, Élodie Drula, Adrian Tsang, Jon Karl Magnuson, Bernard Henrissat, Ad Wiebenga, Blake Alexander Simmons, Miia Mäkelä, Ronald P. de Vries, Igor V. Grigoriev, Uffe Hasbro Mortensen, Scott Baker, Mikael Rørdam Andersen · 发表于：Nature Genetics · 年份：2018 · DOI：10.1038/s41588-018-0246-1 · 被引用次数：239 · 研究领域：Microbial Natural Products and Biosynthesis、Genomics and Phylogenetic Studies、Fungal Biology and Applications

Aspergillus section Nigri comprises filamentous fungi relevant to biomedicine, bioenergy, health, and biotechnology. To learn more about what genetically sets these species apart, as well as about potential applications in biotechnology and biomedicine, we sequenced 23 genomes de novo, forming a full genome compendium for the section (26 species), as well as 6 Aspergillus niger isolates. This allowed us to quantify both inter- and intraspecies genomic variation. We further predicted 17,903 carbohydrate-active enzymes and 2,717 secondary metabolite gene clusters, which we condensed into 455 distinct families corresponding to compound classes, 49% of which are only found in single species. We performed metabolomics and genetic engineering to correlate genotypes to phenotypes, as demonstrated for the metabolite aurasperone, and by heterologous transfer of citrate production to Aspergillus nidulans. Experimental and computational analyses showed that both secondary metabolism and regulation are key factors that are significant in the delineation of Aspergillus species.