Nybo J L, Vesth T C, Theobald S, Frisvad J C, Larsen T O, Kjaerboelling I, Rothschild-Mancinelli K, Lyhne E K, Barry K, Clum A, Yoshinaga Y, Ledsgaard L, Daum C, Lipzen A, Kuo A, Riley R, Mondo S, LaButti K, Haridas S, Pangalinan J, Salamov A A, Simmons B A, Magnuson J K, Chen J, Drula E, Henrissat B, Wiebenga A, Lubbers R J M, Müller A, Dos Santos Gomes A C, Mäkelä M R, Stajich J E, Grigoriev I V, Mortensen U H, de Vries R P, Baker S E, Andersen M R
Department of Biotechnology and Biomedicine, Technical University of Denmark, Kgs. Lyngby, Denmark.
Current address: Novonesis A/S, Bagsværd, Denmark.
Stud Mycol. 2025 Jun;111:101-114. doi: 10.3114/sim.2025.111.03. Epub 2025 Mar 5.
The genus is diverse, including species of industrial importance, human pathogens, plant pests, and model organisms. includes species from sections and , which until recently were joined in section , but have now been proposed to be non-monophyletic and were split by section and . To learn more about these sections, we have sequenced the genomes of 13 species from section (, and ), section ( and ), and section (, previously ). We compared these genomes with 16 additional species from to explore their genetic diversity, based on their genome content, repeat-induced point mutations (RIPs), transposable elements, carbohydrate-active enzyme (CAZyme) profile, growth on plant polysaccharides, and secondary metabolite gene clusters (SMGCs). All analyses support the split of section and provide additional insights: Analyses of genes found only in single species show that these constitute genes which appear to be involved in adaptation to new carbon sources, regulation to fit new niches, and bioactive compounds for competitive advantages, suggesting that these support species differentiation in species. Sections and have mainly unique SMGCs. Section contains very large and information-rich genomes, an expansion partially driven by CAZymes, as section contains the most CAZyme-rich species seen in genus . Section is clearly an underutilized source of plant biomass degraders and shows great potential as industrial enzyme producers. Nybo JL, Vesth TC, Theobald S, Frisvad JC, Larsen TO, Kjaerboelling I, Rothschild-Mancinelli K, Lyhne EK, Barry K, Clum A, Yoshinaga Y, Ledsgaard L, Daum C, Lipzen A, Kuo A, Riley R, Mondo S, LaButti K, Haridas S, Pangalinan J, Salamov AA, Simmons BA, Magnuson JK, Chen J, Drula E, Henrissat B, Wiebenga A, Lubbers RJM, Müller A, dos Santos Gomes AC, Mäkelä MR, Stajich JE, Grigoriev IV, Mortensen UH, de Vries RP, Baker SE, Andersen MR (2025). Section-level genome sequencing and comparative genomics of sections and . : 101-114. doi: 10.3114/sim.2025.111.03.
该属具有多样性,包括具有工业重要性的物种、人类病原体、植物害虫和模式生物。它包括来自A和B组的物种,直到最近它们还合并在C组中,但现在有人提出它们不是单系的,并被D组和E组分开。为了更多地了解这些组,我们对来自A组(A、B和C)、B组(D和E)和C组(F,以前为G)的13个物种的基因组进行了测序。我们将这些基因组与另外16个来自该属的物种进行比较,以基于它们的基因组内容、重复诱导点突变(RIPs)、转座元件、碳水化合物活性酶(CAZyme)谱、在植物多糖上的生长以及次生代谢物基因簇(SMGCs)来探索它们的遗传多样性。所有分析都支持C组的分裂,并提供了更多见解:对仅在单个物种中发现的基因的分析表明,这些基因似乎参与了对新碳源的适应、适应新生态位的调节以及具有竞争优势的生物活性化合物的合成,这表明这些基因支持该属物种的分化。A组和B组主要具有独特的SMGCs。C组包含非常大且信息丰富的基因组,这种扩张部分由CAZyme驱动,因为C组包含该属中CAZyme最丰富的物种。C组显然是植物生物质降解酶未得到充分利用的来源,并且作为工业酶生产者具有巨大潜力。 Nybo JL、Vesth TC、Theobald S、Frisvad JC、Larsen TO、Kjaerboelling I、Rothschild-Mancinelli K、Lyhne EK、Barry K、Clum A、Yoshinaga Y、Ledsgaard L、Daum C、Lipzen A、Kuo A、Riley R、Mondo S、LaButti K、Haridas S、Pangalinan J、Salamov AA、Simmons BA、Magnuson JK、Chen J、Drula E、Henrissat B、Wiebenga A、Lubbers RJM、Müller A、dos Santos Gomes AC、Mäkelä MR、Stajich JE、Grigoriev IV、Mortensen UH、de Vries RP、Baker SE、Andersen MR(2025年)。A、B和C组的组水平基因组测序和比较基因组学。《系统与应用微生物学》:101 - 114。doi: 10.3114/sim.2025.111.03 。