Rosolen Rafaela Rossi, Horta Maria Augusta Crivelente, de Azevedo Paulo Henrique Campiteli, da Silva Carla Cristina, Sforca Danilo Augusto, Goldman Gustavo Henrique, de Souza Anete Pereira
Center for Molecular Biology and Genetic Engineering (CBMEG), University of Campinas (UNICAMP), Cidade Universitária Zeferino Vaz, Campinas, SP, Brazil.
Graduate Program in Genetics and Molecular Biology, Institute of Biology, UNICAMP, Campinas, SP, Brazil.
Mol Genet Genomics. 2023 May;298(3):735-754. doi: 10.1007/s00438-023-02013-5. Epub 2023 Apr 5.
Trichoderma atroviride and Trichoderma harzianum are widely used as commercial biocontrol agents against plant diseases. Recently, T. harzianum IOC-3844 (Th3844) and T. harzianum CBMAI-0179 (Th0179) demonstrated great potential in the enzymatic conversion of lignocellulose into fermentable sugars. Herein, we performed whole-genome sequencing and assembly of the Th3844 and Th0179 strains. To assess the genetic diversity within the genus Trichoderma, the results of both strains were compared with strains of T. atroviride CBMAI-00020 (Ta0020) and T. reesei CBMAI-0711 (Tr0711). The sequencing coverage value of all genomes evaluated in this study was higher than that of previously reported genomes for the same species of Trichoderma. The resulting assembly revealed total lengths of 40 Mb (Th3844), 39 Mb (Th0179), 36 Mb (Ta0020), and 32 Mb (Tr0711). A genome-wide phylogenetic analysis provided details on the relationships of the newly sequenced species with other Trichoderma species. Structural variants revealed genomic rearrangements among Th3844, Th0179, Ta0020, and Tr0711 relative to the T. reesei QM6a reference genome and showed the functional effects of such variants. In conclusion, the findings presented herein allow the visualization of genetic diversity in the evaluated strains and offer opportunities to explore such fungal genomes in future biotechnological and industrial applications.
深绿木霉和哈茨木霉被广泛用作防治植物病害的商业生物防治剂。最近，哈茨木霉IOC - 3844（Th3844）和哈茨木霉CBMAI - 0179（Th0179）在将木质纤维素酶促转化为可发酵糖方面显示出巨大潜力。在此，我们对Th3844和Th0179菌株进行了全基因组测序和组装。为了评估木霉属内的遗传多样性，将这两个菌株的结果与深绿木霉CBMAI - 00020（Ta0020）和里氏木霉CBMAI - 0711（Tr0711）的菌株进行了比较。本研究中评估的所有基因组的测序覆盖值均高于先前报道的相同木霉物种的基因组。所得组装结果显示，Th3844的总长度为40 Mb，Th0179为39 Mb，Ta0020为36 Mb，Tr0711为32 Mb。全基因组系统发育分析提供了新测序物种与其他木霉物种之间关系的详细信息。结构变异揭示了Th3844、Th0179、Ta0020和Tr0711相对于里氏木霉QM6a参考基因组的基因组重排，并显示了此类变异的功能效应。总之，本文提出的研究结果使我们能够直观地看到所评估菌株中的遗传多样性，并为未来生物技术和工业应用中探索此类真菌基因组提供了机会。
