Rosolen Rafaela Rossi, Aono Alexandre Hild, Almeida Déborah Aires, Ferreira Filho Jaire Alves, Horta Maria Augusta Crivelente, De Souza Anete Pereira
Center for Molecular Biology and Genetic Engineering (CBMEG), University of Campinas (UNICAMP), Campinas, Brazil.
Graduate Program in Genetics and Molecular Biology, Institute of Biology, University of Campinas (UNICAMP), Campinas, Brazil.
Front Genet. 2022 Feb 24;13:807243. doi: 10.3389/fgene.2022.807243. eCollection 2022.
whose gene expression is tightly controlled by the transcription factors (TFs) XYR1 and CRE1, is a potential candidate for hydrolytic enzyme production. Here, we performed a network analysis of IOC-3844 and CBMAI-0179 to explore how the regulation of these TFs varies between these strains. In addition, we explored the evolutionary relationships of XYR1 and CRE1 protein sequences among spp. The results of the strains were compared with those of CBMAI-0020, a mycoparasitic species. Although transcripts encoding carbohydrate-active enzymes (CAZymes), TFs, transporters, and proteins with unknown functions were coexpressed with or , other proteins indirectly related to cellulose degradation were identified. The enriched GO terms describing the transcripts of these groups differed across all strains, and several metabolic pathways with high similarity between both regulators but strain-specific differences were identified. In addition, the CRE1 and XYR1 subnetworks presented different topology profiles in each strain, likely indicating differences in the influences of these regulators according to the fungi. The hubs of the and groups included transcripts not yet characterized or described as being related to cellulose degradation. The first-neighbor analyses confirmed the results of the profile of the coexpressed transcripts in and . The analyses of the shortest paths revealed that CAZymes upregulated under cellulose degradation conditions are most closely related to both regulators, and new targets between such signaling pathways were discovered. Although the evaluated strains are phylogenetically close and their amino acid sequences related to XYR1 and CRE1 are very similar, the set of transcripts related to and differed, suggesting that each strain used a specific regulation strategy for cellulose degradation. More interestingly, our findings may suggest that XYR1 and CRE1 indirectly regulate genes encoding proteins related to cellulose degradation in the evaluated strains. An improved understanding of the basic biology of fungi during the cellulose degradation process can contribute to the use of their enzymes in several biotechnological applications and pave the way for further studies on the differences across strains of the same species.
其基因表达受转录因子XYR1和CRE1严格控制，是水解酶生产的潜在候选者。在此，我们对IOC - 3844和CBMAI - 0179进行了网络分析，以探究这些转录因子在这些菌株之间的调控差异。此外，我们还探究了木霉属物种中XYR1和CRE1蛋白序列的进化关系。将这些菌株的结果与一种真菌寄生物种CBMAI - 0020的结果进行了比较。尽管编码碳水化合物活性酶（CAZyme）、转录因子、转运蛋白和功能未知的蛋白质的转录本与XYR1或CRE1共表达，但也鉴定出了其他与纤维素降解间接相关的蛋白质。描述这些组转录本的富集基因本体（GO）术语在所有菌株中各不相同，并且鉴定出了两种调节因子之间具有高度相似性但存在菌株特异性差异的几种代谢途径。此外，CRE1和XYR1子网络在每个菌株中呈现出不同的拓扑结构特征，这可能表明这些调节因子根据真菌的不同而产生的影响存在差异。XYR1和CRE1组的中心包括尚未表征或描述为与纤维素降解相关的转录本。一阶邻域分析证实了XYR1和CRE1中共表达转录本图谱的结果。最短路径分析表明，在纤维素降解条件下上调的CAZyme与两种调节因子关系最为密切，并且发现了此类信号通路之间的新靶点。尽管所评估的木霉属菌株在系统发育上相近，且与XYR1和CRE1相关的氨基酸序列非常相似，但与XYR1和CRE1相关的转录本集却有所不同，这表明每个木霉属菌株在纤维素降解方面采用了特定的调控策略。更有趣的是，我们的发现可能表明XYR1和CRE1在评估的木霉属菌株中间接调节编码与纤维素降解相关蛋白质的基因。深入了解真菌在纤维素降解过程中的基础生物学特性，有助于在多种生物技术应用中利用它们的酶，并为进一步研究同一物种不同菌株之间的差异铺平道路。
