Liu Xun, Liang Xinmin, Han Jing, Cui Yuqin, Lei Mengting, Wang Bo, Jia Dinghong, Peng Weihong, He Xiaolan
Sichuan Institute of Edible Fungi, Sichuan Academy of Agricultural Sciences, Chengdu, 610066, Sichuan, China.
Key Laboratory of Coarse Cereal Processing, Ministry of Agriculture and Rural Affairs, College of Food and Biological Engineering, Chengdu University, Chengdu, 610106, Sichuan, China.
BMC Genomics. 2025 Apr 7;26(1):346. doi: 10.1186/s12864-025-11555-4.
The CYP450 family members have been extensively studied in plants, where they play essential roles in metabolism, responses to biotic and abiotic stresses, and the regulation of growth and development. However, their functions in edible fungi remain largely unexplored. Flammulina filiformis, an economically important mushroom, lacks a comprehensive analysis of its CYP450 genes. Therefore, this study aims to identify and characterize the CYP450 gene family in F. filiformis at the genome-wide level, investigate their expression patterns, and explore their potential biological functions, providing valuable insights into their roles in fungal growth and adaptation.
In this study, 59 CYP450 genes, categorizing into 6 distinct clades, were identified within the genome of F. filiformis. Subcellular localization predictions suggested that the majority of these CYP450 genes are located in the endomembrane system. These 59 genes were distributed randomly across 12 chromosomes. Gene duplication analysis revealed the presence of 3 pairs of tandem repeats and 3 pairs of segmental repeat genes. Transcriptomic analysis revealed 861 differentially expressed genes (DEGs) in ML compared with M, and 3208 DEGs in P compared with ML. The 'oxidoreductase activity' category was significantly enriched in the ML vs. M and P vs. ML comparisons, with CYP450 genes being predominantly represented among the DEGs. Transcriptional expression analysis demonstrated that 4 genes exhibited the highest expression levels in the M sample, 6 genes in the ML sample, and 10 genes in the primordium. Furthermore, quantitative real-time PCR (qRT-PCR) analysis revealed that 11 genes, including HNY6_9861, HNY6_4590, HNY6_1561, HNY6_281, HNY6_12367, HNY6_8704, HNY6_9581, HNY6_8517, HNY6_11881, HNY6_9098 and HNY6_5841, exhibited an increasing trend in expression levels across the lower, middle and upper parts of the stipe in both white and yellow strains. This suggests that CYP450 genes may involved in the elongation of the stipe of F. filiformis.
These results provide a foundation for further exploration of the molecular evolution mechanism and potential functions of the CYP450 genes of F. filiformis in the regulation of growth and development.
细胞色素P450（CYP450）家族成员在植物中已得到广泛研究，它们在新陈代谢、对生物和非生物胁迫的响应以及生长发育的调控中发挥着重要作用。然而，它们在食用菌中的功能在很大程度上仍未被探索。金针菇是一种具有重要经济价值的蘑菇，其CYP450基因缺乏全面分析。因此，本研究旨在在全基因组水平上鉴定和表征金针菇的CYP450基因家族，研究它们的表达模式，并探索它们潜在的生物学功能，为其在真菌生长和适应中的作用提供有价值的见解。
在本研究中，在金针菇基因组中鉴定出59个CYP450基因，分为6个不同的进化枝。亚细胞定位预测表明，这些CYP450基因中的大多数位于内膜系统中。这59个基因随机分布在12条染色体上。基因重复分析显示存在3对串联重复基因和3对片段重复基因。转录组分析显示，与M相比，ML中有861个差异表达基因（DEG），与ML相比，P中有3208个DEG。在ML与M以及P与ML的比较中，“氧化还原酶活性”类别显著富集，DEG中主要是CYP450基因。转录表达分析表明，4个基因在M样本中表达水平最高，6个基因在ML样本中表达水平最高，10个基因在原基中表达水平最高。此外，定量实时PCR（qRT-PCR）分析显示，包括HNY6_9861、HNY6_4590、HNY6_1561、HNY6_281、HNY6_12367、HNY6_8704、HNY6_9581、HNY6_8517、HNY6_11881、HNY6_9098和HNY6_5841在内的11个基因在白色和黄色菌株菌柄的下部、中部和上部表达水平均呈上升趋势。这表明CYP450基因可能参与金针菇菌柄的伸长。
这些结果为进一步探索金针菇CYP450基因在生长发育调控中的分子进化机制和潜在功能提供了基础。
