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Integration of ATAC-Seq and RNA-Seq Identifies Key Genes in Light-Induced Primordia Formation of Sparassis latifolia

Summary

Researchers studied how light triggers the formation of mushroom fruiting bodies in Sparassis latifolia using advanced molecular techniques. They identified 30 key genes that become more or less active during this light-induced transformation, particularly those involved in vitamin and amino acid metabolism. The genes identified are associated with pathways that help convert simple fungal threads into the complex mushroom structures we eat. These findings could help improve mushroom cultivation methods and deepen our understanding of how mushrooms develop.

Background

Light is an essential environmental factor for Sparassis latifolia primordia formation, but the molecular mechanisms remain unclear. Previous studies identified light-responsive genes but lacked comprehensive analysis of chromatin accessibility changes. This study represents the first integrative analysis of ATAC-seq and RNA-seq technology in macro-fungi.

Objective

To identify key genes and pathways involved in light-induced primordia formation in S. latifolia by integrating ATAC-seq and RNA-seq data. The goal was to determine how chromatin accessibility changes correlate with gene expression changes during the transition from mycelium to primordia.

Results

Integration identified 30 differentially expressed genes (17 up-regulated, 13 down-regulated) common to both L vs. D and P vs. D comparisons. GO analysis revealed enrichment in metabolic processes including cysteine biosynthesis, vitamin B6 catabolism, and glycine metabolism. KEGG analysis associated genes with vitamin B6, selenocompound, and cysteine/methionine metabolism pathways.

Conclusion

Key genes and pathways regulating light-induced primordia formation in S. latifolia were identified through integrated ATAC-seq and RNA-seq analysis. These findings provide new insights into environmental response mechanisms and primordia formation in edible and medicinal fungi, with potential applications for cultivation optimization.
  • Published in:International Journal of Molecular Sciences,
  • Study Type:Genomic Analysis Study,
  • Source: PMID: 31888059, DOI: 10.3390/ijms21010185
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