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Fungal Genetics and Functional Genomics Research

A special issue of International Journal of Molecular Sciences (ISSN 1422-0067). This special issue belongs to the section "Molecular Genetics and Genomics".

Deadline for manuscript submissions: 20 February 2026 | Viewed by 134

Special Issue Editors


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Guest Editor
National Glycoengineering Research Center, Shandong University, Qingdao 266237, China
Interests: fungal genetics; transcription factors; transcriptional regulation; lignocellulose-degrading enzymes; enzyme production; synthetic biology

E-Mail Website
Guest Editor
Microbial Technology Institute, Shandong Univeristy, Qingdao 266237, China
Interests: lignocellulose-degrading enzymes; enzyme production; microorganisms producing cellulases, hemicellulases, pectinases, etc., and their engineering modification; pretreatment and fractionation of lignocellulisc biomass; degradation and bioconversion of lignocellulosic biomass; lignocellulose-based sugar platforms; nanocellulose and its application; enzymatic degumming of bast fibers; functional utilization of lignocellulosic biomass
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Special Issue Information

Dear Colleagues,

Fungi, as one of the most widely distributed and functionally diverse biological groups on Earth, play key roles in ecological balance, industrial production, and human health. Fungal genetics and functional genomics research provide a theoretical foundation and technical support for the precise modification of fungal characteristics by elucidating gene functions and regulatory mechanisms. In recent years, breakthroughs in gene editing, multi-omics integration, and high-throughput functional screening have enabled researchers to efficiently explore fungal secondary metabolites, develop novel enzyme systems, optimize cellular factories, and accelerate the discovery of antifungal drug targets. These advances have significantly promoted innovative applications of fungi in biomanufacturing, pharmaceutical development, fungal biocontrol, and environmental remediation. This Special Issue focuses on progress in fungal genetics and functional genomics. We invite authors to contribute original research or review articles. Potential topics include, but are not limited to, the following areas:

  • Fungal growth, reproduction, morphogenesis, and differentiation;
  • Secondary metabolite biosynthesis;
  • Production, characteristics, and application of fungal enzymes;
  • Gene function and regulation;
  • Secretory pathways;
  • Pathogenicity and host interaction;
  • Gene editing;
  • Synthetic biology.

Prof. Dr. Yuqi Qin
Prof. Dr. Jian Zhao
Guest Editors

Manuscript Submission Information

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Keywords

  • enzymes
  • fungal genetics
  • fungi
  • gene editing
  • regulation
  • secondary metabolites
  • synthetic biology
  • transcription

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Published Papers (1 paper)

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Research

21 pages, 9436 KB  
Article
Comparative Transcriptomic Analyses Reveal Potential Stp1 Regulatory Roles Independent of Sre1 in Phaffia rhodozyma
by Marcelo Baeza, Melissa Gómez, Salvador Barahona, Maximiliano Coche-Miranda, Gabriela Apariz and Jennifer Alcaíno
Int. J. Mol. Sci. 2025, 26(24), 12008; https://doi.org/10.3390/ijms262412008 (registering DOI) - 13 Dec 2025
Abstract
Sterol regulatory element-binding proteins (SREBPs) regulate lipid homeostasis in mammals via sequential activation by the site-1 (S1P) and site-2 (S2P) proteases. In the yeast Phaffia rhodozyma, homologs of SREBP (Sre1) and S2P (Stp1) were identified, with Sre1 cleaved by Stp1 and involved [...] Read more.
Sterol regulatory element-binding proteins (SREBPs) regulate lipid homeostasis in mammals via sequential activation by the site-1 (S1P) and site-2 (S2P) proteases. In the yeast Phaffia rhodozyma, homologs of SREBP (Sre1) and S2P (Stp1) were identified, with Sre1 cleaved by Stp1 and involved in the regulation of sterol and carotenoid biosynthesis. Additional regulatory roles of S2P have been described in other organisms, but such functions remain unexplored in P. rhodozyma, a question addressed in this study. Transcriptomic analyses of Δsre1, Δstp1, and Δsre1Δstp1 mutants were performed in both wild-type and Sre1-activated conditions. Potential genes regulated by Stp1 independently of Sre1 were identified, and their cellular roles were determined by KEGG mapping and Gene Ontology classification. As expected, most transcriptional changes in Δstp1 mutants reflected Sre1-mediated regulation. Notably, a subset of genes displayed differential expression independently of Sre1. These genes were linked to diverse aspects of cellular homeostasis, including metabolism, protein folding, ER stress response, and ribosome biogenesis. The transcriptomic analysis suggests that Stp1 regulates gene expression beyond the Sre1 transcription factor in P. rhodozyma, providing a framework for future studies to confirm and further explore these functions. Full article
(This article belongs to the Special Issue Fungal Genetics and Functional Genomics Research)
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