From the bench to the reactor: engineered filamentous fungi for biochemical and biomaterial production

Subramanian, Venkataramanan; Adler, Meaghan J.; Benyamin, Marcus; Pullen, Randi M.; Servinsky, Matthew D.; Kozlowski, Mark T.; Decker, Stephen R.

doi:10.1186/s13068-025-02712-8

Title: From the bench to the reactor: engineered filamentous fungi for biochemical and biomaterial production

Journal Article · Tue Nov 18 00:00:00 UTC 2025 · Biotechnology for Biofuels and Bioproducts

DOI: https://doi.org/10.1186/s13068-025-02712-8 · OSTI ID:3014851

Subramanian, Venkataramanan ^[1]; Adler, Meaghan J. ^[2]; Benyamin, Marcus ^[2]; Pullen, Randi M. ^[2]; Servinsky, Matthew D. ^[2]; Kozlowski, Mark T. ^[2]; Decker, Stephen R. ^[1]

National Renewable Energy Laboratory (NREL), Golden, CO (United States)
Army Research Lab., Adelphi, MD (United States)

Filamentous fungi can convert a wide variety of naturally occurring chemical compounds, including organic biomass and waste streams, into a range of products. They have long been used for industrial organic acid production and food preparation. In this review, we will discuss production of products such as organic acids, lipids, small molecules, enzymes, materials, and foods, and highlight advances in metabolic and protein engineering, including CRISPR-Cas9-mediated strain improvements. We discuss to what extent these products are already being made on a commercial scale, as well as what is still required to make certain promising concepts industrially and commercially relevant. Despite significant progress, the systematic application of synthetic biology to filamentous fungi remains in its infancy, with many opportunities for discovery and innovation as new strains and genetic tools are developed. The integration of fungal biotechnology into circular and bio-based economies promises to address critical challenges in waste management, resource sustainability, and the development of new materials for terrestrial and extraterrestrial applications, but requires further developments in genetic engineering and process design.

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Research Organization:: National Laboratory of the Rockies (NLR), Golden, CO (United States)

Sponsoring Organization:: USDOE Office of Energy Efficiency and Renewable Energy (EERE), Office of Sustainable Transportation. Bioenergy Technologies Office (BETO)

Grant/Contract Number:: AC36-08GO28308

OSTI ID:: 3014851

Report Number(s):: NLR/JA--2700-90062

Journal Information:: Biotechnology for Biofuels and Bioproducts, Journal Name: Biotechnology for Biofuels and Bioproducts Journal Issue: 1 Vol. 18; ISSN 2731-3654

Publisher:: BioMed CentralCopyright Statement

Country of Publication:: United States

Language:: English

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Fungal Proteases as Emerging Biocatalysts to Meet the Current Challenges and Recent Developments in Biomedical Therapies: An Updated Review Naeem, Muhammad; Manzoor, Saba; Abid, Mashhud-Ul-Hasan Journal of Fungi, Vol. 8, Issue 2 https://doi.org/10.3390/jof8020109	journal	January 2022
Fungal Pigments: Carotenoids, Riboflavin, and Polyketides with Diverse Applications Afroz Toma, Maria; Rahman, Md. Hasibur; Rahman, Md. Saydar Journal of Fungi, Vol. 9, Issue 4 https://doi.org/10.3390/jof9040454	journal	April 2023
Native Cellulose: Structure, Characterization and Thermal Properties Poletto, Matheus; Ornaghi, Heitor; Zattera, Ademir Materials, Vol. 7, Issue 9 https://doi.org/10.3390/ma7096105	journal	August 2014
Carotenoids and Some Other Pigments from Fungi and Yeasts Rapoport, Alexander; Guzhova, Irina; Bernetti, Lorenzo Metabolites, Vol. 11, Issue 2 https://doi.org/10.3390/metabo11020092	journal	February 2021
Filamentous Fungal Human Pathogens from Food Emphasising Aspergillus, Fusarium and Mucor Paterson, R.; Lima, Nelson Microorganisms, Vol. 5, Issue 3 https://doi.org/10.3390/microorganisms5030044	journal	August 2017
Exploiting the Biosynthetic Potency of Taxol from Fungal Endophytes of Conifers Plants; Genome Mining and Metabolic Manipulation El-Sayed, Ashraf S. A.; El-Sayed, Manal T.; Rady, Amgad M. Molecules, Vol. 25, Issue 13 https://doi.org/10.3390/molecules25133000	journal	June 2020
Biomass-Derived Production of Itaconic Acid as a Building Block in Specialty Polymers Teleky, Bernadette-Emőke; Vodnar, Dan Cristian Polymers, Vol. 11, Issue 6 https://doi.org/10.3390/polym11061035	journal	June 2019
Mycelium-Based Composites in Art, Architecture, and Interior Design: A Review Sydor, Maciej; Bonenberg, Agata; Doczekalska, Beata Polymers, Vol. 14, Issue 1 https://doi.org/10.3390/polym14010145	journal	December 2021
Physico-Mechanical and Thermodynamic Properties of Mycelium-Based Biocomposites: A Review Girometta, Carolina; Picco, Anna Maria; Baiguera, Rebecca Michela Sustainability, Vol. 11, Issue 1 https://doi.org/10.3390/su11010281	journal	January 2019
Toxicity, Mitigation, and Chemical Analysis of Aflatoxins and Other Toxic Metabolites Produced by Aspergillus: A Comprehensive Review Gemede, Habtamu Fekadu Toxins, Vol. 17, Issue 7 https://doi.org/10.3390/toxins17070331	journal	June 2025
Natural products in the predatory defence of the filamentous fungal pathogen Aspergillus fumigatus Boysen, Jana M.; Saeed, Nauman; Hillmann, Falk Beilstein Journal of Organic Chemistry, Vol. 17 https://doi.org/10.3762/bjoc.17.124	journal	July 2021
Fungal Strain Improvement for Cellulase Production Using Repeated and Sequential Mutagenesis Vu, Van Hanh; Pham, Tuan Anh; Kim, Keun Mycobiology, Vol. 37, Issue 4 https://doi.org/10.4489/MYCO.2009.37.4.267	journal	January 2009
Improvement of Fungal Cellulase Production by Mutation and Optimization of Solid State Fermentation Vu, Van Hanh; Pham, Tuan Anh; Kim, Keun Mycobiology, Vol. 39, Issue 1 https://doi.org/10.4489/MYCO.2011.39.1.020	journal	January 2011
Production of Microbial Lipids from Lignocellulosic Biomass Santek, Mirela Ivancic; Beluhan, Suncica; Santek, Bozidar Advances in Biofuels and Bioenergy https://doi.org/10.5772/intechopen.74013	book	July 2018

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