Articles

Class-II dihydroorotate dehydrogenases from three phylogenetically distant fungi support anaerobic pyrimidine biosynthesis

In most fungi, quinone-dependent Class-II dihydroorotate dehydrogenases (DHODs) are essential for pyrimidine biosynthesis. Coupling of these Class-II DHODHs to mitochondrial respiration makes their in vivo act...

Authors: Jonna Bouwknegt, Charlotte C. Koster, Aurin M. Vos, Raúl A. Ortiz-Merino, Mats Wassink, Marijke A. H. Luttik, Marcel van den Broek, Peter L. Hagedoorn and Jack T. Pronk

Expanding the toolbox: another auxotrophic marker for targeted gene integrations in Trichoderma reesei

The filamentous ascomycete Trichoderma reesei is used for the industrial production of cellulases and holds the promise for heterologous gene expression due to its outstandingly high protein secretion rates and i...

Authors: Paul Primerano, Melani Juric, Robert Mach, Astrid Mach-Aigner and Christian Derntl

Understanding and controlling filamentous growth of fungal cell factories: novel tools and opportunities for targeted morphology engineering

Filamentous fungal cell factories are efficient producers of platform chemicals, proteins, enzymes and natural products. Stirred-tank bioreactors up to a scale of several hundred m³ are commonly used for their...

Authors: Vera Meyer, Timothy Cairns, Lars Barthel, Rudibert King, Philipp Kunz, Stefan Schmideder, Henri Müller, Heiko Briesen, Anna Dinius and Rainer Krull

Retraction Note to: Fungal sensing skin

This article has been retracted. Please see the Retraction Notice for more detail: https://doi.org/10.1186/s40694-021-00114-7

Authors: Andrew Adamatzky, Antoni Gandia and Alessandro Chiolerio

Towards fungal sensing skin

A fungal skin is a thin flexible sheet of a living homogeneous mycelium made by a filamentous fungus. The skin could be used in future living architectures of adaptive buildings and as a sensing living skin fo...

Authors: Andrew Adamatzky, Antoni Gandia and Alessandro Chiolerio

An approach to change the basic polymer composition of the milled Fomes fomentarius fruiting bodies

Chitin and its derivative chitosan are readily exploited, especially in food, cosmetic, pharmaceutical, biomedical, chemical, and textile industries. The biopolymers are currently recovered from the crustacean...

Authors: Liudmila Kalitukha

Preservation stress resistance of melanin deficient conidia from Paecilomyces variotii and Penicillium roqueforti mutants generated via CRISPR/Cas9 genome editing

The filamentous fungi Paecilomyces variotii and Penicillium roqueforti are prevalent food spoilers and are of interest as potential future cell factories. A functional CRISPR/Cas9 genome editing system would be b...

Authors: Sjoerd J. Seekles, Pepijn P. P. Teunisse, Maarten Punt, Tom van den Brule, Jan Dijksterhuis, Jos Houbraken, Han A. B. Wösten and Arthur F. J. Ram

RETRACTED ARTICLE: Fungal sensing skin

A fungal skin is a thin flexible sheet of a living homogeneous mycelium made by a filamentous fungus. The skin could be used in future living architectures of adaptive buildings and as a sensing living skin fo...

Authors: Andrew Adamatzky, Antoni Gandia and Alessandro Chiolerio

A fully automated pipeline for the dynamic at‐line morphology analysis of microscale Aspergillus cultivation

Morphology, being one of the key factors influencing productivity of filamentous fungi, is of great interest during bioprocess development. With increasing demand of high-throughput phenotyping technologies fo...

Authors: Roman Jansen, Kira Küsters, Holger Morschett, Wolfgang Wiechert and Marco Oldiges

Optimization of scleroglucan production by Sclerotium rolfsii by lowering pH during fermentation via oxalate metabolic pathway manipulation using CRISPR/Cas9

Sclerotium rolfsii is a potent producer of many secondary metabolites, one of which like scleroglucan is an exopolysaccharide (EPS) appreciated as a multipurpose compound applicable in many industrial fields.

Authors: Tianlong Bai, Teng Wang, Yan Li, Na L. Gao, Lixin Zhang, Wei-Hua Chen and Xiushan Yin

The fungal sexual revolution continues: discovery of sexual development in members of the genus Aspergillus and its consequences

Asexuality was considered to be a common feature of a large part of fungi, including those of the genus Aspergillus. However, recent advances and the available genomic and genetic engineering technologies allowed...

Authors: Valeria Ellena, Michael Sauer and Matthias G. Steiger

Recent advances in the intellectual property landscape of filamentous fungi

For centuries, filamentous fungi have been used in the making of food and beverages, and for decades for the production of enzymes and pharmaceuticals. In the last decades, the intellectual property (IP) lands...

Authors: Silvia Hüttner, Anton Johansson, Paulo Gonçalves Teixeira, Puck Achterberg and Ramkumar B. Nair

Selection markers for transformation of the sequenced reference monokaryon Okayama 7/#130 and homokaryon AmutBmut of Coprinopsis cinerea

Two reference strains have been sequenced from the mushroom Coprinopsis cinerea, monokaryon Okayama 7/#130 (OK130) and the self-compatible homokaryon AmutBmut. An adenine-auxotrophy in OK130 (ade8-1) and a para-a...

Authors: Bastian Dörnte, Can Peng, Zemin Fang, Aysha Kamran, Cut Yulvizar and Ursula Kües

Fungal research in Japan: tradition and future

Authors: Norio Takeshita

Extracellular vesicles from the apoplastic fungal wheat pathogen Zymoseptoria tritici

The fungal pathogen Zymoseptoria tritici is a significant constraint to wheat production in temperate cropping regions around the world. Despite its agronomic impacts, the mechanisms allowing the pathogen to asym...

Authors: Erin H. Hill and Peter S. Solomon

Application of the human estrogen receptor within a synthetic transcription factor in Trichoderma reesei

Synthetic gene expression systems offer a possibility for controllable and targeted induction of the expression of genes of interest, which is a fundamental technique necessary for basic research and industria...

Authors: Christian Derntl, Robert Mach and Astrid Mach-Aigner

Peptides derived from Kex2-processed repeat proteins are widely distributed and highly diverse in the Fungi kingdom

Recently, a gene cluster responsible for biosynthesis of ustiloxin in Aspergillus flavus was identified as the first case of a ribosomally synthesized and post-translationally modified peptide (RiPP) synthetic pa...

Authors: Maiko Umemura

The mechanisms of hyphal pellet formation mediated by polysaccharides, α-1,3-glucan and galactosaminogalactan, in Aspergillus species

Filamentous fungi are widely used for production of enzymes and chemicals, and are industrially cultivated both in liquid and solid cultures. Submerged culture is often used as liquid culture for filamentous f...

Authors: Ken Miyazawa, Akira Yoshimi and Keietsu Abe

Potentials of truffles in nutritional and medicinal applications: a review

Truffles, the symbiotic hypogeous edible fungi, have been worldwide regarded as a great delicacy because of their unique flavor and high nutritional value. By identifying their bioactive components such as phe...

Authors: Heayyean Lee, Kyungmin Nam, Zahra Zahra and Muhammad Qudrat Ullah Farooqi

Invasive growth of Aspergillus oryzae in rice koji and increase of nuclear number

‘Rice koji’ is a solid culture of Aspergillus oryzae on steamed rice grains. Multiple parallel fermentation, wherein saccharification of rice by A. oryzae and alcohol fermentation by the budding yeast occur simul...

Authors: Mizuki Yasui, Ken Oda, Shunsuke Masuo, Shuji Hosoda, Takuya Katayama, Jun-ichi Maruyama, Naoki Takaya and Norio Takeshita

Functional production of human antibody by the filamentous fungus Aspergillus oryzae

Monoclonal antibodies (mAbs) as biopharmaceuticals take a pivotal role in the current therapeutic applications. Generally mammalian cell lines, such as those derived from Chinese hamster ovaries (CHO), are use...

Authors: Hung Hiep Huynh, Naoki Morita, Toshihiro Sakamoto, Takuya Katayama, Takuya Miyakawa, Masaru Tanokura, Yasunori Chiba, Reiko Shinkura and Jun-ichi Maruyama

Transport systems, intracellular traffic of intermediates and secretion of β-lactam antibiotics in fungi

Fungal secondary metabolites are synthesized by complex biosynthetic pathways catalized by enzymes located in different subcellular compartments, thus requiring traffic of precursors and intermediates between ...

Authors: Juan F. Martín

Growing a circular economy with fungal biotechnology: a white paper

Fungi have the ability to transform organic materials into a rich and diverse set of useful products and provide distinct opportunities for tackling the urgent challenges before all humans. Fungal biotechnolog...

Authors: Vera Meyer, Evelina Y. Basenko, J. Philipp Benz, Gerhard H. Braus, Mark X. Caddick, Michael Csukai, Ronald P. de Vries, Drew Endy, Jens C. Frisvad, Nina Gunde-Cimerman, Thomas Haarmann, Yitzhak Hadar, Kim Hansen, Robert I. Johnson, Nancy P. Keller, Nada Kraševec…

Assessing the efficacy of CRISPR/Cas9 genome editing in the wheat pathogen Parastagonspora nodorum

The genome-editing tool CRISPR/Cas9 has revolutionized gene manipulation by providing an efficient method to generate targeted mutations. This technique deploys the Cas9 endonuclease and a guide RNA (sgRNA) wh...

Authors: Haseena Khan, Megan C. McDonald, Simon J. Williams and Peter S. Solomon

Promoter tools for further development of Aspergillus oryzae as a platform for fungal secondary metabolite production

The filamentous fungus Aspergillus oryzae is widely used for secondary metabolite production by heterologous expression; thus, a wide variety of promoter tools is necessary to broaden the application of this spec...

Authors: Maiko Umemura, Kaoru Kuriiwa, Linh Viet Dao, Tetsuya Okuda and Goro Terai

Enabling community-based metrology for wood-degrading fungi

Lignocellulosic biomass could support a greatly-expanded bioeconomy. Current strategies for using biomass typically rely on single-cell organisms and extensive ancillary equipment to produce precursors for dow...

Authors: Rolando Perez, Marina Luccioni, Rohinton Kamakaka, Samuel Clamons, Nathaniel Gaut, Finn Stirling, Katarzyna P. Adamala, Pamela A. Silver and Drew Endy

Towards a better understanding of the role of nectar-inhabiting yeasts in plant–animal interactions

Flowers offer a wide variety of substrates suitable for fungal growth. However, the mycological study of flowers has only recently begun to be systematically addressed from an ecological point of view. Most re...

Authors: Joon Klaps, Bart Lievens and Sergio Álvarez-Pérez

Evaluation of synthetic formaldehyde and methanol assimilation pathways in Yarrowia lipolytica

Crude glycerol coming from biodiesel production is an attractive carbon source for biological production of chemicals. The major impurity in preparations of crude glycerol is methanol, which is toxic for most ...

Authors: Eija Vartiainen, Peter Blomberg, Marja Ilmén, Martina Andberg, Mervi Toivari and Merja Penttilä

Correction to: Functional exploration of co-expression networks identifies a nexus for modulating protein and citric acid titres in Aspergillus niger submerged culture

Following publication of the original article [1], the authors provided revised images for Figs. 4, 6 and 7 which were not processed by the typesetter during proof-correction stage. The corrected figures are g...

Authors: Timothy C. Cairns, Claudia Feurstein, Xiaomei Zheng, Li Hui Zhang, Ping Zheng, Jibin Sun and Vera Meyer

A new vector system for targeted integration and overexpression of genes in the crop pathogen Fusarium solani

Besides their ability to produce several interesting bioactive secondary metabolites, members of the Fusarium solani species complex comprise important pathogens of plants and humans. One of the major obstacles i...

Authors: Mikkel Rank Nielsen, Anna Karolina Rilana Holzwarth, Emmett Brew, Natalia Chrapkova, Samba Evelyne Kabemba Kaniki, Kenneth Kastaniegaard, Trine Sørensen, Klaus Ringsborg Westphal, Reinhard Wimmer, Teis Esben Sondergaard and Jens Laurids Sørensen

Bidirectional histone-gene promoters in Aspergillus: characterization and application for multi-gene expression

Filamentous fungi are important producers of enzymes and bioactive secondary metabolites and are exploited for industrial purposes. Expression and characterization of biosynthetic pathways requires stable expr...

Authors: Jakob K. H. Rendsvig, Christopher T. Workman and Jakob B. Hoof

On mycohuman performances: fungi in current artistic research

This review reflects several artists and their artistic research in the field of hybrid art, bio art, or science art, working with Fungi as both subject matter and medium. The work of Saša Spačal, Tarsh Bates ...

Authors: Regine Rapp

Interaction between arbuscular mycorrhizal fungi and Bacillus spp. in soil enhancing growth of crop plants

Soil microorganisms play an important role in enhancing soil fertility and plant health. Arbuscular mycorrhizal fungi and plant growth promoting rhizobacteria form a key component of the soil microbial populat...

Authors: Anuroopa Nanjundappa, Davis Joseph Bagyaraj, Anil Kumar Saxena, Murugan Kumar and Hillol Chakdar

Identification of novel citramalate biosynthesis pathways in Aspergillus niger

The filamentous fungus Aspergillus niger is frequently used for industrial production of fermentative products such as enzymes, proteins and biochemicals. Notable examples of industrially produced A. niger fermen...

Authors: Abeer H. Hossain, Aiko Hendrikx and Peter J. Punt

Dissecting cellobiose metabolic pathway and its application in biorefinery through consolidated bioprocessing in Myceliophthora thermophila

Lignocellulosic biomass has long been recognized as a potential sustainable source for industrial applications. The costs associated with conversion of plant biomass to fermentable sugar represent a significan...

Authors: Jingen Li, Shuying Gu, Zhen Zhao, Bingchen Chen, Qian Liu, Tao Sun, Wenliang Sun and Chaoguang Tian

Correction to: Practical guidance for the implementation of the CRISPR genome editing tool in filamentous fungi

Following publication of the original article [1], the authors reported that Table 5 was missing in the published version, although it was originally submitted and reviewed along with the rest of the manuscrip...

Authors: Min Jin Kwon, Tabea Schütze, Sebastian Spohner, Stefan Haefner and Vera Meyer

Functional exploration of co-expression networks identifies a nexus for modulating protein and citric acid titres in Aspergillus niger submerged culture

Filamentous fungal cell factories are used to produce numerous proteins, enzymes, and organic acids. Protein secretion and filamentous growth are tightly coupled at the hyphal tip. Additionally, both these pro...

Authors: Timothy C. Cairns, Claudia Feurstein, Xiaomei Zheng, Li Hui Zhang, Ping Zheng, Jibin Sun and Vera Meyer

Fungi as source for new bio-based materials: a patent review

The circular economy closes loops in industrial manufacturing processes and minimizes waste. A bio-based economy aims to replace fossil-based resources and processes by sustainable alternatives which exploits ...

Authors: Kustrim Cerimi, Kerem Can Akkaya, Carsten Pohl, Bertram Schmidt and Peter Neubauer

Deletion of the small GTPase rac1 in Trichoderma reesei provokes hyperbranching and impacts growth and cellulase production

Trichoderma reesei is widely known for its enormous protein secretion capacity and as an industrially relevant producer of cellulases and hemicellulases. Over the last decades, rational strain engineering was app...

Authors: Elisabeth Fitz, Christian Gamauf, Bernhard Seiboth and Franziska Wanka

Practical guidance for the implementation of the CRISPR genome editing tool in filamentous fungi

Within the last years, numerous reports described successful application of the CRISPR nucleases Cas9 and Cpf1 for genome editing in filamentous fungi. However, still a lot of efforts are invested to develop a...

Authors: Min Jin Kwon, Tabea Schütze, Sebastian Spohner, Stefan Haefner and Vera Meyer

Draft genome sequence of fastidious pathogen Ceratobasidium theobromae, which causes vascular-streak dieback in Theobroma cacao

Ceratobasidium theobromae, a member of the Ceratobasidiaceae family, is the causal agent of vascular-streak dieback (VSD) of cacao, a major threat to the chocolate industry in the South-East Asia. The fastidious ...

Authors: Shahin S. Ali, Asman Asman, Jonathan Shao, Amanda P. Firmansyah, Agung W. Susilo, Ade Rosmana, Peter McMahon, Muhammad Junaid, David Guest, Tee Yei Kheng, Lyndel W. Meinhardt and Bryan A. Bailey

Efficient marker free CRISPR/Cas9 genome editing for functional analysis of gene families in filamentous fungi

CRISPR/Cas9 mediated genome editing has expedited the way of constructing multiple gene alterations in filamentous fungi, whereas traditional methods are time-consuming and can be of mutagenic nature. These de...

Authors: Tim M. van Leeuwe, Mark Arentshorst, Tim Ernst, Ebru Alazi, Peter J. Punt and Arthur F. J. Ram

The role of PKAc1 in gene regulation and trichodimerol production in Trichoderma reesei

Trichoderma reesei represents a model system for investigation of plant cell wall degradation and its connection to light response. The cyclic adenosine monophosphate pathway (cAMP pathway) plays an important rol...

Authors: Wolfgang Hinterdobler, André Schuster, Doris Tisch, Ezgi Özkan, Hoda Bazafkan, Johann Schinnerl, Lothar Brecker, Stefan Böhmdorfer and Monika Schmoll

A closer look at Aspergillus: online monitoring via scattered light enables reproducible phenotyping

Filamentously growing microorganisms offer unique advantages for biotechnological processes, such as extraordinary secretion capacities, going along with multiple obstacles due to their complex morphology. How...

Authors: Roman P. Jansen, Carina Beuck, Matthias Moch, Bianca Klein, Kira Küsters, Holger Morschett, Wolfgang Wiechert and Marco Oldiges

Publisher Correction to: Fungal Biology and Biotechnology, volume 6

An error occurred during the publication of a number of articles in Fungal Biology and Biotechnology. Several articles were published in volume 6 with a duplicate citation number.

Authors:

The fungal gene cluster for biosynthesis of the antibacterial agent viriditoxin

Viriditoxin is one of the ‘classical’ secondary metabolites produced by fungi and that has antibacterial and other activities; however, the mechanism of its biosynthesis has remained unknown.

Authors: Andrew S. Urquhart, Jinyu Hu, Yit-Heng Chooi and Alexander Idnurm

Increasing access to microfluidics for studying fungi and other branched biological structures

Microfluidic systems are well-suited for studying mixed biological communities for improving industrial processes of fermentation, biofuel production, and pharmaceutical production. The results of which have t...

Authors: Larry J. Millet, Jayde Aufrecht, Jessy Labbé, Jessie Uehling, Rytas Vilgalys, Myka L. Estes, Cora Miquel Guennoc, Aurélie Deveau, Stefan Olsson, Gregory Bonito, Mitchel J. Doktycz and Scott T. Retterer

A protoplast generation and transformation method for soybean sudden death syndrome causal agents Fusarium virguliforme and F. brasiliense

Soybean production around the globe faces significant annual yield losses due to pests and diseases. One of the most significant causes of soybean yield loss annually in the U.S. is sudden death syndrome (SDS)...

Authors: Mitchell G. Roth and Martin I. Chilvers

Cpf1 enables fast and efficient genome editing in Aspergilli

CRISPR technology has revolutionized fungal genetic engineering by increasing the speed and complexity of the experiments that can be performed. Moreover, the efficiency of the system often allows genetic engi...

Authors: Katherina Garcia Vanegas, Zofia Dorota Jarczynska, Tomas Strucko and Uffe Hasbro Mortensen

Merging science and art through fungi

Science and art have long been studied interchangeably, with notable polymaths emerging in the Renaissance such as Leonardo da Vinci (artist, inventor, engineer and anatomist) and Alexander von Humboldt (explo...

Authors: Vera Meyer