Nonribosomal peptides in fungal cell factories: from genome mining to optimized heterologous production

Bioinformatics tools; Fungal cells; Genome mining; Heterologous production; Large gene cluster; Multi-modular enzyme; Nonribosomal peptide; Nonribosomal peptide synthetase; Secondary metabolite; Bioinformatics; Biomolecules; Biosynthesis; Genes; Metabolites; Peptides; Productivity; Screening; Gene clusters; Multi-modular; Nonribosomal peptide synthetases; Secondary metabolites; Fungi

Abstract :

[en] Fungi are notoriously prolific producers of secondary metabolites including nonribosomal peptides (NRPs). The structural complexity of NRPs grants them interesting activities such as antibiotic, anti-cancer, and anti-inflammatory properties. The discovery of these compounds with attractive activities can be achieved by using two approaches: either by screening samples originating from various environments for their biological activities, or by identifying the related clusters in genomic sequences thanks to bioinformatics tools. This genome mining approach has grown tremendously due to recent advances in genome sequencing, which have provided an incredible amount of genomic data from hundreds of microbial species. Regarding fungal organisms, the genomic data have revealed the presence of an unexpected number of putative NRP-related gene clusters. This highlights fungi as a goldmine for the discovery of putative novel bioactive compounds. Recent development of NRP dedicated bioinformatics tools have increased the capacity to identify these gene clusters and to deduce NRPs structures, speeding-up the screening process for novel metabolites discovery. Unfortunately, the newly identified compound is frequently not or poorly produced by native producers due to a lack of expression of the related genes cluster. A frequently employed strategy to increase production rates consists in transferring the related biosynthetic pathway in heterologous hosts. This review aims to provide a comprehensive overview about the topic of NRPs discovery, from gene cluster identification by genome mining to the heterologous production in fungal hosts. The main computational tools and methods for genome mining are herein presented with an emphasis on the particularities of the fungal systems. The different steps of the reconstitution of NRP biosynthetic pathway in heterologous fungal cell factories will be discussed, as well as the key factors to consider for maximizing productivity. Several examples will be developed to illustrate the potential of heterologous production to both discover uncharacterized novel compounds predicted in silico by genome mining, and to enhance the productivity of interesting bio-active natural products. © 2019 Elsevier Inc.

Disciplines :

Biochemistry, biophysics & molecular biology

Author, co-author :

Vassaux, A.; TERRA Teaching and Research Centre, Microbial Processes and Interactions, Gembloux Agro-Bio Tech, University of Liege, Avenue de la Faculté d'Agronomie, Gembloux, B5030, Belgium, Univ. Lille, INRA, ISA, Univ. Artois, Univ. Littoral Côte d'Opale, EA 7394-ICV-Institut Charles Viollette, Lille, F-59000, France

Meunier, Loïc ; Université de Liège - ULiège > Département des sciences de la vie > Phylogénomique des eucaryotes

Vandenbol, Micheline ; Université de Liège - ULiège > Département GxABT > Microbial, food and biobased technologies

Baurain, Denis ; Université de Liège - ULiège > Département des sciences de la vie > Phylogénomique des eucaryotes

Fickers, Patrick ; Université de Liège - ULiège > Département GxABT > Microbial, food and biobased technologies

Jacques, Philippe ; Université de Liège - ULiège > Département GxABT > Microbial, food and biobased technologies

Leclère, V.; Univ. Lille, INRA, ISA, Univ. Artois, Univ. Littoral Côte d'Opale, EA 7394-ICV-Institut Charles Viollette, Lille, F-59000, France

Language :

English

Title :

Nonribosomal peptides in fungal cell factories: from genome mining to optimized heterologous production

Publication date :

2019

Journal title :

Biotechnology Advances

ISSN :

0734-9750

eISSN :

1873-1899

Publisher :

Elsevier Inc.

Peer reviewed :

Peer Reviewed verified by ORBi

Funders :

FRIA - Fonds pour la Formation à la Recherche dans l'Industrie et dans l'Agriculture

Available on ORBi :

since 12 August 2020

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