Heterologous production of new lasso peptide koreensin based on genome mining

2020 ◽  
Vol 74 (1) ◽  
pp. 42-50
Author(s):  
Hiroki Fuwa ◽  
Hikaru Hemmi ◽  
Issara Kaweewan ◽  
Ikko Kozaki ◽  
Hiroyuki Honda ◽  
...  
2021 ◽  
Author(s):  
Lydia Stariha ◽  
Dewey G. McCafferty

<p>Lasso peptides are a structurally diverse superfamily of</p><p>conformationally-constrained peptide natural products, of which a</p><p>subset exhibits broad antimicrobial activity. Although advances in</p><p>bioinformatics have increased our knowledge of strains harboring</p><p>the biosynthetic machinery for lasso peptide production, relating</p><p>peptide sequence to bioactivity remains a continuous challenge.</p><p>Towards this end, a structure-driven genome mining investigation</p><p>of Actinobacteria-produced antimicrobial lasso peptides was</p><p>performed to correlate predicted primary structure with antibiotic</p><p>activity. Bioinformatic evaluation revealed eight putative novel</p><p>class I lasso peptide sequences. This subset is predicted to</p><p>possess antibiotic activity as characterized members of this class</p><p>have both broad spectrum and potent activity against Gram positive</p><p>strains. Fermentation of one of these hits, Streptomyces</p><p>NRRL F-5639, resulted in the production of a novel class I lasso</p><p>peptide, arcumycin, named for the Latin word for bow or arch,</p><p>arcum. Arcumycin exhibited antibiotic activity against Gram positive</p><p>bacteria including <i>Bacillus subtilis</i> (4 μg/mL),</p><p><i>Staphylococcus aureus </i>(8 μg/mL), and <i>Micrococcus luteus</i> (8</p><p>μg/mL). Arcumycin treatment of <i>B. subtilis</i> liaI-β-gal promoter</p><p>fusion reporter strain resulted in upregulation of the system liaRS</p><p>by the promoter liaI, indicating arcumycin interferes with lipid II</p><p>biosynthesis. Cumulatively, the results illustrate the relationship</p><p>between phylogenetically related lasso peptides and their</p><p>bioactivity as validated through the isolation, structural</p><p>determination, and evaluation of bioactivity of the novel class I</p><p>antimicrobial lasso peptide arcumycin.</p>


2020 ◽  
Vol 9 (2) ◽  
pp. 241-248 ◽  
Author(s):  
Sylvia Kunakom ◽  
Alessandra S. Eustáquio

2019 ◽  
Vol 37 (8) ◽  
pp. 107449 ◽  
Author(s):  
Antoine Vassaux ◽  
Loïc Meunier ◽  
Micheline Vandenbol ◽  
Denis Baurain ◽  
Patrick Fickers ◽  
...  

2020 ◽  
Vol 11 ◽  
Author(s):  
Jin Lü ◽  
Qingshan Long ◽  
Zhilong Zhao ◽  
Lu Chen ◽  
Weijun He ◽  
...  

Bacteria of the genus Saccharopolyspora produce important polyketide antibiotics, including erythromycin A (Sac. erythraea) and spinosad (Sac. spinosa). We herein report the development of an industrial erythromycin-producing strain, Sac. erythraea HOE107, into a host for the heterologous expression of polyketide biosynthetic gene clusters (BGCs) from other Saccharopolyspora species and related actinomycetes. To facilitate the integration of natural product BGCs and auxiliary genes beneficial for the production of natural products, the erythromycin polyketide synthase (ery) genes were replaced with two bacterial attB genomic integration sites associated with bacteriophages ϕC31 and ϕBT1. We also established a highly efficient conjugation protocol for the introduction of large bacterial artificial chromosome (BAC) clones into Sac. erythraea strains. Based on this optimized protocol, an arrayed BAC library was effectively transferred into Sac. erythraea. The large spinosad gene cluster from Sac. spinosa and the actinorhodin gene cluster from Streptomyces coelicolor were successfully expressed in the ery deletion mutant. Deletion of the endogenous giant polyketide synthase genes pkeA1-pkeA4, the product of which is not known, and the flaviolin gene cluster (rpp) from the bacterium increased the heterologous production of spinosad and actinorhodin. Furthermore, integration of pJTU6728 carrying additional beneficial genes dramatically improved the yield of actinorhodin in the engineered Sac. erythraea strains. Our study demonstrated that the engineered Sac. erythraea strains SLQ185, LJ161, and LJ162 are good hosts for the expression of heterologous antibiotics and should aid in expression-based genome-mining approaches for the discovery of new and cryptic antibiotics from Streptomyces and rare actinomycetes.


2017 ◽  
Vol 13 (5) ◽  
pp. 470-478 ◽  
Author(s):  
Jonathan I Tietz ◽  
Christopher J Schwalen ◽  
Parth S Patel ◽  
Tucker Maxson ◽  
Patricia M Blair ◽  
...  

2018 ◽  
Vol 45 (11) ◽  
pp. 983-992 ◽  
Author(s):  
Shinya Kodani ◽  
Hikaru Hemmi ◽  
Yuto Miyake ◽  
Issara Kaweewan ◽  
Hiroyuki Nakagawa

2019 ◽  
Vol 36 (9) ◽  
pp. 1281-1294 ◽  
Author(s):  
Maksym Myronovskyi ◽  
Andriy Luzhetskyy

The genome mining of streptomycetes has revealed their great biosynthetic potential to produce novel natural products.


2018 ◽  
Vol 26 (23-24) ◽  
pp. 6050-6055 ◽  
Author(s):  
Issara Kaweewan ◽  
Hikaru Hemmi ◽  
Hisayuki Komaki ◽  
Shigeyoshi Harada ◽  
Shinya Kodani

2012 ◽  
Vol 109 (38) ◽  
pp. 15223-15228 ◽  
Author(s):  
Mikhail O. Maksimov ◽  
István Pelczer ◽  
A. James Link

Lasso peptides are a class of ribosomally synthesized posttranslationally modified natural products found in bacteria. Currently known lasso peptides have a diverse set of pharmacologically relevant activities, including inhibition of bacterial growth, receptor antagonism, and enzyme inhibition. The biosynthesis of lasso peptides is specified by a cluster of three genes encoding a precursor protein and two enzymes. Here we develop a unique genome-mining algorithm to identify lasso peptide gene clusters in prokaryotes. Our approach involves pattern matching to a small number of conserved amino acids in precursor proteins, and thus allows for a more global survey of lasso peptide gene clusters than does homology-based genome mining. Of more than 3,000 currently sequenced prokaryotic genomes, we found 76 organisms that are putative lasso peptide producers. These organisms span nine bacterial phyla and an archaeal phylum. To provide validation of the genome-mining method, we focused on a single lasso peptide predicted to be produced by the freshwater bacterium Asticcacaulis excentricus. Heterologous expression of an engineered, minimal gene cluster in Escherichia coli led to the production of a unique lasso peptide, astexin-1. At 23 aa, astexin-1 is the largest lasso peptide isolated to date. It is also highly polar, in contrast to many lasso peptides that are primarily hydrophobic. Astexin-1 has modest antimicrobial activity against its phylogenetic relative Caulobacter crescentus. The solution structure of astexin-1 was determined revealing a unique topology that is stabilized by hydrogen bonding between segments of the peptide.


2019 ◽  
Author(s):  
Sylvia Kunakom ◽  
Alessandra Eustaquio

<i>Burkholderia</i> bacteria are an emerging source of natural products with applications in agriculture and medicine. Heterologous expression of biosynthetic gene clusters can streamline natural product discovery. However, production yields with the commonly used <i>Escherichia coli</i> host are usually low. Following the current paradigm that one host does not fit all, we aim to develop a <i>Burkholderia</i> host in order to ultimately tap into the biosynthetic potential of <i>Burkholderia</i> genomes, which can contain up to 27 biosynthetic gene clusters per genome. Because close phylogenetic relationship is expected to improve odds of success due to compatible gene expression and precursor supply, we tested <i>Burkholderia</i> sp. FERM BP-3421, a non-pathogenic isolate previously used to produce natural products at industrial scale. We show here that FERM BP-3421 can produce the model lasso peptide capistruin in yields that are at least 65-fold, and up to 580-fold higher than the previously used <i>E. coli</i> host.


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