Literature DB >> 31165971

Genome mining for lasso peptides: past, present, and future.

Wai Ling Cheung-Lee1, A James Link2,3,4.   

Abstract

Over the course of roughly a decade, the lasso peptide field has been transformed. Whereas new compounds were discovered infrequently via activity-driven approaches, now, the vast majority of lasso peptide discovery is driven by genome-mining approaches. This paper starts with a historical overview of the first genome-mining approaches for lasso peptide discovery, and then covers new tools that have emerged. Several examples of novel lasso peptides that have been discovered via genome mining are presented as are examples of new enzymes found associated with lasso peptide gene clusters. Finally, this paper concludes with future directions and unsolved challenges in lasso peptide genome mining.

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Year:  2019        PMID: 31165971      PMCID: PMC6989040          DOI: 10.1007/s10295-019-02197-z

Source DB:  PubMed          Journal:  J Ind Microbiol Biotechnol        ISSN: 1367-5435            Impact factor:   3.346


  62 in total

1.  Much of the microcin J25 leader peptide is dispensable.

Authors:  Wai Ling Cheung; Si Jia Pan; A James Link
Journal:  J Am Chem Soc       Date:  2010-03-03       Impact factor: 15.419

2.  Precursor-centric genome-mining approach for lasso peptide discovery.

Authors:  Mikhail O Maksimov; István Pelczer; A James Link
Journal:  Proc Natl Acad Sci U S A       Date:  2012-09-04       Impact factor: 11.205

3.  The astexin-1 lasso peptides: biosynthesis, stability, and structural studies.

Authors:  Marcel Zimmermann; Julian D Hegemann; Xiulan Xie; Mohamed A Marahiel
Journal:  Chem Biol       Date:  2013-04-18

4.  Design and assembly of rotaxane-based molecular switches and machines.

Authors:  Wenlong Yang; Yongjun Li; Huibiao Liu; Lifeng Chi; Yuliang Li
Journal:  Small       Date:  2012-01-20       Impact factor: 13.281

5.  Discovery and structure of the antimicrobial lasso peptide citrocin.

Authors:  Wai Ling Cheung-Lee; Madison E Parry; Alexis Jaramillo Cartagena; Seth A Darst; A James Link
Journal:  J Biol Chem       Date:  2019-03-07       Impact factor: 5.157

6.  Lasso Peptide Benenodin-1 Is a Thermally Actuated [1]Rotaxane Switch.

Authors:  Chuhan Zong; Michelle J Wu; Jason Z Qin; A James Link
Journal:  J Am Chem Soc       Date:  2017-07-24       Impact factor: 15.419

7.  Isolation and structural characterization of capistruin, a lasso peptide predicted from the genome sequence of Burkholderia thailandensis E264.

Authors:  Thomas A Knappe; Uwe Linne; Séverine Zirah; Sylvie Rebuffat; Xiulan Xie; Mohamed A Marahiel
Journal:  J Am Chem Soc       Date:  2008-08-01       Impact factor: 15.419

8.  Thienamycin, a new beta-lactam antibiotic. I. Discovery, taxonomy, isolation and physical properties.

Authors:  J S Kahan; F M Kahan; R Goegelman; S A Currie; M Jackson; E O Stapley; T W Miller; A K Miller; D Hendlin; S Mochales; S Hernandez; H B Woodruff; J Birnbaum
Journal:  J Antibiot (Tokyo)       Date:  1979-01       Impact factor: 2.649

9.  Nitric Oxide (NO) Mediates the Inhibition of Form-Deprivation Myopia by Atropine in Chicks.

Authors:  Brittany J Carr; William K Stell
Journal:  Sci Rep       Date:  2016-12-05       Impact factor: 4.379

10.  BAGEL4: a user-friendly web server to thoroughly mine RiPPs and bacteriocins.

Authors:  Auke J van Heel; Anne de Jong; Chunxu Song; Jakob H Viel; Jan Kok; Oscar P Kuipers
Journal:  Nucleic Acids Res       Date:  2018-07-02       Impact factor: 16.971

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  10 in total

Review 1.  How to harness biosynthetic gene clusters of lasso peptides.

Authors:  Shinya Kodani; Kohta Unno
Journal:  J Ind Microbiol Biotechnol       Date:  2020-07-23       Impact factor: 3.346

2.  Pandonodin: A Proteobacterial Lasso Peptide with an Exceptionally Long C-Terminal Tail.

Authors:  Wai Ling Cheung-Lee; Li Cao; A James Link
Journal:  ACS Chem Biol       Date:  2019-12-05       Impact factor: 5.100

Review 3.  The manifold roles of microbial ribosomal peptide-based natural products in physiology and ecology.

Authors:  Yanyan Li; Sylvie Rebuffat
Journal:  J Biol Chem       Date:  2019-11-29       Impact factor: 5.157

4.  Heterologous Production of Lasso Peptide Capistruin in a Burkholderia Host.

Authors:  Sylvia Kunakom; Alessandra S Eustáquio
Journal:  ACS Synth Biol       Date:  2020-01-13       Impact factor: 5.110

Review 5.  Recent advances in the biosynthesis of RiPPs from multicore-containing precursor peptides.

Authors:  Garret M Rubin; Yousong Ding
Journal:  J Ind Microbiol Biotechnol       Date:  2020-07-02       Impact factor: 3.346

6.  Biosynthesis and characterization of fuscimiditide, an aspartimidylated graspetide.

Authors:  Hader E Elashal; Joseph D Koos; Wai Ling Cheung-Lee; Brian Choi; Li Cao; Michelle A Richardson; Heather L White; A James Link
Journal:  Nat Chem       Date:  2022-08-18       Impact factor: 24.274

7.  Immune-related lncRNA pairs as novel signature to predict prognosis and immune landscape in melanoma patients.

Authors:  Zhehong Li; Junqiang Wei; Honghong Zheng; Xintian Gan; Mingze Song; Yafang Zhang; Yu Jin
Journal:  Medicine (Baltimore)       Date:  2022-01-07       Impact factor: 1.889

8.  Identification of Serum miRNAs as Effective Diagnostic Biomarkers for Distinguishing Primary Central Nervous System Lymphoma from Glioma.

Authors:  Pei-Pei Si; Xiao-Hui Zhou; Zhen-Zhen Qu
Journal:  J Immunol Res       Date:  2022-04-20       Impact factor: 4.818

9.  Cellulonodin-2 and Lihuanodin: Lasso Peptides with an Aspartimide Post-Translational Modification.

Authors:  Li Cao; Moshe Beiser; Joseph D Koos; Margarita Orlova; Hader E Elashal; Hendrik V Schröder; A James Link
Journal:  J Am Chem Soc       Date:  2021-07-20       Impact factor: 16.383

10.  Identification, Cloning and Heterologous Expression of the Gene Cluster Directing RES-701-3, -4 Lasso Peptides Biosynthesis from a Marine Streptomyces Strain.

Authors:  Daniel Oves-Costales; Marina Sánchez-Hidalgo; Jesús Martín; Olga Genilloud
Journal:  Mar Drugs       Date:  2020-05-01       Impact factor: 5.118

  10 in total

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