Literature DB >> 28260651

Ribosomally synthesized and post-translationally modified peptide natural product discovery in the genomic era.

Kenton J Hetrick1, Wilfred A van der Donk2.   

Abstract

In the past 15 years, the cost of sequencing a genome has plummeted. Consequently, the number of sequenced bacterial genomes has exponentially increased, and methods for natural product discovery have evolved rapidly to take advantage of the wealth of genomic data. This review highlights applications of genome mining software to compare and organize large-scale data sets and methods for identifying unique biosynthetic pathways amongst the thousands of ribosomally synthesized and post-translationally modified peptide (RiPP) gene clusters. We also discuss a small number of the many RiPPs discovered in the years 2014-2016.
Copyright © 2017 Elsevier Ltd. All rights reserved.

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Year:  2017        PMID: 28260651      PMCID: PMC5474203          DOI: 10.1016/j.cbpa.2017.02.005

Source DB:  PubMed          Journal:  Curr Opin Chem Biol        ISSN: 1367-5931            Impact factor:   8.822


  51 in total

1.  Class of cyclic ribosomal peptide synthetic genes in filamentous fungi.

Authors:  Nozomi Nagano; Myco Umemura; Miho Izumikawa; Jin Kawano; Tomoko Ishii; Moto Kikuchi; Kentaro Tomii; Toshitaka Kumagai; Akira Yoshimi; Masayuki Machida; Keietsu Abe; Kazuo Shin-Ya; Kiyoshi Asai
Journal:  Fungal Genet Biol       Date:  2015-12-15       Impact factor: 3.495

2.  The Supersized Class III Lanthipeptide Stackepeptin Displays Motif Multiplication in the Core Peptide.

Authors:  Natalia A Jungmann; Eric F van Herwerden; Manuela Hügelland; Roderich D Süssmuth
Journal:  ACS Chem Biol       Date:  2015-10-29       Impact factor: 5.100

Review 3.  Old dogs and new tricks in antimicrobial discovery.

Authors:  Mark S Butler; Mark At Blaskovich; Jeremy G Owen; Matthew A Cooper
Journal:  Curr Opin Microbiol       Date:  2016-06-02       Impact factor: 7.934

4.  Expanded natural product diversity revealed by analysis of lanthipeptide-like gene clusters in actinobacteria.

Authors:  Qi Zhang; James R Doroghazi; Xiling Zhao; Mark C Walker; Wilfred A van der Donk
Journal:  Appl Environ Microbiol       Date:  2015-04-17       Impact factor: 4.792

5.  Distribution and Genetic Diversity of Bacteriocin Gene Clusters in Rumen Microbial Genomes.

Authors:  Analice C Azevedo; Cláudia B P Bento; Jeronimo C Ruiz; Marisa V Queiroz; Hilário C Mantovani
Journal:  Appl Environ Microbiol       Date:  2015-08-07       Impact factor: 4.792

6.  Lasso peptides from proteobacteria: Genome mining employing heterologous expression and mass spectrometry.

Authors:  Julian D Hegemann; Marcel Zimmermann; Shaozhou Zhu; Dennis Klug; Mohamed A Marahiel
Journal:  Biopolymers       Date:  2013-09       Impact factor: 2.505

7.  A phase I trial of intranasal Moli1901 for cystic fibrosis.

Authors:  Pamela L Zeitlin; Michael P Boyle; William B Guggino; Luis Molina
Journal:  Chest       Date:  2004-01       Impact factor: 9.410

Review 8.  Microbial genome mining for accelerated natural products discovery: is a renaissance in the making?

Authors:  Brian O Bachmann; Steven G Van Lanen; Richard H Baltz
Journal:  J Ind Microbiol Biotechnol       Date:  2013-12-17       Impact factor: 3.346

9.  A genome-wide association study of seed protein and oil content in soybean.

Authors:  Eun-Young Hwang; Qijian Song; Gaofeng Jia; James E Specht; David L Hyten; Jose Costa; Perry B Cregan
Journal:  BMC Genomics       Date:  2014-01-02       Impact factor: 3.969

10.  Genome mining for ribosomally synthesized and post-translationally modified peptides (RiPPs) in anaerobic bacteria.

Authors:  Anne-Catrin Letzel; Sacha J Pidot; Christian Hertweck
Journal:  BMC Genomics       Date:  2014-11-18       Impact factor: 3.969

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  42 in total

1.  The structure of CgnJ, a domain of unknown function protein from the crocagin gene cluster.

Authors:  Sebastian Adam; Andreas Klein; Frank Surup; Jesko Koehnke
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2019-02-21       Impact factor: 1.056

Review 2.  Trends in peptide drug discovery.

Authors:  Markus Muttenthaler; Glenn F King; David J Adams; Paul F Alewood
Journal:  Nat Rev Drug Discov       Date:  2021-02-03       Impact factor: 84.694

3.  Discovery of the Tiancilactone Antibiotics by Genome Mining of Atypical Bacterial Type II Diterpene Synthases.

Authors:  Liao-Bin Dong; Jeffrey D Rudolf; Ming-Rong Deng; Xiaohui Yan; Ben Shen
Journal:  Chembiochem       Date:  2018-05-27       Impact factor: 3.164

4.  Zn-dependent bifunctional proteases are responsible for leader peptide processing of class III lanthipeptides.

Authors:  Shaoming Chen; Bing Xu; Erquan Chen; Jiaqi Wang; Jingxia Lu; Stefano Donadio; Huiming Ge; Huan Wang
Journal:  Proc Natl Acad Sci U S A       Date:  2019-01-24       Impact factor: 11.205

5.  O-Methyltransferase-Mediated Incorporation of a β-Amino Acid in Lanthipeptides.

Authors:  Jeella Z Acedo; Ian R Bothwell; Linna An; Abby Trouth; Clara Frazier; Wilfred A van der Donk
Journal:  J Am Chem Soc       Date:  2019-10-15       Impact factor: 15.419

6.  Characterization of a Dehydratase and Methyltransferase in the Biosynthesis of Ribosomally Synthesized and Post-translationally Modified Peptides in Lachnospiraceae.

Authors:  Liujie Huo; Xiling Zhao; Jeella Z Acedo; Paola Estrada; Satish K Nair; Wilfred A van der Donk
Journal:  Chembiochem       Date:  2019-11-04       Impact factor: 3.164

7.  Cebulantin, a Cryptic Lanthipeptide Antibiotic Uncovered Using Bioactivity-Coupled HiTES.

Authors:  Kyuho Moon; Fei Xu; Mohammad R Seyedsayamdost
Journal:  Angew Chem Int Ed Engl       Date:  2019-03-28       Impact factor: 15.336

Review 8.  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

9.  CylA is a sequence-specific protease involved in toxin biosynthesis.

Authors:  Weixin Tang; Silvia C Bobeica; Li Wang; Wilfred A van der Donk
Journal:  J Ind Microbiol Biotechnol       Date:  2018-11-27       Impact factor: 3.346

Review 10.  Radical S-Adenosylmethionine Enzymes Involved in RiPP Biosynthesis.

Authors:  Nilkamal Mahanta; Graham A Hudson; Douglas A Mitchell
Journal:  Biochemistry       Date:  2017-09-22       Impact factor: 3.162

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