Literature DB >> 29351890

Evolutionary mechanisms studied through protein fitness landscapes.

Aneth S Canale1, Pamela A Cote-Hammarlof1, Julia M Flynn1, Daniel Na Bolon2.   

Abstract

Biology has, and continues to be, shaped by evolutionary mechanisms. Within the past decade, local fitness landscapes have become experimentally tractable and are providing new perspectives on evolutionary mechanisms. Powered by next-generation sequencing, the impacts of all individual amino acid substitutions on function have been quantified for dozens of proteins. These fitness maps have been utilized to investigate the biophysical underpinnings of existing protein function as well as the appearance and enhancement of new protein functions. This review highlights emerging trends from this rapidly growing area of research, including an expanded understanding of the biophysical mechanisms underlying existing and new protein function, the roles epistasis and adaptation play in shaping evolution, and the prediction of disease-causing alleles in humans.
Copyright © 2018. Published by Elsevier Ltd.

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Year:  2018        PMID: 29351890     DOI: 10.1016/j.sbi.2018.01.001

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  15 in total

1.  A Second Backbone: The Contribution of a Buried Asparagine Ladder to the Global and Local Stability of a Leucine-Rich Repeat Protein.

Authors:  Sean A Klein; Ananya Majumdar; Doug Barrick
Journal:  Biochemistry       Date:  2019-08-06       Impact factor: 3.162

2.  Constrained Mutational Sampling of Amino Acids in HIV-1 Protease Evolution.

Authors:  Jeffrey I Boucher; Troy W Whitfield; Ann Dauphin; Gily Nachum; Carl Hollins; Konstantin B Zeldovich; Ronald Swanstrom; Celia A Schiffer; Jeremy Luban; Daniel N A Bolon
Journal:  Mol Biol Evol       Date:  2019-04-01       Impact factor: 16.240

3.  Heterogeneity of the GFP fitness landscape and data-driven protein design.

Authors:  Louisa Gonzalez Somermeyer; Aubin Fleiss; Alexander S Mishin; Nina G Bozhanova; Anna A Igolkina; Jens Meiler; Maria-Elisenda Alaball Pujol; Ekaterina V Putintseva; Karen S Sarkisyan; Fyodor A Kondrashov
Journal:  Elife       Date:  2022-05-05       Impact factor: 8.713

4.  Relation Between the Number of Peaks and the Number of Reciprocal Sign Epistatic Interactions.

Authors:  Raimundo Saona; Fyodor A Kondrashov; Ksenia A Khudiakova
Journal:  Bull Math Biol       Date:  2022-06-17       Impact factor: 3.871

5.  Minimum epistasis interpolation for sequence-function relationships.

Authors:  Juannan Zhou; David M McCandlish
Journal:  Nat Commun       Date:  2020-04-14       Impact factor: 14.919

6.  Quantitative mapping of binding specificity landscapes for homologous targets by using a high-throughput method.

Authors:  Lidan Aharon; Shay-Lee Aharoni; Evette S Radisky; Niv Papo
Journal:  Biochem J       Date:  2020-05-15       Impact factor: 3.857

7.  Emerging Frontiers in the Study of Molecular Evolution.

Authors:  David A Liberles; Belinda Chang; Kerry Geiler-Samerotte; Aaron Goldman; Jody Hey; Betül Kaçar; Michelle Meyer; William Murphy; David Posada; Andrew Storfer
Journal:  J Mol Evol       Date:  2020-04       Impact factor: 2.395

8.  Higher-order epistasis shapes the fitness landscape of a xenobiotic-degrading enzyme.

Authors:  Gloria Yang; Dave W Anderson; Florian Baier; Elias Dohmen; Nansook Hong; Paul D Carr; Shina Caroline Lynn Kamerlin; Colin J Jackson; Erich Bornberg-Bauer; Nobuhiko Tokuriki
Journal:  Nat Chem Biol       Date:  2019-10-21       Impact factor: 15.040

Review 9.  Adaptive Landscapes in the Age of Synthetic Biology.

Authors:  Xiao Yi; Antony M Dean
Journal:  Mol Biol Evol       Date:  2019-05-01       Impact factor: 16.240

Review 10.  Applications of Deep Mutational Scanning in Virology.

Authors:  Thomas D Burton; Nicholas S Eyre
Journal:  Viruses       Date:  2021-05-28       Impact factor: 5.048

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