Results 1 to 10 of about 43,570 (212)

Adaptive Differential Evolution Algorithm Based on Fitness Landscape Characteristic

Mathematics, 2022
Differential evolution (DE) is a simple, effective, and robust algorithm, which has demonstrated excellent performance in dealing with global optimization problems.
Liming Zheng, Shiqi Luo
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Analysis of the evolution of resistance to multiple antibiotics enables prediction of the Escherichia coli phenotype-based fitness landscape [PDF]

PLoS Biology, 2022
The fitness landscape represents the complex relationship between genotype or phenotype and fitness under a given environment, the structure of which allows the explanation and prediction of evolutionary trajectories.
Junichiro Iwasawa, Tomoya Maeda, Atsushi Shibai, Hazuki Kotani, Masako Kawada, Chikara Furusawa   +5 more
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The plasmid-host fitness landscape: a new paradigm for predicting the fate of mobile resistance [PDF]

Applied and Environmental Microbiology
The widespread persistence of antimicrobial resistance (AMR) plasmids presents a fundamental challenge to microbial evolution, known as the “plasmid paradox”: if these plasmids cause fitness cost, why are they not eliminated by selection?
Hevar N. Abdulqadir
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Competition-driven eco-evolutionary feedback reshapes bacteriophage lambda’s fitness landscape and enables speciation [PDF]

Nature Communications
A major challenge in evolutionary biology is explaining how populations navigate rugged fitness landscapes without getting trapped on local optima.
Michael B. Doud, Animesh Gupta, Victor Li, Sarah J. Medina, Caesar A. De La Fuente, Justin R. Meyer   +5 more
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Heterogeneity of the GFP fitness landscape and data-driven protein design [PDF]

eLife, 2022
Studies of protein fitness landscapes reveal biophysical constraints guiding protein evolution and empower prediction of functional proteins. However, generalisation of these findings is limited due to scarceness of systematic data on fitness landscapes ...
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   +9 more
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Hybridization alters the shape of the genotypic fitness landscape, increasing access to novel fitness peaks during adaptive radiation

eLife, 2022
Estimating the complex relationship between fitness and genotype or phenotype (i.e. the adaptive landscape) is one of the central goals of evolutionary biology.
Austin H Patton, Emilie J Richards, Katelyn J Gould, Logan K Buie, Christopher H Martin   +4 more
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Experimental rugged fitness landscape in protein sequence space. [PDF]

PLoS ONE, 2006
The fitness landscape in sequence space determines the process of biomolecular evolution. To plot the fitness landscape of protein function, we carried out in vitro molecular evolution beginning with a defective fd phage carrying a random polypeptide of ...
Yuuki Hayashi, Takuyo Aita, Hitoshi Toyota, Yuzuru Husimi, Itaru Urabe, Tetsuya Yomo   +5 more
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Comprehensive analysis of gene regulatory dynamics, fitness landscape, and population evolution during sexual reproduction

New Journal of Physics, 2022
The fitness landscape is a critical concept in biophysics, evolutionary biology, and genetics that depicts fitness in the genotype space and visualizes the relationship between genotype and fitness.
Kenji Okubo, Kunihiko Kaneko
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Predicting higher-order mutational effects in an RNA enzyme by machine learning of high-throughput experimental data

Frontiers in Molecular Biosciences, 2022
Ribozymes are RNA molecules that catalyze biochemical reactions. Self-cleaving ribozymes are a common naturally occurring class of ribozymes that catalyze site-specific cleavage of their own phosphodiester backbone. In addition to their natural functions,
James D. Beck, Jessica M. Roberts, Joey M. Kitzhaber, Ashlyn Trapp, Edoardo Serra, Francesca Spezzano, Eric J. Hayden, Eric J. Hayden   +7 more
doaj   +1 more source

ELIHKSIR Web Server: Evolutionary Links Inferred for Histidine Kinase Sensors Interacting with Response Regulators

Entropy, 2021
Two-component systems (TCS) are signaling machinery that consist of a histidine kinases (HK) and response regulator (RR). When an environmental change is detected, the HK phosphorylates its cognate response regulator (RR). While cognate interactions were
Claude Sinner, Cheyenne Ziegler, Yun Ho Jung, Xianli Jiang, Faruck Morcos   +4 more
doaj   +1 more source