Comprehensive analysis of gene regulatory dynamics, fitness landscape, and population evolution during sexual reproduction
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Comprehensive analysis of gene regulatory dynamics, fitness landscape, and population evolution during sexual reproduction. / Okubo, Kenji; Kaneko, Kunihiko.
I: New Journal of Physics, Bind 24, Nr. 10, 103017, 14.10.2022.Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt
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TY - JOUR
T1 - Comprehensive analysis of gene regulatory dynamics, fitness landscape, and population evolution during sexual reproduction
AU - Okubo, Kenji
AU - Kaneko, Kunihiko
PY - 2022/10/14
Y1 - 2022/10/14
N2 - 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. However, the fitness landscape is challenging to characterize because the quantitative relationships between genotype and phenotype and their association to fitness has not been comprehensively well described. To address this challenge, we adopted gene regulatory networks to determine gene expression dynamics. We analyzed how phenotype and fitness are shaped by the genotype in two-gene networks. A two-by-two matrix provided the two-gene regulatory network in which a vector with two angle values (Theta) was introduced to characterize the genotype. Mapping from this angle vector to phenotypes allowed for the classification of steady-state expression patterns of genes into seven types. We then studied all possible fitness functions given by the Boolean output from the on/off expression of the two genes. The possible fitness landscapes were obtained as a function of the genetic parameters Theta. Finally, the evolution of the population distribution under sexual reproduction was investigated in the obtained landscape. We found that the distribution was restricted to a convex region within the landscape, resulting in the branching of population distribution, including the speciation process.
AB - 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. However, the fitness landscape is challenging to characterize because the quantitative relationships between genotype and phenotype and their association to fitness has not been comprehensively well described. To address this challenge, we adopted gene regulatory networks to determine gene expression dynamics. We analyzed how phenotype and fitness are shaped by the genotype in two-gene networks. A two-by-two matrix provided the two-gene regulatory network in which a vector with two angle values (Theta) was introduced to characterize the genotype. Mapping from this angle vector to phenotypes allowed for the classification of steady-state expression patterns of genes into seven types. We then studied all possible fitness functions given by the Boolean output from the on/off expression of the two genes. The possible fitness landscapes were obtained as a function of the genetic parameters Theta. Finally, the evolution of the population distribution under sexual reproduction was investigated in the obtained landscape. We found that the distribution was restricted to a convex region within the landscape, resulting in the branching of population distribution, including the speciation process.
KW - fitness landscape
KW - gene regulatory network
KW - sexual reproduction
KW - NETWORK
KW - MODEL
KW - ROBUSTNESS
KW - DOMINANCE
KW - INDUCTION
U2 - 10.1088/1367-2630/ac9549
DO - 10.1088/1367-2630/ac9549
M3 - Journal article
VL - 24
JO - New Journal of Physics
JF - New Journal of Physics
SN - 1367-2630
IS - 10
M1 - 103017
ER -
ID: 323157729