[HTML][HTML] From genotypes to organisms: State-of-the-art and perspectives of a cornerstone in evolutionary dynamics

S Manrubia, JA Cuesta, J Aguirre, SE Ahnert… - Physics of Life …, 2021 - Elsevier
Understanding how genotypes map onto phenotypes, fitness, and eventually organisms is
arguably the next major missing piece in a fully predictive theory of evolution. We refer to this …

On the networked architecture of genotype spaces and its critical effects on molecular evolution

J Aguirre, P Catalán, JA Cuesta… - Open …, 2018 - royalsocietypublishing.org
Evolutionary dynamics is often viewed as a subtle process of change accumulation that
causes a divergence among organisms and their genomes. However, this interpretation is …

Cancer in light of experimental evolution

K Sprouffske, LMF Merlo, PJ Gerrish, CC Maley… - Current Biology, 2012 - cell.com
Cancer initiation, progression, and the emergence of therapeutic resistance are evolutionary
phenomena of clonal somatic cell populations. Studies in microbial experimental evolution …

A theoretical framework for evolutionary cell biology

M Lynch, B Trickovic - Journal of molecular biology, 2020 - Elsevier
One of the last uncharted territories in evolutionary biology concerns the link with cell
biology. Because all phenotypes ultimately derive from events at the cellular level, this …

Systems-biology approaches for predicting genomic evolution

B Papp, RA Notebaart, C Pál - Nature Reviews Genetics, 2011 - nature.com
Is evolution predictable at the molecular level? The ambitious goal to answer this question
requires an understanding of the mutational effects that govern the complex relationship …

Changing mutational and adaptive landscapes and the genesis of cancer

LA Liggett, J DeGregori - Biochimica et Biophysica Acta (BBA)-Reviews on …, 2017 - Elsevier
By the time the process of oncogenesis has produced an advanced cancer, tumor cells have
undergone extensive evolution. The cellular phenotypes resulting from this evolution have …

Evolutionary systems biology: what it is and why it matters

OS Soyer, MA O'Malley - BioEssays, 2013 - Wiley Online Library
Evolutionary systems biology (ESB) is a rapidly growing integrative approach that has the
core aim of generating mechanistic and evolutionary understanding of genotype‐phenotype …

The structure of genotype-phenotype maps makes fitness landscapes navigable

SF Greenbury, AA Louis, SE Ahnert - Nature Ecology & Evolution, 2022 - nature.com
Fitness landscapes are often described in terms of 'peaks' and 'valleys', indicating an
intuitive low-dimensional landscape of the kind encountered in everyday experience. The …

Perspective: complex adaptations and the evolution of evolvability

GP Wagner, L Altenberg - Evolution, 1996 - academic.oup.com
The problem of complex adaptations is studied in two largely disconnected research
traditions: evolutionary biology and evolutionary computer science. This paper summarizes …

The inheritance of process: a dynamical systems approach

J Jaeger, D Irons, N Monk - Journal of Experimental Zoology …, 2012 - Wiley Online Library
A central unresolved problem of evolutionary biology concerns the way in which evolution at
the genotypic level relates to the evolution of phenotypes. This genotype–phenotype map …