ArticleBMC evolutionary biology2007
The limits of subfunctionalization.
Article in BMC evolutionary biology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- Distinct Evolutionary Trajectories of Major Intracellular Proteolytic Systems in Gilthead Seabream and European Seabass.Biology · 2026Article
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- Evolutionary Dynamics of Matrix Metalloproteases with Collagenolytic Activity in Teleosts.Animals : an open access journal from MDPI · 2025Article
- Natterin-like depletion by CRISPR/Cas9 impairs zebrafish (Danio rerio) embryonic development.BMC genomics · 2022Article
- The Natterin Proteins Diversity: A Review on Phylogeny, Structure, and Immune Function.Toxins · 2021Review
- Extensive non-redundancy in a recently duplicated developmental gene family.BMC ecology and evolution · 2021Article
- More Than One-to-Four via 2R: Evidence of an Independent Amphioxus Expansion and Two-Gene Ancestral Vertebrate State for MyoD-Related Myogenic Regulatory Factors (MRFs).Molecular biology and evolution · 2020Article
- Co-opting evo-devo concepts for new insights into mechanisms of behavioural diversity.The Journal of experimental biology · 2019Review
- Lineage-specific duplication of amphioxus retinoic acid degrading enzymes (CYP26) resulted in sub-functionalization of patterning and homeostatic roles.BMC evolutionary biology · 2017Article
- Tandem Duplication Events in the Expansion of the Small Heat Shock Protein Gene Family in Solanum lycopersicum (cv. Heinz 1706).G3 (Bethesda, Md.) · 2016Article
- Expression Pattern Similarities Support the Prediction of Orthologs Retaining Common Functions after Gene Duplication Events.Plant physiology · 2016Article
- Prediction of DNA binding motifs from 3D models of transcription factors; identifying TLX3 regulated genes.Nucleic acids research · 2014Article
- Using evolutionary computations to understand the design and evolution of gene and cell regulatory networks.Methods (San Diego, Calif.) · 2013Review
- The underlying molecular and network level mechanisms in the evolution of robustness in gene regulatory networks.PLoS computational biology · 2013Article
- Article
- In silico evolution of gene cooption in pattern-forming gene networks.TheScientificWorldJournal · 2012Article
- Contrasting patterns of evolution following whole genome versus tandem duplication events in Populus.Genome research · 2012Article
- Differential regulation drives plasticity in sex determination gene networks.BMC evolutionary biology · 2010Article
- Predicting genome-wide redundancy using machine learning.BMC evolutionary biology · 2010Article
- Regulatory divergence of the duplicated chromosomal loci sox11a/b by subpartitioning and sequence evolution of enhancers in zebrafish.Molecular genetics and genomics : MGG · 2010Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
backgroundThe duplication-degeneration-complementation (DDC) model has been proposed as an explanation for the unexpectedly high retention of duplicate genes. The hypothesis proposes that, following gene duplication, the two gene copies degenerate to perform complementary functions that jointly match that of the single ancestral gene, a process also known as subfunctionalization. We distinguish between subfunctionalization at the regulatory level and at the product level (e.g within temporal or spatial expression domains).
resultsIn contrast to what is expected under the DDC model, we use in silico modeling to show that regulatory subfunctionalization is expected to peak and then decrease significantly. At the same time, neofunctionalization (recruitment of novel interactions) increases monotonically, eventually affecting the regulatory elements of the majority of genes. Furthermore, since this process occurs under conditions of stabilizing selection, there is no need to invoke positive selection. At the product level, the frequency of subfunctionalization is no higher than would be expected by chance, a finding that was corroborated using yeast microarray time-course data. We also find that product subfunctionalization is not necessarily caused by regulatory subfunctionalization.
conclusionOur results suggest a more complex picture of post-duplication evolution in which subfunctionalization plays only a partial role in conjunction with redundancy and neofunctionalization. We argue that this behavior is a consequence of the high evolutionary plasticity in gene networks.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.