ArticleGenetics2013
Integration of new genes into cellular networks, and their structural maturation.
Article in Genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
- Emergence and evolution of protein-coding de novo genes.Nature reviews. Genetics · 2026Review
- Article
- Article
- Massively integrated coexpression analysis reveals transcriptional regulation, evolution and cellular implications of the yeast noncanonical translatome.Genome biology · 2024Article
- The origin and structural evolution of de novo genes in Drosophila.Nature communications · 2024Article
- De novo genes with an lncRNA origin encode unique human brain developmental functionality.Nature ecology & evolution · 2023Article
- Origins, evolution, and physiological implications of de novo genes in yeast.Yeast (Chichester, England) · 2022Review
- Rapid Gene Evolution in an Ancient Post-transcriptional and Translational Regulatory System Compensates for Meiotic X Chromosomal Inactivation.Molecular biology and evolution · 2022Article
- A computational exploration of resilience and evolvability of protein-protein interaction networks.Communications biology · 2021Article
- A putative de novo evolved gene required for spermatid chromatin condensation in Drosophila melanogaster.PLoS genetics · 2021Article
- Apcdd1 is a dual BMP/Wnt inhibitor in the developing nervous system and skin.Developmental biology · 2020Article
- Enhancers Facilitate the Birth of De Novo Genes and Gene Integration into Regulatory Networks.Molecular biology and evolution · 2020Article
- Rapid Evolution of Gained Essential Developmental Functions of a Young Gene via Interactions with Other Essential Genes.Molecular biology and evolution · 2019Article
- Differences Between the Raw Material and the Products ofGenetics · 2019Article
- De novo gene birth.PLoS genetics · 2019Article
- Young genes have distinct gene structure, epigenetic profiles, and transcriptional regulation.Genome research · 2018Article
- Toward Reducing Phylostratigraphic Errors and Biases.Genome biology and evolution · 2018Article
- Function, dynamics and evolution of network motif modules in integrated gene regulatory networks of worm and plant.Nucleic acids research · 2018Article
- A Molecular Portrait of De Novo Genes in Yeasts.Molecular biology and evolution · 2018Article
- Classification and function of small open reading frames.Nature reviews. Molecular cell biology · 2017Article
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Authors and funding
1 author.
Funding
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Abstract
It has been recently discovered that new genes can originate de novo from noncoding DNA, and several biological traits including expression or sequence composition form a continuum from noncoding sequences to conserved genes. In this article, using yeast genes I test whether the integration of new genes into cellular networks and their structural maturation shows such a continuum by analyzing their changes with gene age. I show that 1) The number of regulatory, protein-protein, and genetic interactions increases continuously with gene age, although with very different rates. New regulatory interactions emerge rapidly within a few million years, while the number of protein-protein and genetic interactions increases slowly, with a rate of 2-2.25 × 10(-8)/year and 4.8 × 10(-8)/year, respectively. 2) Gene essentiality evolves relatively quickly: the youngest essential genes appear in proto-genes ∼14 MY old. 3) In contrast to interactions, the secondary structure of proteins and their robustness to mutations indicate that new genes face a bottleneck in their evolution: proto-genes are characterized by high β-strand content, high aggregation propensity, and low robustness against mutations, while conserved genes are characterized by lower strand content and higher stability, most likely due to the higher probability of gene loss among young genes and accumulation of neutral mutations.
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