ArticleGenome biology2015
New genes drive the evolution of gene interaction networks in the human and mouse genomes.
Article in Genome biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers.
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Who cites it
66 citing papers in PubMed.
- Protein-protein interaction network architecture of human polygenic traits reveals domain-spanning connectivity and evolutionary pressures.Genome biology · 2026Article
- Protein Self-Interaction in Cellular Function and Network Evolution: Molecular Mechanisms, AI-Driven Insights, and Therapeutic Potentials.International journal of molecular sciences · 2026Review
- Rapid evolution of lncRNAs introduces novel regulatory inputs into ancestral cancer pathways.Science advances · 2026Article
- Evolutionary rate correlations reveal long-term co-evolutionary interactions inbioRxiv : the preprint server for biology · 2026Article
- A newly evolved small secretory peptide enhances mechanical properties of spider silk.Nature communications · 2025Article
- Genomic Analysis Reveals the Role of New Genes in Venom Regulatory Network of Parasitoid Wasps.Insects · 2025Article
- Topology-driven negative sampling enhances generalizability in protein-protein interaction prediction.Bioinformatics (Oxford, England) · 2025Article
- Knowledge-guided multi-level network modeling with experimental characterization identifies PRKCA as a novel biomarker and tumor suppressor triggering ferroptosis in prostate cancer.Briefings in bioinformatics · 2025Article
- Identification of noval diagnostic biomarker for HFpEF based on proteomics and machine learning.Proteome science · 2025Article
- Subcellular Enrichment Patterns of New Genes in Drosophila Evolution.Molecular biology and evolution · 2025Article
- Functional innovation through new genes as a general evolutionary process.Nature genetics · 2025Review
- A de novo Gene Promotes Seed Germination Under Drought Stress in Arabidopsis.Molecular biology and evolution · 2025Article
- The three-dimensional genome drives the evolution of asymmetric gene duplicates via enhancer capture-divergence.Science advances · 2024Article
- Article
- Full-length RNA transcript sequencing traces brain isoform diversity in house mouse natural populations.Genome research · 2024Article
- Massively integrated coexpression analysis reveals transcriptional regulation, evolution and cellular implications of the yeast noncanonical translatome.Genome biology · 2024Article
- A P-type pentatricopeptide repeat protein ZmRF5 promotes 5' region partial cleavages of atp6c transcripts to restore the fertility of CMS-C maize by recruiting a splicing factor.Plant biotechnology journal · 2024Article
- Gene birth in a model of non-genic adaptation.BMC biology · 2023Article
- Towards understanding paleoclimate impacts on primate de novo genes.G3 (Bethesda, Md.) · 2023Article
- Spatiotemporal Regulation of a Single Adaptively Evolving Trans-Regulatory Element Contributes to Spermatogenetic Expression Divergence in Drosophila.Molecular biology and evolution · 2022Article
6 more citing papers are in PubMed but not listed here.
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5 authors.
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Abstract
backgroundThe origin of new genes with novel functions creates genetic and phenotypic diversity in organisms. To acquire functional roles, new genes must integrate into ancestral gene-gene interaction (GGI) networks. The mechanisms by which new genes are integrated into ancestral networks, and their evolutionary significance, are yet to be characterized. Herein, we present a study investigating the rates and patterns of new gene-driven evolution of GGI networks in the human and mouse genomes.
resultsWe examine the network topological and functional evolution of new genes that originated at various stages in the human and mouse lineages by constructing and analyzing three different GGI datasets. We find a large number of new genes integrated into GGI networks throughout vertebrate evolution. These genes experienced a gradual integration process into GGI networks, starting on the network periphery and gradually becoming highly connected hubs, and acquiring pleiotropic and essential functions. We identify a few human lineage-specific hub genes that have evolved brain development-related functions. Finally, we explore the possible underlying mechanisms driving the GGI network evolution and the observed patterns of new gene integration process.
conclusionsOur results unveil a remarkable network topological integration process of new genes: over 5000 new genes were integrated into the ancestral GGI networks of human and mouse; new genes gradually acquire increasing number of gene partners; some human-specific genes evolved into hub structure with critical phenotypic effects. Our data cast new conceptual insights into the evolution of genetic networks.
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