ArticleNature communications2018
Comparative expression profiling reveals widespread coordinated evolution of gene expression across eukaryotes.
Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Beyond the Classics: The Synergy of AI and Genomics Reveals an Expanded Repertoire of Pigmentation Genes.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2026Review
- Population-scale gene expression analysis reveals the contribution of expression diversity to the modern wheat improvement.Nature communications · 2025Article
- Calcium starvation leads to strain-specific gene regulation of lipid and carotenoid production in Mucor circinelloides.G3 (Bethesda, Md.) · 2025Article
- Salicylic Acid-Induced Expression Profiles of LRR and LRR-RLK Candidate Genes ModulatePlants (Basel, Switzerland) · 2024Article
- Expression and Immune Response Profiles in Nile Tilapia (International journal of molecular sciences · 2024Article
- Comparative analysis of lipid and flavonoid biosynthesis between Pongamia and soybean seeds: genomic, transcriptional, and metabolic perspectives.Biotechnology for biofuels and bioproducts · 2024Article
- How do you build a nectar spur? A transcriptomic comparison of nectar spur development inFrontiers in plant science · 2023Article
- Novel Insight into the Potential Role of Acylglycerophosphate Acyltransferases Family Members on Triacylglycerols Synthesis in Buffalo.International journal of molecular sciences · 2022Article
- Modular Evolution of the Drosophila Metabolome.Molecular biology and evolution · 2022Article
- Annotation depth confounds direct comparison of gene expression across species.BMC bioinformatics · 2021Article
- Genetic dissection of flowering time in flax (Linum usitatissimum L.) through single- and multi-locus genome-wide association studies.Molecular genetics and genomics : MGG · 2021Article
- Identification and characterization of proteins of unknown function (PUFs) in Clostridium thermocellum DSM 1313 strains as potential genetic engineering targets.Biotechnology for biofuels · 2021Article
- A network-based comparative framework to study conservation and divergence of proteomes in plant phylogenies.Nucleic acids research · 2021Article
- Gene expression of functionally-related genes coevolves across fungal species: detecting coevolution of gene expression using phylogenetic comparative methods.BMC genomics · 2020Article
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2 authors.
Funding
Abstract
Comparative studies of gene expression across species have revealed many important insights, but have also been limited by the number of species represented. Here we develop an approach to identify orthologs between highly diverged transcriptome assemblies, and apply this to 657 RNA-seq gene expression profiles from 309 diverse unicellular eukaryotes. We analyzed the resulting data for coevolutionary patterns, and identify several hundred protein complexes and pathways whose expression levels have evolved in a coordinated fashion across the trillions of generations separating these species, including many gene sets with little or no within-species co-expression across environmental or genetic perturbations. We also detect examples of adaptive evolution, for example of tRNA ligase levels to match genome-wide codon usage. In sum, we find that comparative studies from extremely diverse organisms can reveal new insights into the evolution of gene expression, including coordinated evolution of some of the most conserved protein complexes in eukaryotes.
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