ArticleMolecular genetics and genomics : MGG2007
Dating the early evolution of plants: detection and molecular clock analyses of orthologs.
Article in Molecular genetics and genomics : MGG, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.
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49 citing papers in PubMed.
- Molecular genetic examination of Circadian Clock Associated 1 gene (CCA1) in hexaploid wheat.BMC plant biology · 2026Article
- Pan-microalgal dark proteome mapping via interpretable deep learning and synthetic chimeras.Patterns (New York, N.Y.) · 2025Article
- Elucidation of the 1-phenethylisoquinoline pathway from an endemic coniferProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Submergence of the filamentous Zygnematophyceae Mougeotia induces differential gene expression patterns associated with core metabolism and photosynthesis.Protoplasma · 2022Article
- Genome-Wide Identification, Characterization, and Comparative Analysis ofFrontiers in plant science · 2022Article
- Genome of the world's smallest flowering plant, Wolffia australiana, helps explain its specialized physiology and unique morphology.Communications biology · 2021Article
- Evolution of Fungal Carbohydrate-Active Enzyme Portfolios and Adaptation to Plant Cell-Wall Polymers.Journal of fungi (Basel, Switzerland) · 2021Review
- The Journey from Two-Step to Multi-Step Phosphorelay Signaling Systems.Current genomics · 2021Review
- Plant glucose transporter structure and function.Pflugers Archiv : European journal of physiology · 2020Review
- Article
- Evo-physio: on stress responses and the earliest land plants.Journal of experimental botany · 2020Article
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- DNA transposon activity is associated with increased mutation rates in genes of rice and other grasses.Nature communications · 2016Article
- An Innate Immunity Pathway in the Moss Physcomitrella patens.The Plant cell · 2016Article
- Article
- Phylogenomic Analyses Indicate that Early Fungi Evolved Digesting Cell Walls of Algal Ancestors of Land Plants.Genome biology and evolution · 2015Article
- Evolutionary relationships among barley and Arabidopsis core circadian clock and clock-associated genes.Journal of molecular evolution · 2015Article
- Insights from the cold transcriptome of Physcomitrella patens: global specialization pattern of conserved transcriptional regulators and identification of orphan genes involved in cold acclimation.The New phytologist · 2015Article
- Phylogenetic Patterns of Codon Evolution in the ACTIN-DEPOLYMERIZING FACTOR/COFILIN (ADF/CFL) Gene Family.PloS one · 2015Article
- The making of a genomic parasite - the Mothra family sheds light on the evolution of Helitrons in plants.Mobile DNA · 2015Article
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6 authors.
Funding
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Abstract
Orthologs generally are under selective pressure against loss of function, while paralogs usually accumulate mutations and finally die or deviate in terms of function or regulation. Most ortholog detection methods contaminate the resulting datasets with a substantial amount of paralogs. Therefore we aimed to implement a straightforward method that allows the detection of ortholog clusters with a reduced amount of paralogs from completely sequenced genomes. The described cross-species expansion of the reciprocal best BLAST hit method is a time-effective method for ortholog detection, which results in 68% truly orthologous clusters and the procedure specifically enriches single-copy orthologs. The detection of true orthologs can provide a phylogenetic toolkit to better understand evolutionary processes. In a study across six photosynthetic eukaryotes, nuclear genes of putative mitochondrial origin were shown to be over-represented among single copy orthologs. These orthologs are involved in fundamental biological processes like amino acid metabolism or translation. Molecular clock analyses based on this dataset yielded divergence time estimates for the red/green algae (1,142 MYA), green algae/land plant (725 MYA), mosses/seed plant (496 MYA), gymno-/angiosperm (385 MYA) and monocotyledons/core eudicotyledons (301 MYA) divergence times.
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