ArticlePLoS biology2024
The promise and pitfalls of synteny in phylogenomics.
Article in PLoS biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
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- Comparative genomics and biomineralization potential of a native ureolytic Bacillus sp. N₉ for microbially induced calcite precipitation.World journal of microbiology & biotechnology · 2026Article
- Near chromosome-level genome assembly of Neomusotima conspurcatalis gives insights into the evolution of moth genome architecture and fern-insect interactions.G3 (Bethesda, Md.) · 2026Article
- The 3D architecture of the ctenophore aboral organ and the evolution of complex integrative centers in animals.Science advances · 2026Article
- Toward a genomic understanding of the tree of life.Molecular biology and evolution · 2026Article
- Unravelling the thread of Podarcis omics; insights into the genome and transcriptome of the Cretan wall lizard.Genes & genomics · 2026Article
- In-silico identification, characterization and expression analysis of salt overly sensitive-2 (SOS2) gene family in Gossypium hirsutum L. against abiotic stresses.Scientific reports · 2025Article
- Towards a Research Programme Aiming at Causes and Consequences of Reticulate Evolution.Biology · 2025Review
- A chromosome-level assembly and functional genomic resources for the model annelidbioRxiv : the preprint server for biology · 2025Article
- SOI: robust identification of orthologous synteny with the Orthology Index and broad applications in evolutionary genomics.Nucleic acids research · 2025Article
- Unbiased anchors for reliable genome-wide synteny detection.Algorithms for molecular biology : AMB · 2025Article
- Decontamination of DNA sequences from a Streptomyces genome for optimal genome mining.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2025Article
- Fusion, fission, and scrambling of the bilaterian genome in Bryozoa.Genome research · 2025Article
- Comprehensive analysis of 111 Pleuronectiformes mitochondrial genomes: insights into structure, conservation, variation and evolution.BMC genomics · 2025Article
- Scaffolded and annotated nuclear and organelle genomes of the North American brown algaFrontiers in genetics · 2025Article
- Unraveling the Mysteries of Sleep: Exploring Phylogenomic Sleep Signals in the Recently Characterized Archaeal Phylum Lokiarchaeota near Loki's Castle.International journal of molecular sciences · 2024Article
- Annelid Comparative Genomics and the Evolution of Massive Lineage-Specific Genome Rearrangement in Bilaterians.Molecular biology and evolution · 2024Article
- Trees as a metaphor to understand relationships in biology.PLoS biology · 2024Article
Corrections and comments
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2 authors.
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Abstract
Reconstructing the tree of life remains a central goal in biology. Early methods, which relied on small numbers of morphological or genetic characters, often yielded conflicting evolutionary histories, undermining confidence in the results. Investigations based on phylogenomics, which use hundreds to thousands of loci for phylogenetic inquiry, have provided a clearer picture of life's history, but certain branches remain problematic. To resolve difficult nodes on the tree of life, 2 recent studies tested the utility of synteny, the conserved collinearity of orthologous genetic loci in 2 or more organisms, for phylogenetics. Synteny exhibits compelling phylogenomic potential while also raising new challenges. This Essay identifies and discusses specific opportunities and challenges that bear on the value of synteny data and other rare genomic changes for phylogenomic studies. Synteny-based analyses of highly contiguous genome assemblies mark a new chapter in the phylogenomic era and the quest to reconstruct the tree of life.
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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 Socratic graph.