ArticleBMC bioinformatics2014
MLGO: phylogeny reconstruction and ancestral inference from gene-order data.
Article in BMC bioinformatics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 59 papers.
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Who cites it
59 citing papers in PubMed.
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- Major Revisions in Pancrustacean Phylogeny and Evidence of Sensitivity to Taxon Sampling.Molecular biology and evolution · 2023Review
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- The chromosome-scale genome assembly of cluster bean provides molecular insight into edible gum (galactomannan) biosynthesis family genes.Scientific reports · 2023Article
- Evolutionary timescale of chalcidoid wasps inferred from over one hundred mitochondrial genomes.Zoological research · 2023Article
- Evaluating impacts of syntenic block detection strategies on rearrangement phylogeny using Mycobacterium tuberculosis isolates.Bioinformatics (Oxford, England) · 2023Article
- A high-quality Buxus austro-yunnanensis (Buxales) genome provides new insights into karyotype evolution in early eudicots.BMC biology · 2022Article
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- Complex mitogenomic rearrangements within the Pectinidae (Mollusca: Bivalvia).BMC ecology and evolution · 2022Article
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- Genome Characterization, Comparison and Phylogenetic Analysis of Complete Mitochondrial Genome ofLife (Basel, Switzerland) · 2021Article
- 18S rRNA variability maps reveal three highly divergent, conserved motifs within Rotifera.BMC ecology and evolution · 2021Article
- Whole-genome microsynteny-based phylogeny of angiosperms.Nature communications · 2021Article
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3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe rapid accumulation of whole-genome data has renewed interest in the study of using gene-order data for phylogenetic analyses and ancestral reconstruction. Current software and web servers typically do not support duplication and loss events along with rearrangements.
resultsMLGO (Maximum Likelihood for Gene-Order Analysis) is a web tool for the reconstruction of phylogeny and/or ancestral genomes from gene-order data. MLGO is based on likelihood computation and shows advantages over existing methods in terms of accuracy, scalability and flexibility.
conclusionsTo the best of our knowledge, it is the first web tool for analysis of large-scale genomic changes including not only rearrangements but also gene insertions, deletions and duplications. The web tool is available from http://www.geneorder.org/server.php .
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