By bridging statistical phylogenetics with geometric representation learning, HyphAeon establishes comparative genomics as an interactive, high-throughput computational framework for evolutionary discovery.
The Decelerating cluster is enriched for core informational machinery, including translation initiation factors and components of the expressome, the molecular complex physically coupling transcription and translation, suggesting that transcription-translation interfaces locked in early in bacterial history.
H. Hassler, Tanisha Gupta, Anton S. Petrov et al.· bioRxiv· 0 citations
The findings demonstrate the broad-scale impact of TE-dependent genome evolution during ant adaptive radiation and suggest that similar comparative analyses across other major lineages will be worthwhile to reconstruct the wider macroevolutionary impact of TEs.
Lukas Schrader, Janina L. Rinke, M. Errbii et al.· Science Advances· 1 citation
Resolving deep phylogenetic relationships within Coleoptera remains challenging despite recent advances in phylogenomics. Here, we reconstruct relationships among beetle lineages to the subfamily level and evaluate how locus filtering, substitution models, and matrix completeness affect the recovered topology. We assem...
He-Hao Ye, Zi-Chen Zhou, Fiona L. Carpenter et al.· Molecular Phylogenetics and...· 0 citations
LGvar is presented, a divergence-aware tool for identifying SVs in population-scale and cross-species genome assemblies, enabling up to a 7-fold increase in the detection of large deletions, insertions, inversions and complex rearrangements.
The results suggest that modest numbers of mutations suffice to reconstruct clonal tree topologies for typical numbers of clones, supporting subsampling as a general strategy for managing the challenges of ever-growing data.
N. Bristy, Russell Schwartz· Bioinformatics Advances· 0 citations
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