Tree Visualization By One Table (tvBOT): a web application for visualizing, modifying and annotating phylogenetic trees

Abstract

tvBOT is a user-friendly and efficient web application for visualizing, modifying, and annotating phylogenetic trees. It is highly efficient in data preparation without requiring redundant style and syntax data. Tree annotations are powered by a data-driven engine that only requires practical data organized in uniform formats and saved as one table file. A layer manager is developed to manage annotation dataset layers, allowing the addition of a specific layer by selecting the columns of a corresponding annotation data file. Furthermore, tvBOT renders style adjustments in real-time and diversified ways. All style adjustments can be made on a highly interactive user interface and are available for mobile devices. The display engine allows the changes to be updated and rendered in real-time. In addition, tvBOT supports the combination display of 26 annotation dataset types to achieve multiple formats for tree annotations with reusable phylogenetic data. Besides several publication-ready graphics formats, JSON format can be exported to save the final drawing state and all related data, which can be shared with other users, uploaded to restore the final drawing state for re-editing or used as a style template for quickly retouching a new tree file. tvBOT is freely available at: https://www.chiplot.online/tvbot.html.

Discovery of two novel tilapia lake virus‐like virus isolates in the transcriptomic data of guppy fish (Poecilia reticulata)

“…Selection of the best-fit model of nucleotide substitution was then conducted based on the Bayesian information criterion (BIC). The trees were visualized in a radial layout using tvBOT on the ChiPlot v2.5 platform (https://www.chipl ot.onlin e/tvbot.html) (Xie et al, 2023).…”

CF2–II Alternative Splicing Isoform Regulates the Expression of Xenobiotic Tolerance-Related Cytochrome P450 CYP6CY22 in Aphis gossypii Glover

“…online/#Phylogenetic-Tree). 32 The CF 2 structural domain was analyzed with SMART (http://smart.embl-heidelberg.de/) and the Conserved Domain Architecture Retrieval Tool (https://www.ncbi. nlm.nih.gov/Structure/lexington/lexington.cgi).…”

Functional specialization of cytochromeb5prior to the invention of syringyl lignin biosynthesis

“…1000 ultrafast bootstrap and 1000 SHaLRT tests were performed to determine branch support (Supplemental File 1 and 2). The tree visualization and annotation were performed in TVBOT (Xie et al 2023).…”