The interkingdom horizontal gene transfer in 44 early diverging fungi boosted their metabolic, adaptive and immune capabilities

Supplemental Material. The dataset includes all phylogenetic trees for supported and unsupported HGTs in NHX format. Maximum likelihood (ML) trees were inferred using IqTree [1] with automated model selection. The pipeline to detect horizontally transfered protein-encoding genes in a set of proteomes. 1. Minh BQ, Schmidt HA, Chernomor O, Schrempf D, Woodhams MD, von Haeseler A, et al. IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era. Mol Biol Evol. 2020;37: 1530–1534.补充材料。 本数据集包含所有经支持与未支持的水平基因转移（Horizontal Gene Transfer, HGT）事件的系统发育树，格式为NHX。研究采用IqTree [1] 结合自动化模型选择流程构建最大似然（Maximum Likelihood, ML）树。 本流程用于在一组蛋白质组中检测水平转移的蛋白质编码基因。 1. Minh BQ, Schmidt HA, Chernomor O, Schrempf D, Woodhams MD, von Haeseler A, 等. IQ-TREE 2：基因组时代的系统发育推断新模型与高效方法. 分子生物学与进化. 2020;37: 1530–1534.