Application of phylogenetic networks in evolutionary studies.

By Daniel H. Huson, David Bryant. Molecular biology and evolution, 2006

8,455 citations recorded by the source corpus.

Subfields: Genetics, Molecular Biology, Paleontology

View Paper: https://www.semanticscholar.org/paper/6470ef44832d4889c1b89b189cffa9df7f128b70

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Citations in the corpus

PhyloNet: a software package for analyzing and reconstructing reticulate evolutionary relationships (2008, methodology): “The SplitsTree4 tool, which incorporates several algorithms that have been developed by Daniel Huson and his co-workers, is a tool for reconstructing and visualizing splits networks [11].”
A Simple and Robust Statistical Test for Detecting the Presence of Recombination (2006, methodology): “2000; Fearnhead and Donnelly 2001) or a phylogenetic network (Huson and Bryant 2006) approach could be particularly useful Figure 4.”
Paraphyletic groups as natural units of biological classification (2010, neutral): “At the present time Split-Networks and Reticulate Networks are the most popular types of these analyses (Huson & Bryant, 2006; Grünewald & al., 2007).”
Improved methods for predicting peptide binding affinity to MHC class II molecules (2018, methodology): “These trees were then combined into a consensus tree and visualized in SplitsTree (32).”
A molecular phylogeny, morphology and classification of genera of Ranunculeae (Ranunculaceae) (2010, methodology): “The support for each of these splits is then measured using a least-squares method that adjusts the lengths of the splits in the splits graph so as to minimize the difference with the pairwise distances in the original data matrix (Bryant & Moulton, 2004; Huson & Bryant, 2006).”
Genomic and Chemical Diversity in Cannabis (2015, background): “genesis events, some of which may be incongruent with one another (Huson and Bryant, 2006).”
The phylogenomic forest of bird trees contains a hard polytomy at the root of Neoaves (2016, methodology): “To test for a hard polytomy, I generated phylogenetic networks in Splitstree4 (Huson & Bryant 2006) using publicly available trees/data sets (Jarvis et al. 2014, 2015; Prum et al. 2015; Suh et al. 2015).”
The cryptic and the apparent reversed: lack of genetic differentiation within the morphologically diverse plexus of the planktonic foraminifer Globigerinoides sacculifer (2013, methodology): “Phylogenetic trees were computed using PhyML, version 3.0 (Guindon and Gascuel 2003) and a Median-Joining network (Bandelt et al. 1999) was obtained using Splitstree v. 4.11.3 (Huson and Bryant 2006).”
Historical biogeography and life‐history evolution of Andean Puya (Bromeliaceae) (2013, methodology): “Nei–Li distances (Nei & Li, 1979) were generated and analysed in the program SplitsTree4, version 4.12.4 (Huson & Bryant, 2006).”
Phylogeny and comparative phylogeography of Sclerurus (Aves: Furnariidae) reveal constant and cryptic diversification in an old radiation of rain forest understorey specialists (2013, methodology): “To evaluate the existence of significant evidence of recombination in Fib7, the pairwise homoplasy index (PHI) test (Bruen et al., 2006) was performed for each lineage using SplitsTree 4.10 (Huson & Bryant, 2006).”