Mining museums for historical DNA: advances and challenges in museomics
Historical DNA (hDNA), obtained from museum and herbarium specimens, has yielded
spectacular new insights into the history of organisms. This includes documenting historical …
spectacular new insights into the history of organisms. This includes documenting historical …
Inferring the mammal tree: species-level sets of phylogenies for questions in ecology, evolution, and conservation
Big, time-scaled phylogenies are fundamental to connecting evolutionary processes to
modern biodiversity patterns. Yet inferring reliable phylogenetic trees for thousands of …
modern biodiversity patterns. Yet inferring reliable phylogenetic trees for thousands of …
New approaches for inferring phylogenies in the presence of paralogs
The availability of whole genome sequences was expected to supply essentially unlimited
data for phylogenetics. However, strict reliance on single-copy genes for this purpose has …
data for phylogenetics. However, strict reliance on single-copy genes for this purpose has …
Fast coalescent-based computation of local branch support from quartet frequencies
Species tree reconstruction is complicated by effects of incomplete lineage sorting,
commonly modeled by the multi-species coalescent model (MSC). While there has been …
commonly modeled by the multi-species coalescent model (MSC). While there has been …
The evolution of a tropical biodiversity hotspot
The tropics are the source of most biodiversity yet inadequate sampling obscures answers to
fundamental questions about how this diversity evolves. We leveraged samples assembled …
fundamental questions about how this diversity evolves. We leveraged samples assembled …
Phylogenomic insights into the evolution of stinging wasps and the origins of ants and bees
Summary The stinging wasps (Hymenoptera: Aculeata) are an extremely diverse lineage of
hymenopteran insects, encompassing over 70,000 described species and a diversity of life …
hymenopteran insects, encompassing over 70,000 described species and a diversity of life …
[PDF][PDF] Phylogenomics reveals ancient gene tree discordance in the amphibian tree of life
Molecular phylogenies have yielded strong support for many parts of the amphibian Tree of
Life, but poor support for the resolution of deeper nodes, including relationships among …
Life, but poor support for the resolution of deeper nodes, including relationships among …
Why do phylogenomic data sets yield conflicting trees? Data type influences the avian tree of life more than taxon sampling
Phylogenomics, the use of large-scale data matrices in phylogenetic analyses, has been
viewed as the ultimate solution to the problem of resolving difficult nodes in the tree of life …
viewed as the ultimate solution to the problem of resolving difficult nodes in the tree of life …
Phylogenomic subsampling and the search for phylogenetically reliable loci
N Mongiardino Koch - Molecular biology and evolution, 2021 - academic.oup.com
Phylogenomic subsampling is a procedure by which small sets of loci are selected from
large genome-scale data sets and used for phylogenetic inference. This step is often …
large genome-scale data sets and used for phylogenetic inference. This step is often …
To include or not to include: the impact of gene filtering on species tree estimation methods
With the increasing availability of whole genome data, many species trees are being
constructed from hundreds to thousands of loci. Although concatenation analysis using …
constructed from hundreds to thousands of loci. Although concatenation analysis using …