Easy353: a tool to get Angiosperms353 genes for phylogenomic research
The Angiosperms353 gene set (AGS) consists of a set of 353 universal low-copy nuclear
genes that were selected by examining more than 600 angiosperm species. These genes …
genes that were selected by examining more than 600 angiosperm species. These genes …
[HTML][HTML] The sequenced angiosperm genomes and genome databases
Angiosperms, the flowering plants, provide the essential resources for human life, such as
food, energy, oxygen, and materials. They also promoted the evolution of human, animals …
food, energy, oxygen, and materials. They also promoted the evolution of human, animals …
A comprehensive phylogenomic platform for exploring the angiosperm tree of life
The tree of life is the fundamental biological roadmap for navigating the evolution and
properties of life on Earth, and yet remains largely unknown. Even angiosperms (flowering …
properties of life on Earth, and yet remains largely unknown. Even angiosperms (flowering …
New targets acquired: Improving locus recovery from the Angiosperms353 probe set
PREMISE Universal target enrichment kits maximize utility across wide evolutionary breadth
while minimizing the number of baits required to create a cost‐efficient kit. The …
while minimizing the number of baits required to create a cost‐efficient kit. The …
Anchored phylogenomics of angiosperms I: assessing the robustness of phylogenetic estimates
An important goal of the angiosperm systematics community has been to develop a shared
approach to molecular data collection, such that phylogenomic data sets from different focal …
approach to molecular data collection, such that phylogenomic data sets from different focal …
[HTML][HTML] PlantTribes2: Tools for comparative gene family analysis in plant genomics
Plant genome-scale resources are being generated at an increasing rate as sequencing
technologies continue to improve and raw data costs continue to fall; however, the cost of …
technologies continue to improve and raw data costs continue to fall; however, the cost of …
[HTML][HTML] aTRAM-automated target restricted assembly method: a fast method for assembling loci across divergent taxa from next-generation sequencing data
Background Assembling genes from next-generation sequencing data is not only time
consuming but computationally difficult, particularly for taxa without a closely related …
consuming but computationally difficult, particularly for taxa without a closely related …
Relative performance of customized and universal probe sets in target enrichment: A case study in subtribe Malinae
Premise Custom probe design for target enrichment in phylogenetics is tedious and often
hinders broader phylogenetic synthesis. The universal angiosperm probe set …
hinders broader phylogenetic synthesis. The universal angiosperm probe set …
Capturing single‐copy nuclear genes, organellar genomes, and nuclear ribosomal DNA from deep genome skimming data for plant phylogenetics: A case study in …
With the decreasing cost and availability of many newly developed bioinformatics pipelines,
next‐generation sequencing (NGS) has revolutionized plant systematics in recent years …
next‐generation sequencing (NGS) has revolutionized plant systematics in recent years …
A new pipeline for removing paralogs in target enrichment data
Target enrichment (such as Hyb-Seq) is a well-established high throughput sequencing
method that has been increasingly used for phylogenomic studies. Unfortunately, current …
method that has been increasingly used for phylogenomic studies. Unfortunately, current …