Complexity of avian evolution revealed by family-level genomes
Despite tremendous efforts in the past decades, relationships among main avian lineages
remain heavily debated without a clear resolution. Discrepancies have been attributed to …
remain heavily debated without a clear resolution. Discrepancies have been attributed to …
Transcription factors evolve faster than their structural gene targets in the flavonoid pigment pathway
Dissecting the relationship between gene function and substitution rates is key to
understanding genome-wide patterns of molecular evolution. Biochemical pathways provide …
understanding genome-wide patterns of molecular evolution. Biochemical pathways provide …
Synthesis of nuclear and chloroplast data combined with network analyses supports the polyploid origin of the apple tribe and the hybrid origin of the Maleae …
Plant biologists have debated the evolutionary origin of the apple tribe (Maleae; Rosaceae)
for over a century. The “wide-hybridization hypothesis” posits that the pome-bearing …
for over a century. The “wide-hybridization hypothesis” posits that the pome-bearing …
On the need for new measures of phylogenomic support
RC Thomson, JM Brown - Systematic Biology, 2022 - academic.oup.com
The scale of data sets used to infer phylogenies has grown dramatically in the last decades,
providing researchers with an enormous amount of information with which to draw …
providing researchers with an enormous amount of information with which to draw …
Confusion will be my epitaph: genome-scale discordance stifles phylogenetic resolution of Holothuroidea
N Mongiardino Koch, E Tilic… - … of the Royal …, 2023 - royalsocietypublishing.org
Sea cucumbers (Holothuroidea) are a diverse clade of echinoderms found from intertidal
waters to the bottom of the deepest oceanic trenches. Their reduced skeletons and limited …
waters to the bottom of the deepest oceanic trenches. Their reduced skeletons and limited …
Phylogenomics AND biogeography of Castanea (chestnut) and Hamamelis (witch-hazel)–Choosing between RAD-seq and Hyb-Seq approaches
Hyb-Seq and RAD-seq are well-established high throughput sequencing technologies that
have been increasingly used for plant phylogenomic studies. Each method has its own pros …
have been increasingly used for plant phylogenomic studies. Each method has its own pros …
Molecular phylogeny and inflorescence evolution of Prunus (Rosaceae) based on RAD-seq and genome skimming analyses
N Su, RGJ Hodel, X Wang, JR Wang, SY Xie, CX Gui… - Plant Diversity, 2023 - Elsevier
Prunus is an economically important genus widely distributed in the temperate Northern
Hemisphere. Previous studies on the genus using a variety of loci yielded conflicting …
Hemisphere. Previous studies on the genus using a variety of loci yielded conflicting …
The implications of incongruence between gene tree and species tree topologies for divergence time estimation
Phylogenetic analyses are increasingly being performed with data sets that incorporate
hundreds of loci. Due to incomplete lineage sorting, hybridization, and horizontal gene …
hundreds of loci. Due to incomplete lineage sorting, hybridization, and horizontal gene …
Transcriptome data from silica-preserved leaf tissue reveal gene flow patterns in a Caribbean bromeliad
Abstract Background and Aims Transcriptome sequencing is a cost-effective approach that
allows researchers to study a broad range of questions. However, to preserve RNA for …
allows researchers to study a broad range of questions. However, to preserve RNA for …
ClockstaRX: testing molecular clock hypotheses with genomic data
Phylogenomic data provide valuable opportunities for studying evolutionary rates and
timescales. These analyses require theoretical and statistical tools based on molecular …
timescales. These analyses require theoretical and statistical tools based on molecular …