C. Donovan Bailey
YOU?
Author Swipe
View article: DNA methylation cooperates with genomic alterations during non-small cell lung cancer evolution
DNA methylation cooperates with genomic alterations during non-small cell lung cancer evolution Open
Aberrant DNA methylation has been described in nearly all human cancers, yet its interplay with genomic alterations during tumor evolution is poorly understood. To explore this, we performed reduced representation bisulfite sequencing on 2…
View article: Tumor-Infiltrating Clonal Hematopoiesis
Tumor-Infiltrating Clonal Hematopoiesis Open
TI-CH increased the risk of disease recurrence or death among patients with NSCLC and the risk of death from any cause among patients with solid tumors. TI-CH remodeled the tumor immune microenvironment and accelerated tumor organoid growt…
View article: Radiation exposure induces genome-wide alternative splicing events in Aedes aegypti mosquitoes
Radiation exposure induces genome-wide alternative splicing events in Aedes aegypti mosquitoes Open
View article: Prospective validation of ORACLE, a clonal expression biomarker associated with survival of patients with lung adenocarcinoma
Prospective validation of ORACLE, a clonal expression biomarker associated with survival of patients with lung adenocarcinoma Open
View article: Phylogenomics and the rise of the angiosperms
Phylogenomics and the rise of the angiosperms Open
View article: Global Brassicaceae phylogeny based on filtering of 1,000-gene dataset
Global Brassicaceae phylogeny based on filtering of 1,000-gene dataset Open
View article: A Hyb‐Seq phylogeny of <i>Boechera</i> and related genera using a combination of Angiosperms353 and Brassicaceae‐specific bait sets
A Hyb‐Seq phylogeny of <i>Boechera</i> and related genera using a combination of Angiosperms353 and Brassicaceae‐specific bait sets Open
Premise Although Boechera (Boechereae, Brassicaceae) has become a plant model system for both ecological genomics and evolutionary biology, all previous phylogenetic studies have had limited success in resolving species relationships withi…
View article: An updated classification of the Brassicaceae (Cruciferae)
An updated classification of the Brassicaceae (Cruciferae) Open
Based on recent achievements in phylogenetic studies of the Brassicaceae, a novel infrafamilial classification is proposed that includes major improvements at the subfamilial and supertribal levels. Herein, the family is subdivided into tw…
View article: Supplementary Materials for Precipitation is the main axis of tropical plant phylogenetic turnover across space and time
Supplementary Materials for Precipitation is the main axis of tropical plant phylogenetic turnover across space and time Open
Jens J. Ringelberg, Erik J. M. Koenen, Benjamin Sauter, Anahita Aebli, Juliana G. Rando, João R. Iganci, Luciano P. de Queiroz, Daniel J. Murphy, Myriam Gaudeu, Anne Bruneau, Melissa Luckow, Gwilym P. Lewis, Joseph T. Miller, Marcelo F. Si…
View article: Precipitation is the main axis of tropical plant phylogenetic turnover across space and time
Precipitation is the main axis of tropical plant phylogenetic turnover across space and time Open
Early natural historians—Comte de Buffon, von Humboldt, and De Candolle—established environment and geography as two principal axes determining the distribution of groups of organisms, laying the foundations for biogeography over the subse…
View article: Global Phylogeny of the Brassicaceae Provides Important Insights into Gene Discordance
Global Phylogeny of the Brassicaceae Provides Important Insights into Gene Discordance Open
The mustard family (Brassicaceae) is a scientifically and economically important family, containing the model plant Arabidopsis thaliana and numerous crop species that feed billions worldwide. Despite its relevance, most published family p…
View article: Precipitation is the main axis of tropical phylogenetic turnover across space and time
Precipitation is the main axis of tropical phylogenetic turnover across space and time Open
Early natural historians – Compte de Buffon, von Humboldt and De Candolle – established ecology and geography as two principal axes determining the distribution of groups of organisms, laying the foundations for biogeography over the subse…
View article: Allele-informed copy number evaluation of plasma DNA samples from metastatic prostate cancer patients: the PCF_SELECT consortium assay
Allele-informed copy number evaluation of plasma DNA samples from metastatic prostate cancer patients: the PCF_SELECT consortium assay Open
Sequencing of cell-free DNA (cfDNA) in cancer patients’ plasma offers a minimally-invasive solution to detect tumor cell genomic alterations to aid real-time clinical decision-making. The reliability of copy number detection decreases at l…
View article: The best of both worlds: Combining lineage‐specific and universal bait sets in target‐enrichment hybridization reactions
The best of both worlds: Combining lineage‐specific and universal bait sets in target‐enrichment hybridization reactions Open
Premise Researchers adopting target‐enrichment approaches often struggle with the decision of whether to use universal or lineage‐specific probe sets. To circumvent this quandary, we investigate the efficacy of a simultaneous enrichment by…
View article: A draft genome and transcriptome of common milkweed ( <i>Asclepias syriaca</i> ) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae
A draft genome and transcriptome of common milkweed ( <i>Asclepias syriaca</i> ) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae Open
Milkweeds ( Asclepias ) are used in wide-ranging studies including floral development, pollination biology, plant-insect interactions and co-evolution, secondary metabolite chemistry, and rapid diversification. We present a transcriptome a…
View article: Peer Review #1 of "A draft genome and transcriptome of common milkweed (Asclepias syriaca) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae (v0.1)"
Peer Review #1 of "A draft genome and transcriptome of common milkweed (Asclepias syriaca) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae (v0.1)" Open
Milkweeds (Asclepias) are used in wide-ranging studies including floral development, pollination biology, plant-insect interactions and co-evolution, secondary metabolite chemistry, and rapid diversification.We present a transcriptome and …
View article: The evolutionary history of <i>Leucaena</i>: Recent research, new genomic resources and future directions
The evolutionary history of <i>Leucaena</i>: Recent research, new genomic resources and future directions Open
Keynote paper presented at the International Leucaena Conference, 1‒3 November 2018, Brisbane, Queensland, Australia.Ancestral genome duplication, genomic diploidization, allopatric diploid speciation and recent allotetraploidy (hybrid tet…
View article: Strategies to breed sterile leucaena for Western Australia
Strategies to breed sterile leucaena for Western Australia Open
Keynote paper presented at the International Leucaena Conference, 1‒3 November 2018, Brisbane, Queensland, Australia.Strategies to breed sterile leucaena for Western Australia include plant breeding and biotechnology tools to generate ster…
View article: A draft genome and transcriptome of common milkweed ( <i>Asclepias syriaca</i> ) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae
A draft genome and transcriptome of common milkweed ( <i>Asclepias syriaca</i> ) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae Open
Milkweeds ( Asclepias ) are used in wide-ranging studies including floral development, pollination biology, plant-insect interactions and co-evolution, secondary metabolite chemistry, and rapid diversification. We present a transcriptome a…
View article: Resolving the backbone of the Brassicaceae phylogeny for investigating trait diversity
Resolving the backbone of the Brassicaceae phylogeny for investigating trait diversity Open
Summary The Brassicaceae family comprises c . 4000 species including economically important crops and the model plant Arabidopsis thaliana . Despite their importance, the relationships among major lineages in the family remain unresolved, …
View article: PacBio-Based Mitochondrial Genome Assembly of Leucaena trichandra (Leguminosae) and an Intrageneric Assessment of Mitochondrial RNA Editing
PacBio-Based Mitochondrial Genome Assembly of Leucaena trichandra (Leguminosae) and an Intrageneric Assessment of Mitochondrial RNA Editing Open
Reconstructions of vascular plant mitochondrial genomes (mt-genomes) are notoriously complicated by rampant recombination that has resulted in comparatively few plant mt-genomes being available. The dearth of plant mitochondrial resources …
View article: Deciphering the sexual diploid members of the Boechera suffrutescens complex (Brassicaceae, Boechereae)
Deciphering the sexual diploid members of the Boechera suffrutescens complex (Brassicaceae, Boechereae) Open
Boechera is a model genus that is of particular interest for understanding apomixis due to the presence of numerous apomictic diploid lineages that are tightly correlated with hybridisation events. Boechera includes many narrowly distribut…
View article: A draft genome and transcriptome of common milkweed (<i>Asclepias syriaca</i>) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae
A draft genome and transcriptome of common milkweed (<i>Asclepias syriaca</i>) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae Open
Milkweeds ( Asclepias ) are used in wide-ranging studies including floral development, pollination biology, plant-insect interactions and co-evolution, secondary metabolite chemistry, and rapid diversification. We present a transcriptome a…
View article: The genome and transcriptome of common milkweed ( <i>Asclepias syriaca</i> ): resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae
The genome and transcriptome of common milkweed ( <i>Asclepias syriaca</i> ): resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae Open
Milkweeds ( Asclepias ) are used in wide-ranging studies including floral development, pollination biology, plant-insect interactions and co-evolution, secondary metabolite chemistry, and rapid diversification. We present the first nuclear…
View article: Corrigendum: Coupled enhancer and coding sequence evolution of a homeobox gene shaped leaf diversity
Corrigendum: Coupled enhancer and coding sequence evolution of a homeobox gene shaped leaf diversity Open
View article: Fat Body Organ Culture System in <em>Aedes Aegypti</em>, a Vector of Zika Virus
Fat Body Organ Culture System in <em>Aedes Aegypti</em>, a Vector of Zika Virus Open
The insect fat body plays a central role in insect metabolism and nutrient storage, mirroring functions of the liver and fat tissue in vertebrates. Insect fat body tissue is usually distributed throughout the insect body. However, it is of…
View article: A new subfamily classification of the Leguminosae based on a taxonomically comprehensive phylogeny: The Legume Phylogeny Working Group (LPWG)
A new subfamily classification of the Leguminosae based on a taxonomically comprehensive phylogeny: The Legume Phylogeny Working Group (LPWG) Open
The classification of the legume family proposed here addresses the long‐known non‐monophyly of the traditionally recognised subfamily Caesalpinioideae, by recognising six robustly supported monophyletic subfamilies. This new classificatio…
View article: Coupled enhancer and coding sequence evolution of a homeobox gene shaped leaf diversity
Coupled enhancer and coding sequence evolution of a homeobox gene shaped leaf diversity Open
Here we investigate mechanisms underlying the diversification of biological forms using crucifer leaf shape as an example. We show that evolution of an enhancer element in the homeobox gene REDUCED COMPLEXITY ( RCO ) altered leaf shape by …
View article: Mimosoid legume plastome evolution: IR expansion, tandem repeat expansions and accelerated rate of evolution in clpP
Mimosoid legume plastome evolution: IR expansion, tandem repeat expansions and accelerated rate of evolution in clpP Open
View article: Plastid genome sequences of legumes reveal parallel inversions and multiple losses of<i>rps16</i>in papilionoids
Plastid genome sequences of legumes reveal parallel inversions and multiple losses of<i>rps16</i>in papilionoids Open
To date, publicly available plastid genomes of legumes have for the most part been limited to the subfamily Papilionoideae. Here we report 13 new plastid genomes of legumes spanning all three subfamilies. The genomes representing Caesalpin…