A5074433679- Plant Diversity and Evolution
- Botanical Research and Applications
- Genomics and Phylogenetic Studies
- Genetic diversity and population structure
- Plant tissue culture and regeneration
- Insect Utilization and Effects
- Microplastics and Plastic Pollution
- Cassava research and cyanide
- Plant and Biological Electrophysiology Studies
- Plant Parasitism and Resistance
- Nanoparticles: synthesis and applications
- Chemical synthesis and alkaloids
- Plant Stress Responses and Tolerance
- Protein Hydrolysis and Bioactive Peptides
- Plant Micronutrient Interactions and Effects
- Graphene and Nanomaterials Applications
- Plant Gene Expression Analysis
- Plant Taxonomy and Phylogenetics
- biodegradable polymer synthesis and properties
- Plant and Fungal Species Descriptions
- Legume Nitrogen Fixing Symbiosis
- Mycorrhizal Fungi and Plant Interactions
Virginia Sea Grant
2023-2024
Virginia Tech
2023-2024
University of Cambridge
2017-2023
University of Minnesota
2017
Abstract Gene tree discordance in large genomic data sets can be caused by evolutionary processes such as incomplete lineage sorting and hybridization, well model violation, errors processing, orthology inference, gene estimation. Species methods that identify accommodate all sources of conflict are not available, but a combination multiple approaches help tease apart alternative conflict. Here, using phylotranscriptomic analysis with reference genomes, we test hypothesis ancient...
Summary Diverse natural products are synthesized in plants by specialized metabolic enzymes, which often lineage‐specific and derived from gene duplication followed functional divergence. However, little is known about the contribution of primary metabolism to evolution pathways. Betalain pigments, uniquely found plant order Caryophyllales, aromatic amino acid l ‐tyrosine (Tyr) replaced otherwise ubiquitous phenylalanine‐derived anthocyanins. This study combined biochemical, molecular...
The Caryophyllales contain ~12,500 species and are known for their cosmopolitan distribution, convergence of trait evolution, extreme adaptations. Some relationships within the Caryophyllales, like those many large plant clades, remain unclear, phylogenetic studies often recover alternative hypotheses. We explore utility broad dense transcriptome sampling across order resolving evolutionary in Caryophyllales.We generated 84 transcriptomes combined these with 224 publicly available to perform...
Several plant lineages have evolved adaptations that allow survival in extreme and harsh environments including many families within the clade Portulacineae (Caryophyllales) such as Cactaceae, Didiereaceae, Montiaceae. Here, using newly generated transcriptomic data, we reconstructed phylogeny of examined potential correlates between molecular evolution adaptation to environments. Our phylogenetic results were largely congruent with previous analyses, but identified several early diverging...
PREMISE OF STUDY: The carnivorous members of the large, hyperdiverse Caryophyllales (e.g., Venus flytrap, sundews, and Nepenthes pitcher plants) represent perhaps oldest most diverse lineage plants. However, despite numerous studies seeking to elucidate their evolutionary relationships, early‐diverging relationships remain unresolved. METHODS: To explore utility phylogenomic data sets for resolving among Caryophyllales, we sequenced 10 transcriptomes, including all genera except those in...
Summary The evolution of l ‐ DOPA 4,5‐dioxygenase activity, encoded by the gene DODA , was a key step in origin betalain biosynthesis Caryophyllales. We previously proposed that activity evolved via single Caryophyllales‐specific neofunctionalisation event within lineage. However, this has not been confirmed and lineage exhibits numerous duplication events, whose evolutionary significance is unclear. To address this, we functionally characterised 23 distinct proteins for from four...
Cultivated meat, a sustainable alternative to traditional livestock farming, has gained attention for its potential environmental and health benefits. However, concerns about microplastic contamination pose challenges, especially when sourcing cells from marine organisms prone bioaccumulation. Additionally, the pervasive presence of microplastics in laboratory settings, ingredients, during production, increases risk unintentional contamination. This study focused on Atlantic mackerel (...
L-Tyrosine-derived specialized metabolites perform many important functions in plants, and have valuable applications human health nutrition. A necessary step the overproduction of specialised tyrosine-derived planta is manipulation primary metabolism to enhance availability tyrosine. Here, we utilise a naturally occurring de-regulated isoform key enzyme, arogenate dehydrogenase, re-engineer interface metabolism, boost production pigments heterologous plant host. Through tyrosine...
Drought stress is one of the major threats to agriculture and concomitantly food production. Tomato most important industrial crops, but its tolerance water scarcity very low. Traditional plant breeding has a limited margin minimize this requirement. In order design novel biotechnological approaches cope with problem, we have screened cDNA library from halotolerant crop sugar beet (Beta vulgaris L.) for genes able confer drought/osmotic yeast model system upon overexpression. We identified...
We describe a field and laboratory workflow developed for plant phylotranscriptomic projects that involves cryogenic tissue collection in the field, RNA extraction quality control, library preparation. also make recommendations sample curation.A total of 216 frozen samples Caryophyllales other angiosperm taxa were collected from or botanical gardens. was extracted, stranded mRNA libraries prepared, sequenced on Illumina HiSeq platforms. These included difficult mucilaginous tissues such as...
Arbuscular mycorrhiza (AM) are mutualistic interactions formed between soil fungi and plant roots. AM symbiosis is a fundamental widespread trait in plants with the potential to sustainably enhance future crop yields. However, improving fungal association species requires understanding of host colonisation dynamics across varying agronomic ecological contexts. To this end, we demonstrate use betalain pigments as vivo visual markers for occurrence distribution by Rhizophagus irregularis...
ABSTRACT The carnivorous members of the large, hyperdiverse Caryophyllales (e.g. Venus flytrap, sundews and Nepenthes pitcher plants) represent perhaps oldest most diverse lineage plants. However, despite numerous studies seeking to elucidate their evolutionary relationships, early-diverging relationships remain unresolved. To explore utility phylogenomic data sets for resolving among Caryophyllales, we sequenced ten transcriptomes, including all genera except those in rare West African...
This work revisits a publication by Bean et al. (2018) that reports seven amino acid substitutions are essential for the evolution of l-DOPA 4,5-dioxygenase (DODA) activity in Caryophyllales. In this study, we explore several concerns which led us to replicate analyses (2018). Our comparative analyses, with structural modelling, implicate numerous residues additional those identified (2018), many these occurring around active site BvDODAα1. We therefore replicated re-observe effect their...
Abstract Gene tree discordance in large genomic datasets can be caused by evolutionary processes such as incomplete lineage sorting and hybridization, well model violation, errors data processing, orthology inference, gene estimation. Species methods that identify accommodate all sources of conflict are not available, but a combination multiple approaches help tease apart alternative conflict. Here, using phylotranscriptomic analysis with reference genomes, we test hypothesis ancient...
Abstract Several plant lineages have evolved adaptations that allow survival in extreme and harsh environments including many within the clade Portulacineae (Caryophyllales) such as Cactaceae, Didiereaceae of Madagascar, high altitude Montiaceae. Here, using newly generated transcriptomic data, we reconstructed phylogeny examine potential correlates between molecular evolution this adaptation to environments. Our phylogenetic results were largely congruent with previous analyses, but...
Abstract Developing low-cost media is one of the major challenges in cellular agriculture domain. Thus, this study aimed to develop for cell-cultivated seafood using gut-microbial community-assisted fermentation. Black soldier fly larvae ( Hermetia illucens ) were used as substrate and exposed gut microbial communities isolated from Blue catfish Ictalurus furcatus ). In first step, BSFL slurry was subjected enzymatic digestion, pepsin trypsin mimic animal digestive processes. The results...
This study aimed to develop low-cost media for cell-cultivated seafood using gut-microbial community-assisted fermentation. Black soldier fly larvae (Hermetia illucens) were used as the substrate and exposed gut microbial communities isolated from blue catfish (Ictalurus furcatus). Fermentation led a decrease in species richness, with loss of important chitinase protease-producing genera such Pseudomonas Clostridiaceae. However, there was an increase Paraclostridium members...
Abstract Cultivated meat, a sustainable alternative to traditional livestock farming, has gained attention for its potential environmental and health benefits. However, concerns about microplastic contamination pose challenges, especially when sourcing cells from marine organisms prone bioaccumulation. Additionally, the pervasive presence of microplastics in laboratory settings, ingredients, during production, increases risk unintentional contamination. This study focused on Atlantic...