A5068273422- Plant and animal studies
- Plant and Fungal Species Descriptions
- Plant Diversity and Evolution
- Biomedical Text Mining and Ontologies
- Genomics and Phylogenetic Studies
- Species Distribution and Climate Change
- Plant Parasitism and Resistance
- Ecology and Vegetation Dynamics Studies
- Semantic Web and Ontologies
- Botany, Ecology, and Taxonomy Studies
- Conservation, Biodiversity, and Resource Management
- Botany and Plant Ecology Studies
- Wildlife Conservation and Criminology Analyses
- Plant Pathogens and Fungal Diseases
- Bryophyte Studies and Records
- Wildlife-Road Interactions and Conservation
- Environmental law and policy
- Innovative Teaching Methods
- Botanical Studies and Applications
- Diverse Educational Innovations Studies
- Animal and Plant Science Education
- Innovative Teaching and Learning Methods
- Lichen and fungal ecology
- Coral and Marine Ecosystems Studies
- Rangeland and Wildlife Management
Clemson University
2021-2025
University of Florida
2008-2023
University of Bonn
2023
Ronin Institute
2018
Government of Canada
2018
Agriculture and Agri-Food Canada
2018
University of Birmingham
2018
University Hospitals Birmingham NHS Foundation Trust
2018
National Center for Ecological Analysis and Synthesis
2018
University of California, Santa Barbara
2018
Orchids are the most diverse family of angiosperms, with over 25 000 species,more than mammals, birds and reptiles combined. Tests hypotheses to account for such diversity have been stymied by lack a fully resolved broad-scale phylogeny. Here,we provide phylogeny, based on 75 chloroplast genes 39 species representing all orchid subfamilies 16 17 tribes, time-calibrated against angiosperm fossils. Asupermatrix analysis places an additional 144 three plastid genes. appear arisen roughly 112...
Abstract Aim Orchidaceae is the most species‐rich angiosperm family and has one of broadest distributions. Until now, lack a well‐resolved phylogeny prevented analyses orchid historical biogeography. In this study, we use such to estimate geographical spread orchids, evaluate importance different regions in their diversification assess role long‐distance dispersal ( LDD ) generating diversity. Location Global. Methods Analyses including species representing all five subfamilies almost tribes...
Abstract Premise Bryophytes form a major component of terrestrial plant biomass, structuring ecological communities in all biomes. Our understanding the evolutionary history hornworts, liverworts, and mosses has been significantly reshaped by inferences from molecular data, which have highlighted extensive homoplasy various traits repeated bursts diversification. However, timing key events phylogeny, patterns, processes diversification across bryophytes remain unclear. Methods Using GoFlag...
Ecuador has among the world’s highest biodiversity, despite being a tiny fraction of land area. The threat extinction for some this biodiversity dramatically increased since April 2016, during which time Ecuadorian government opened around 13% country to mining exploration, with many concessions in previously protected forests. Herein, we describe system lands Ecuador, their laws, and outline scale by comparing mammals, amphibians, reptiles, birds, orchids from several now threatened areas,...
PREMISE New sequencing technologies facilitate the generation of large‐scale molecular data sets for constructing plant tree life. We describe a new probe set target enrichment to generate nuclear sequence build phylogenetic trees with any flagellate land plants, including hornworts, liverworts, mosses, lycophytes, ferns, and all gymnosperms. METHODS leveraged existing transcriptome genome design GoFlag 451 probes, 56,989 probes exons that are found in 248 single‐copy or low‐copy genes...
Phylogenetic relationships within the orchid subtribe Oncidiinae sensu Chase were inferred using maximum likelihood analyses of single and multilocus DNA sequence data sets. Analyses included both nuclear ribosomal internal transcribed spacer plastid regions (matK exon, trnH-psbA intergenic two portions ycf1 exon) for 736 individuals representing approximately 590 species plus seven outgroup taxa. Based on well resolved highly supported results, we recognize 61 genera in Oncidiinae. Mimicry...
The orchid genus Maxillaria is one of the largest and most common neotropical genera, but its current generic boundaries relationships have long been regarded as artificial. Phylogenetic within subtribe Maxillariinae sensu Dressler (1993) with emphasis on s.l. were inferred using parsimony analyses individual combined DNA sequence data. We analyzed a matrix nrITS DNA, plastid matK gene flanking trnK intron, atpB-rbcL intergenic spacer for 619 individuals representing ca. 354 species. rpoC1...
Abstract Background and Aims Resolving the phylogeny of hornworts is critical in understanding evolution key morphological characters that are unique to group, including pyrenoid. Extensive phylogenomic analyses have revealed unexpected complexities placement Leiosporoceros, previously identified sister taxon other hornworts. We explore role incomplete lineage sorting (ILS) ancient reticulation resolving interrelationships comprehending diversification evolutionary processes within Methods...
Un reciente análisis filogenético de cuatro regiones ADN para ca. 354 especies la subtribu Maxillariinae indican fuertemente que el género Maxillaria, en su circunscripción tradicional, es altamente polifilético. Presentamos una nueva clasificación filogenética reconoce 17 géneros.Los cambios necesarios incluyen: 1) resurrección los géneros Camaridium, Heterotaxis, y Ornithidium; 2) reconocimiento recientes segregados genéricos Brasiliorchis (=Maxillaria secciónRepentes), Christensonella...
La forma y el olor de los labelos las orquídeas del género Dracula se asemejan a hongos, por mucho tiempo ha mantenido la hipótesis que estas mimetizan hongos dípteros con ciclos vida asociados (micófilos) accidentalmente polinizarían flores mientras ovopositan. morfología floral, polinizadores mecanismos polinización fueron estudiados en lafleurii Luer & Dalström and D. felix (Luer) un bosque nublado Ecuador. Estas son efectivamente visitadas su mayoría moscas micófilas pero...
A recent phylogenetic analysis of four DNA regions for ca. 354 species core Maxillariinae strongly indicate that the genus Maxillaria, as traditionally circumscribed, is grossly polyphyletic. We present a new classification recognizes 17 genera. Necessary realignments include: 1) resurrection genera Camaridium, Heterotaxis, and Ornithidium; 2) recognition segregates Brasiliorchis (=Maxillaria sect. Repentes), Christensonella Urceolatae), Nitidobulbon (in press), recircumscribed Sauvetrea...
Premise of the Study Phenotypic data sets are necessary to elucidate genealogy life, but assembling phenotypic for taxa across tree life can be technically challenging and prohibitively time consuming. We describe a semi‐automated protocol facilitate expedite assembly character matrices plants from formal taxonomic descriptions. This pipeline uses new natural language processing ( NLP ) techniques glossary over 9000 botanical terms. Methods Results Our includes Explorer Taxon Concepts ETC ),...
In 2008, Ecuador recognized the Constitutional Rights of Nature in a global first. This recognition implies major shift human-nature relationship, from one between subject with agency (humans) and an exploitable object (nature), to more equilibrated relationship. However, lack standard legal framework has left room for subjective interpretations variable implementation. The recent widespread concessioning pristine ecosystems mining industries set up unprecedented conflict test these rights....
Con más de 200 especies, la tribu orquídeas Sobralieae es un componente importante riqueza florística los neotrópicos. Actualmente esta está constituída por cuatro géneros: Elleanthus, Epilyna, Sertifera, y Sobralia. Las plantas éstos géneros generalmente producen tallos largos como cañas, pero difieren en forma drástica el tamaño flor estructura las inflorescencias. Datos ADN apoyan monofilia no Sobralia ensamblaje polifilético, tradicionalmente circunscrito gran sus flores....
Abstract Taxonomic descriptions contain valuable phenotypic data that is often not directly accessible for modern evolutionary, ecological, or biodiversity analyses. We describe a process building consensus‐based controlled vocabulary from taxonomic plants, which also can be applied vocabularies other taxon groups. Controlled are useful as lexicons text mining algorithms, source of candidate terms ontologies, and guides to help future authors use domain more appropriately consistently....
Premise of the Study Many ecological and evolutionary processes shape assembly organisms into local communities from a regional pool species. We analyzed phylogenetic functional diversity to understand community ferns Florida at two spatial scales. Methods built phylogeny for 125 141 species in using five chloroplast markers. calculated mean pairwise dissimilarity ( MPD ) nearest taxon distance MNTD distances trait data both scales compared results null models assess significance. Key...
The need to create controlled vocabularies such as ontologies for knowledge organization and access has been widely recognized in various domains. Despite the indispensable of thorough domain ontology construction, most software tools construction are designed engineers not experts use. differences opinions different terminology usages source literature rarely addressed by existing software. OTO was developed based on Agile principles. Through iterations release user feedback, new features...
ABSTRACT Premise of the study New sequencing technologies enable possibility generating large-scale molecular datasets for constructing plant tree life. We describe a new probe set target enrichment to generate nuclear sequence data build phylogenetic trees with any flagellate plants, comprising hornworts, liverworts, mosses, lycophytes, ferns, and gymnosperms. Methods Results leveraged existing transcriptome genome design 56,989 probes 451 exons non-coding flanking regions across lineages....
•While numerous software packages enable scientists to evaluate molecular data and transform them for phylogenetic analyses, few such tools exist phenomic data. We introduce MatrixConverter, a program that helps expedite facilitate the transformation of raw character into discrete matrices can be used in most evolutionary inference programs. •MatrixConverter is an open source written Java; platform-independent binary executable, as well sample sets user's manual, are available at...
Bryophytes are emerging as the sister-group to extant vascular plants, and their current diversity highlights that life cycle characterized by a dominating vegetative gametophyte an unbranched sporophyte composes successful alternative of plants sporophyte.The evolutionary history hornworts, liverworts mosses remains, however, poorly resolved, due in part small character space from which draw shared ancestry.Our understanding diversification these lineages has been significantly reshaped...
Although most phylogenetic investigations are motivated by questions about the evolution of morphological attributes, data increasingly rare as a source characters for reconstructing phylogeny, in part because these attributes time consuming to collect. Here we describe methods mine information contained classifications characters, using classification actiniarian sea anemones (Cnidaria: Anthozoa) our exemplar system. Our natural language processing pipeline recovers more than 400...