16 Result(s)
within
Charles F. Delwiche
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Article
Open AccessErratum to: Evaluation of BLAST-based edge-weighting metrics used for homology inference with the Markov Clustering algorithm
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Article
Open AccessEvaluation of BLAST-based edge-weighting metrics used for homology inference with the Markov Clustering algorithm
Clustering protein sequences according to inferred homology is a fundamental step in the analysis of many large data sets. Since the publication of the Markov Clustering (MCL) algorithm in 2002, it has been th...
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Article
Conservation of ethylene as a plant hormone over 450 million years of evolution
Land plants evolved more than 450 million years ago from a lineage of freshwater charophyte green algae1. The extent to which plant signalling systems existed before the evolutionary transition to land is unknown...
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Chapter
An Evolutionary Perspective on the Plant Hormone Ethylene
The plant hormone ethylene plays diverse roles in growth, development, and stress responses, and has been well studied in Arabidopsis and other flowering plants, with somewhat sparser information among other land...
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Article
Open AccessPan genome of the phytoplankton Emiliania underpins its global distribution
A reference genome from the coccolithophore Emiliania huxleyi is presented, along with sequences from 13 additional isolates, revealing a pan genome comprising core genes and genes variably distributed between st...
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Article
Evaluating short-read sequence data from the highly redundant, novel transcriptome of Polarella glacialis
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Article
Evaluating short-read sequence data from the highly redundant, novel transcriptome of Polarella glacialis
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Article
Open AccessEvolution of light-harvesting complex proteins from Chl c-containing algae
Light harvesting complex (LHC) proteins function in photosynthesis by binding chlorophyll (Chl) and carotenoid molecules that absorb light and transfer the energy to the reaction center Chl of the photosystem....
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Article
Open AccessUncovering the evolutionary origin of plant molecular processes: comparison of Coleochaete (Coleochaetales) and Spirogyra (Zygnematales) transcriptomes
The large and diverse land plant lineage is nested within a clade of fresh water green algae, the charophytes. Collection of genome-scale data for land plants and other organisms over the past decade has invig...
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Article
Open AccessMolecular phylogeny of ocelloid-bearing dinoflagellates (Warnowiaceae) as inferred from SSU and LSU rDNA sequences
Dinoflagellates represent a major lineage of unicellular eukaryotes with unparalleled diversity and complexity in morphological features. The monophyly of dinoflagellates has been convincingly demonstrated, bu...
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Article
Retention of transcriptionally active cryptophyte nuclei by the ciliate Myrionecta rubra
The 'red-tide' organism Myrionecta rubra has been a curiosity to scientists since a red bloom was spotted in the Pacific during Darwin's voyage on Beagle. As the only truly phototrophic ciliate — using light as i...
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Chapter and Conference Paper
New Efficient Algorithm for Modeling Partial and Complete Gene Transfer Scenarios
In this article we describe a new method allowing one to predict and visualize possible horizontal gene transfer events. It relies either on a metric or topological optimization to estimate the probability of ...
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Article
Rate Variation as a Function of Gene Origin in Plastid-Derived Genes of Peridinin-Containing Dinoflagellates
Peridinin-pigmented dinoflagellates contain secondary plastids that seem to have undergone more nearly complete plastid genome reduction than other eukaryotes. Many typically plastid-encoded genes appear to ha...
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Chapter
Molecular Systematics of the Green Algae
Ranging from unicells to complex “plantlike” organisms that are adapted to habitats from subaerial or terrestrial to freshwater or marine, the green algae represent a diversity of life forms that offer a daunt...
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Chapter
The Origin and Evolution of Plastids and Their Genomes
Plastids, the eukaryotic organelles responsible for photosynthesis and other biochemical tasks, are semiautonomous endosymbionts derived from previously free-living cyanobacteria (Gray, 1992; Douglas, 1994; Lo...
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Chapter
The origin of plastids and their spread via secondary symbiosis
The endosymbiotic, cyanobacterial nature of plastids is clearly established, but several fundamental issues concerning the origin and early evolution of plastids remain unresolved. One key question is whether ...
