A5026095223- Evolution and Genetic Dynamics
- Aquatic Ecosystems and Phytoplankton Dynamics
- Genetic diversity and population structure
- CRISPR and Genetic Engineering
- Chromosomal and Genetic Variations
- Genomics and Phylogenetic Studies
- Plant and animal studies
- Aquatic Invertebrate Ecology and Behavior
- Fish Ecology and Management Studies
- Algal biology and biofuel production
- Insect symbiosis and bacterial influences
- Genetics, Aging, and Longevity in Model Organisms
- Plant Molecular Biology Research
- Genetics, Bioinformatics, and Biomedical Research
- Microbial Community Ecology and Physiology
- Glycosylation and Glycoproteins Research
- Physiological and biochemical adaptations
- Insect Resistance and Genetics
- Environmental DNA in Biodiversity Studies
- Genetic and phenotypic traits in livestock
- DNA Repair Mechanisms
- Biocrusts and Microbial Ecology
- Bioinformatics and Genomic Networks
- Marine Biology and Ecology Research
- Freshwater macroinvertebrate diversity and ecology
University of Missouri
2023-2025
Jining Medical University
2024
The University of Texas at Arlington
2017-2023
Thermo Fisher Scientific (United States)
2023
Indiana University Bloomington
2012-2017
University of Windsor
2009-2013
York University
2011
University of Amsterdam
2007
It has been argued that the evolution of plant genome size is principally unidirectional and increasing owing to varied action whole-genome duplications (WGDs) mobile element proliferation. However, extreme reductions have reported in angiosperm family tree. Here we report sequence 82-megabase carnivorous bladderwort Utricularia gibba. Despite its tiny size, U. gibba accommodates a typical number genes for plant, with main difference from other genomes arising drastic reduction non-genic...
Significance Drawing from whole-genome sequences of multiple genotypes, this study documents the molecular-genetic consequences loss recombination in a microcrustacean, demonstrating that heterozygosity via gene conversion-like processes is dramatically more powerful force than accumulation new mutations.
The extreme rarity of asexual vertebrates in nature is generally explained by genomic decay due to absence meiotic recombination, thus leading extinction such lineages. We explore features a vertebrate genome, the Amazon molly, Poecilia formosa, and find few signs genetic degeneration but unique variability ongoing evolution. uncovered substantial clonal polymorphism and, as conserved feature from its interspecific hybrid origin, 10-fold higher heterozygosity than sexual parental species....
Comparing genomes of closely related genotypes from populations with distinct demographic histories can help reveal the impact effective population size on genome evolution. For this purpose, we present a high quality assembly Daphnia pulex (PA42), and compare first sequenced species (TCO), which was derived an isolate >90% reduction in nucleotide diversity. PA42 has numerous similarities to TCO at gene level, average amino acid sequence identity 98.8 >60% orthologous proteins identical....
A major question in our understanding of eukaryotic biodiversity is whether small bodied taxa have cosmopolitan distributions or consist geographically localized cryptic taxa. Here, we explore the global phylogeography freshwater cladoceran Polyphemus pediculus (Linnaeus, 1761) (Crustacea, Onychopoda) using two mitochondrial genes, cytochrome c oxidase subunit I and 16s ribosomal RNA, one nuclear marker, 18s RNA. The results neighbour-joining Bayesian phylogenetic analyses reveal an...
Despite the great utility of mitochondrial DNA (mtDNA) sequence data in population genetics and phylogenetics, key parameters describing process mutation (e.g., rate spectrum mutational change) are based on few direct estimates. Furthermore, variation mtDNA within species or between lineages with contrasting reproductive strategies remains poorly understood. In this study, we directly estimate using Daphnia pulex mutation-accumulation (MA) lines derived from sexual (cyclically...
Hybridization plays a potentially important role in the origin of obligate parthenogenesis (OP) many organisms. However, it remains controversial whether hybridization directly triggers transition from sexual reproduction to asexuality or hybrid genetic background enables asexual species persist. Furthermore, we know little about specific elements divergent, yet still hybridizing lineages responsible for this and how these are further spread create other OP lineages. In study, address...
Abstract The molecular mechanisms leading to asexuality remain little understood despite their substantial bearing on why sexual reproduction is dominant in nature. Here, we examine the role of hybridization origin and spread obligate D aphnia pulex , arguably best‐documented case contagious asexuality. Obligately parthenogenetic ( OP ) clones D. have traditionally been separated into ‘hybrid’ Ldh SF ‘nonhybrid’ SS forms because lactase dehydrogenase locus distinguishes cyclically CP lake...
Abstract Genetic linkage maps are critical for assembling draft genomes to a meaningful chromosome level and deciphering the genomic underpinnings of biological traits. The estimates recombination rates derived from genetic also play an important role in understanding multiple aspects evolution such as nucleotide substitution patterns accumulation deleterious mutations. In this study, we developed high-throughput experimental approach that combines fluorescence-activated cell sorting,...
Abstract Population structure can be described by genotypic-correlation coefficients between groups of individuals, the most basic which are pairwise relatedness any two individuals. There nine in general model, and we show that these reduced to seven for biallelic loci. Although all estimated from pedigrees, six have been beyond empirical reach. We provide a numerical optimization procedure estimates population-genomic data. Simulations is nearly unbiased, even at 3× coverage, errors five...
The origin and maintenance of sex remains one the most debated topics in evolutionary biology. Investigations molecular genetic consequences asexuality, such as direct estimation mutation recombination rates asexual lineages, are critical for explaining prevalence nature. In this study, we use long-term accumulation lines asexually propagating Daphnia pulex D. obtusa to examine role hemizygous deletion ameiotic (crossover gene conversion) evolution taxa. Large-scale deletions ranging from 2...
In this study we investigate the extent to which successive range fragmentations, postglacial expansions, and recolonizations influenced intraspecific genetic diversity patterns of diversification in freshwater zooplankton. Specifically, explore global phylogeography Holarctic predatory cladoceran Leptodora kindtii Focke, 1844. Phylogenetic analyses based on mitochondrial cytochrome c oxidase subunit I recover seven deeply divergent lineages (11.8–20.0%) comprising two sister clades within...
Investigating the phylogenetic relationships within physiologically essential gene families across a broad range of taxa can reveal key duplication events underlying their family expansion and is thus important to functional genomics studies. P-Type II ATPases represent large ATP powered transporters that move ions cellular membranes includes Na(+)/K(+) transporters, H(+)/K(+) plasma membrane Ca(2+) pumps. Here, we examine evolutionary history one such transporter, Sarco(endo)plasmic...
Abstract Although the analysis of linkage disequilibrium (LD) plays a central role in many areas population genetics, sampling variance LD is known to be very large with high sensitivity numbers nucleotide sites and individuals sampled. Here we show that genome-wide distribution heterozygous within single diploid genome can yield highly informative patterns as function physical distance. The proposed statistic, correlation zygosity, closely related conventional population-level measure LD,...
In lepidopterous larvae the maxillary palps contain a large portion of sensory equipment insect. Yet, knowledge about sensitivity these cells is limited. this paper morphological, behavioral, and electrophysiological investigation Yponomeuta cagnagellus (Lepidoptera: Yponomeutidae) presented. addition to thermoreceptors, CO(2) receptors, gustatory evidence reported for existence two groups receptor sensitive plant volatiles. Cells that are mainly (E)-2-hexenal hexanal or (Z)-3-hexen-1-ol...
<ns4:p>We developed a Gene Annotation Easy Viewer (GAEV) that integrates the gene annotation data from KEGG (Kyoto Encyclopedia of Genes and Genomes) Automatic Server. GAEV generates an easy-to-read table summarizes query name, KO (KEGG Orthology) number, name orthologs, functional definition ortholog, pathways has been mapped to. Via links to pathway maps, users can directly examine interaction between products involved in same molecular pathway. We provide usage example by annotating newly...
Abstract Despite increasing empirical evidence that chromosomal rearrangements may play an important role in adaptive divergence and speciation, the degree to which divergent genomic regions are associated with remains unclear. In this study, we provide first whole-genome analyses of ecological speciation evolution a Daphnia species complex, using chromosome-scale assemblies natural-population sequencing recently diverged pair, pulicaria pulex , occupy distinct yet overlapping habitats North...
Cyclical parthenogenesis, where females can engage in sexual or asexual reproduction depending on environmental conditions, represents a novel reproductive phenotype that emerged during eukaryotic evolution. The fact conditions trigger cyclical parthenogens to distinct modes strongly suggests gene expression plays key role the origin of parthenogenesis. However, genetic basis underlying parthenogenesis remains understudied. In this study, we characterize female transcriptomic signature...
Understanding the relationship between mutations and their genomic phenotypic consequences has been a longstanding goal of evolutionary biology. However, few studies have investigated impact on gene expression alternative splicing genome-wide scale. In this study, we aim to bridge knowledge gap by utilizing whole-genome sequencing data RNA from 16 obligately parthenogenetic