A5065195330- Chromosomal and Genetic Variations
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Plant responses to water stress
- Genomics and Phylogenetic Studies
- Plant Stress Responses and Tolerance
- Genetic and Environmental Crop Studies
- Coastal wetland ecosystem dynamics
- Papaya Research and Applications
- Horticultural and Viticultural Research
- RNA and protein synthesis mechanisms
- Genetic diversity and population structure
- Genetic Mapping and Diversity in Plants and Animals
- Animal Genetics and Reproduction
- Bioinformatics and Genomic Networks
- Plant and animal studies
- Insect Resistance and Genetics
- Plant biochemistry and biosynthesis
- Neurobiology and Insect Physiology Research
- Plant Pathogens and Fungal Diseases
- Chromatography in Natural Products
- Cocoa and Sweet Potato Agronomy
- Fermentation and Sensory Analysis
- Phytochemical Studies and Bioactivities
- Plant Molecular Biology Research
- Postharvest Quality and Shelf Life Management
The Ohio State University
2020-2025
University of Chicago
2014-2019
University of Illinois Urbana-Champaign
2008-2015
In the early 1990s an outbreak of papaya ringspot virus (PRSV) in groves Puna district Hawaii caused severe damage to important crop. Since then, planting two transgenic cultivars resistant — called 'SunUp' and 'Rainbow' has helped maintain yields. SunUp is a red-fleshed fruit that expresses coat protein gene mild mutant PRSV, conferring resistance via post-transcriptional silencing. Rainbow yellow-fleshed (and therefore more popular) F1 hybrid bred from SunUp. Now draft genome sequence...
The genus Oryza is a model system for the study of molecular evolution over time scales ranging from few thousand to 15 million years. Using 13 reference genomes spanning species tree, we show that despite large-scale chromosomal rearrangements rapid diversification mirrored by lineage-specific emergence and turnover many novel elements, including transposons, potential new coding noncoding genes. Our resolves controversial areas phylogeny, showing complex history introgression among...
Abstract Background Sacred lotus is a basal eudicot with agricultural, medicinal, cultural and religious importance. It was domesticated in Asia about 7,000 years ago, cultivated for its rhizomes seeds as food crop. particularly noted 1,300-year seed longevity exceptional water repellency, known the effect. The latter property due to nanoscopic closely packed protuberances of self-cleaning leaf surface, which have been adapted manufacture industrial paint, Lotusan. Results genome China...
Sex determination in papaya is controlled by a recently evolved XY chromosome pair, with two slightly different Y chromosomes controlling the development of males (Y) and hermaphrodites (Y h ). To study events early sex evolution, we sequenced hermaphrodite-specific region (HSY) its X counterpart, yielding an 8.1-megabase (Mb) HSY pseudomolecule, 3.5-Mb sequence for corresponding region. The larger than region, mostly due to retrotransposon insertions. differs from large-scale inversions,...
The origin of new genes with novel functions creates genetic and phenotypic diversity in organisms. To acquire functional roles, must integrate into ancestral gene-gene interaction (GGI) networks. mechanisms by which are integrated networks, their evolutionary significance, yet to be characterized. Herein, we present a study investigating the rates patterns gene-driven evolution GGI networks human mouse genomes.We examine network topological that originated at various stages lineages...
Sex in papaya is controlled by a pair of nascent sex chromosomes. Females are XX, and two slightly different Y chromosomes distinguish males (XY) hermaphrodites (XY h ). The hermaphrodite-specific region the chromosome (HSY) its X counterpart were sequenced analyzed previously. We now report sequence entire male-specific (MSY). used BAC-by-BAC approach to MSY resequence regions 24 wild 12 cultivated hermaphrodites. HSY have highly similar gene content structure, only 0.4% divergence....
Global flooding events are becoming more frequent due to climate change. Depending on the intensity, can cause below-ground plant tissues become waterlogged and above-ground partially or fully submerged, leading hypoxic environments. These conditions damage tissue, chlorosis senescence, typically halting growth development, resulting in significant yield loss. Many economically important Brassicaceae crops susceptible stress, such as Brassica napus (canola), oleracea (broccoli, cabbage,...
X chromosomes have long been thought to conserve the structure and gene content of ancestral autosome from which sex evolved. We compared recently evolved papaya with a homologous close relative, monoecious Vasconcellea monoica , infer changes since recombination stopped between chromosomes. sequenced 12 V. bacterial artificial chromosomes, 11 corresponding X-specific region, 1 autosomal region. The combined X-orthologous sequences are much shorter (1.10 Mb) than region (2.56 Mb). Given that...
It is a conventionally held dogma that the genetic basis underlying development conserved in long evolutionary time scale. Ample experiments based on mutational, biochemical, functional, and complementary knockdown/knockout approaches have revealed unexpectedly important role of recently evolved new genes Drosophila. The recent progress genome-wide experimental testing gene effects improvements computational identification (< 40 million years ago, Mya) open door to investigate evolution...
Abstract Background Papaya is a major fruit crop in tropical and subtropical regions worldwide. It trioecious with three sex forms: male, female, hermaphrodite. Sex determination controlled by pair of nascent chromosomes two slightly different Y chromosomes, for male h The chromosome genotypes are XY (male), (hermaphrodite), XX (female). papaya hermaphrodite-specific region (HSY) pericentromeric heterochromatic. Physical mapping HSY its X counterpart essential sequencing these uncovering the...
Many winter annual crops, such as pennycress (Thlaspi arvense L.), are subjected to heavy precipitation events during their growing season. Therefore, it is essential identify accessions with natural variation in flooding resilience. We used climate modeling data assess spring soil moisture levels the geographic origins of 471 accessions. selected 34 predicted and tested survivability under prolonged waterlogging at rosette stage. It took seven weeks for first die, indicating that hardy...
Pennycress ( Thlaspi arvense ) is a promising intermediate oilseed crop, producing oil suitable for conversion to biofuels—including aviation fuels. While domestication efforts are ongoing, deeper understanding of the genetic architecture traits crucial informing future breeding efforts. Here, we conducted largest genomic and phenotypic survey pennycress date, analyzing 739 accessions collected across four continents. Leveraging whole-genome sequencing field-collected phenotypes,...
Abstract The structure of eukaryotic genes evolves extensively by intron loss or gain. Previous studies have revealed two models for gene evolution through the introns: RNA-based conversion, dubbed Fink model and retroposition model. However, retrogenes that experienced both intron-retaining events been ignored; evolutionary processes responsible variation in complex exon-intron were unknown. We detected hundreds retroduplication-derived human (Homo sapiens), fly (Drosophila melanogaster),...
Wild grapevines are important genetic resources in breeding programs to confer adaptive fitness traits and unique fruit characteristics, but the genetics underlying these traits, their evolutionary origins, largely unknown. To determine factors that contributed grapevine genome diversification, we performed comprehensive intragenomic intergenomic analyses with three cultivated European (including PN40024 reference genome) two wild North American genomes, including our newly released Vitis...
Papaya is a major fruit crop in the tropics and has recently evolved sex chromosomes. Towards sequencing papaya chromosomes, two bacterial artificial chromosome (BAC) libraries were constructed from male female genomic DNA. The BAC library was using restriction enzyme Bst Y I consists of 36,864 clones with an average insert size 104 kb, providing 10.3x genome equivalents. Eco R 55,296 101 15.0x used constructing physical map male‐specific region (MSY) filling gaps extending...
Abstract Field pennycress ( Thlaspi arvense ) is a new biofuel winter annual crop with extreme cold hardiness and short life cycle, enabling off-season integration into corn soybean rotations across the Midwest. Pennycress fields are susceptible to snow melt spring rainfall, leading waterlogged soils. The objective of this research was determine if waterlogging during reproductive stage had significant effect on gene expression, morphology, physiology, recovery, yield two lines (SP32-10...
ABSTRACT It is a conventionally held dogma that the genetic basis underlying development conserved in long evolutionary time scale. Ample experiments based on mutational, biochemical, functional, and complementary knockdown/knockout approaches have revealed unexpectedly important role of recently evolved new genes Drosophila . The recent progress analyses gene effects improvements computational identification genes, which has led to large sample sizes open door investigate evolution...
Agricultural weeds may originate from wild populations, but the origination patterns and genetics underlying this transition remain largely unknown. Analysis of weedy-wild paired populations independent locations provide evidence to identify key genetic variation contributing adaptive shift. We performed expression analyses on transcriptome data 67 giant ragweed samples collected different in Ohio, Iowa, Minnesota found geographically separated weedy likely originated independently their...