A5061472154- Plant-Microbe Interactions and Immunity
- Plant Virus Research Studies
- Genomics and Phylogenetic Studies
- Plant Parasitism and Resistance
- Legume Nitrogen Fixing Symbiosis
- Soybean genetics and cultivation
- Plant Disease Resistance and Genetics
- Transgenic Plants and Applications
- RNA and protein synthesis mechanisms
- Plant Pathogens and Fungal Diseases
- Plant Molecular Biology Research
- Thin-Film Transistor Technologies
- Silicon Nanostructures and Photoluminescence
- Chromosomal and Genetic Variations
- Plant Reproductive Biology
- Plant Pathogens and Resistance
- RNA modifications and cancer
- Nematode management and characterization studies
- Plant pathogens and resistance mechanisms
- Plant Pathogenic Bacteria Studies
- Silicon and Solar Cell Technologies
- Plant tissue culture and regeneration
- Sensory Analysis and Statistical Methods
- CRISPR and Genetic Engineering
- Multisensory perception and integration
Myongji University
2023-2024
Seoul National University
2014-2023
Ewha Womans University
2022-2023
Korea Research Institute of Bioscience and Biotechnology
2009-2021
Soonchunhyang University Hospital
2020
Kyung Hee University
2009
Korea University of Science and Technology
2009
Doil Choi and colleagues report the genome sequence of hot pepper, Capsicum annuum, as well resequencing two cultivated peppers a wild species, chinense. Comparative genomic analysis across Solanaceae provides insights into expansion, pungency, ripening disease resistance in peppers. Hot pepper (Capsicum annuum), one oldest domesticated crops Americas, is most widely grown spice crop world. We whole-genome sequencing assembly (Mexican landrace annuum cv. CM334) at 186.6× coverage. also de...
Transposable elements are major evolutionary forces which can cause new genome structure and species diversification. The role of transposable in the expansion nucleotide-binding leucine-rich-repeat proteins (NLRs), disease-resistance gene families, has been unexplored plants.We report two high-quality de novo genomes (Capsicum baccatum C. chinense) an improved reference (C. annuum) for peppers. Dynamic rearrangements involving translocations among chromosomes 3, 5, 9 were detected...
Globally, soybean is a major protein and oil crop. Enhancing our understanding of the domestication improvement process helps boost genomics-assisted breeding efforts. Here we present genome-wide variation map 10.6 million single-nucleotide polymorphisms 1.4 indels for 781 individuals which includes 418 domesticated (Glycine max), 345 wild soja), 18 natural hybrid (G. max/G. soja) accessions. We describe enhanced detection 183 domestication-selective sweeps patterns putative deleterious...
Summary Plants possess hundreds of intracellular immune receptors encoding nucleotide‐binding domain leucine‐rich repeat (NLR) proteins. Full‐length NLRs or a specific often induce plant cell death in the absence pathogen infection. In this study we used genome‐wide transient expression analysis to identify group (ANLs; ancient and autonomous NLRs) carrying autoactive coiled‐coil (CC A ) domains pepper ( Capsicum annuum ). CC ‐mediated mimics hypersensitive triggered by interaction between...
The onion (Allium cepa L.) is one of the most widely cultivated and consumed vegetable crops in world. Although a considerable amount transcriptome data has been deposited into public databases, sequences protein-coding genes are not accurate enough to be used, owing non-coding intermixed with coding sequences. We generated high-quality, annotated from de novo sequence assembly intensive structural annotation using integrated gene pipeline (ISGAP), which identified 54,165 among 165,179...
Genotyping data of a comprehensive Korean soybean collection obtained using large SNP array were used to clarify global distribution patterns and address the evolutionary history soybean. Understanding diversity evolution crop is an essential step implement strategy expand its germplasm base for improvement research. Accessions intensively collected from Korea, which small but central region in geography soybean, genotyped provide sufficient underpin population genetic questions. After...
Summary Nonhost resistance ( NHR ) is a plant immune response to resist most pathogens. The molecular basis of poorly understood, but recognition pathogen effectors by receptors, known as effector‐triggered immunity, has been proposed component . We performed transient expression 54 Phytophthora infestans RXLR in pepper Capsicum annuum accessions. used optimized heterologous methods and analyzed the inheritance effector‐induced cell death an F 2 population derived from cross between two...
Hibiscus syriacus (L.) (rose of Sharon) is one the most widespread garden shrubs in world. We report a draft H. genome comprised 1.75 Gb assembly that covers 92% with only 1.7% (33 Mb) gap sequences. Predicted gene modeling detected 87,603 genes, mostly supported by deep RNA sequencing data. To define family distribution among relatives syriacus, orthologous sets containing 164,660 genes 21,472 clusters were identified OrthoMCL analysis five plant species, including Arabidopsis thaliana,...
Summary Nonhost resistance (NHR) is a robust plant immune response against non‐adapted pathogens. A number of nucleotide‐binding leucine‐rich repeat (NLR) proteins that recognize pathogens have been identified, although the underlying molecular mechanisms driving robustness NHR are still unknown. Here, we screened 57 effectors potato late blight pathogen Phytophthora infestans in nonhost pepper ( Capsicum annuum ) to identify avirulence effector candidates. Selected were tested 436...
Pathogen effectors target diverse subcellular organelles to manipulate the plant immune system. Although nucleolus has emerged as a stress marker and several are localized in nucleolus, roles of nucleolar-targeted remain elusive. In this study, we showed that Phytophthora infestans infection Nicotiana benthamiana results nucleolar inflation during transition from biotrophic necrotrophic phase. Multiple P. were nucleolus: Pi23226 induced cell death N. similar observed stage infection, whereas...
Abstract Hot pepper ( Capsicum annuum ) is one of the most consumed vegetable crops in world and useful to human as it has many nutritional medicinal values. Genomic resources are publically available since genomes have been completed massive data such transcriptomes deposited. Nevertheless, global transcriptome profiling needed identify molecular mechanisms related agronomic traits pepper, but limited analyses published. Here, we report comprehensive analysis during fruit ripening pathogen...
During the evolution of land plants from aquatic to terrestrial environments, their aerial surfaces were surrounded by cuticle composed cutin and cuticular waxes protect them environmental stresses. Glycerol-3-phosphate acyltransferase (GPAT) harboring bifunctional sn-2 acyltransferase/phosphatase activity produces 2-monoacylglycerol, a precursor for synthesis. Here, we report that GPATs play roles in biosynthesis gametophore development Physcomitrella patens. Land plant-type was observed...
A Gram-negative micro-organism, designated strain B7(T), was isolated from tidal flat sediment and subjected to a polyphasic taxonomic study involving morphological, physiological, biochemical 16S rRNA gene sequence analyses. phylogenetic analysis based on the indicated that B7(T) belonged genus Paracoccus closely related phylogenetically marcusii MH1(T) (97.5 % similarity), marinus KKL-A5(T) %), haeundaensis BC74171(T) (97.3 carotinifaciens E-396(T) homiensis DD-R11(T) (97.2 seriniphilus...
Summary Whole‐genome annotation error that omits essential protein‐coding genes hinders further research. We developed Target Gene Family Finder ( TGFam‐Finder ), an alternative tool for the structural of containing target domain(s) interest in plant genomes. took considerably reduced run‐time and improved accuracy compared to conventional tools. Large‐scale re‐annotation 50 genomes identified average 150, 166 86 additional far‐red‐impaired response 1, nucleotide‐binding leucine‐rich‐repeat,...
Abstract Massive resequencing efforts have been undertaken to catalog allelic variants in major crop species including soybean, but the scope of information for genetic variation often depends on short sequence reads mapped extant reference genome. Additional de novo assembled genome sequences provide a unique opportunity explore dispensable fraction pan-genome species. Here, we report assembly and annotation Hwangkeum, popular soybean cultivar Korea. The was constructed using PromethION...
Peppers (Capsicum annuum L.) containing distinct capsaicinoids are the most widely cultivated spices in world. However, extreme genomic diversity among species represents an obstacle to breeding pepper.Here, we report de novo genome assemblies of Capsicum 'Early Calwonder (non-pungent, ECW)' and 'Small Fruit (pungent, SF)' along with their annotations. In total, assembled 2.9 Gb ECW SF sequences, representing over 91% estimated sizes. Structural functional annotation two pepper genomes...
NLR receptor is suggested as a component of plant nonhost resistance (NHR). However, the evolutionary process how plants develop receptors for recognizing broad-spectrum pathogens still elusive. Here, we observe that multiple RxLR effector families including 12 reported avirulence effectors Phytophthora infestans are broadly conserved across species. We select 69 distributed into 8 from 6 species, and confirm 60.87% tested recognized by Solanum NLRs according to their defined families....
Platycodon grandiflorum, generally known as the bellflower or balloon flower, is only species in genus of family Campanulaceae. plants have been traditionally used a medicinal crop East Asia for their antiphlogistic, antitussive, and expectorant properties. Despite these practical uses, marker-assisted selection molecular breeding platycodons lagged due to lack genetic information on this genus. In study, we performed RNA-seq analysis three platycodon accessions develop markers explore...
The seedlessness of grape derived from stenospermocarpy is one the most prized traits table or raisin grapes. It controlled by a complex genetic system containing dominant gene and multiple recessive genes. Here, we collected dense variation data high-depth resequencing seeded, seedless, wild relative genomes sequenced to > 37x mean depth. Variant calls were made using modified variant calling pipeline that was suitable for highly diverse interspecific accessions. enabled us call several...
Pathogen effectors can suppress various plant immune responses, suggesting that they have multiple targets in the host. To understand mechanisms underlying plasma membrane-associated and effector-mediated immunity, we screened Phytophthora capsici RxLR cell death-inducer suppressing system (CRISIS). We found death induced by CRISIS2 effector Nicotiana benthamiana was inhibited irreversible membrane H+-ATPase (PMA) activator fusicoccin. Biochemical gene-silencing analyses revealed physically...
We have investigated the effect of crystal filtering on microstructural evolution amorphous silicon (a-Si) during metal-induced lateral crystallization (MILC). Polycrystalline (poly-Si) with uniform surface-crystallographic orientation was prepared by preferred filtration poly-Si through narrow neck a-Si region, which is named as a filter (CF). It found that width CF dominant factor for determining crystalline orientation. The behavior formed CF-MILC confirmed electron backscattering...
Abstract The transgenic plant is a promising strategy for the production of highly valuable biotherapeutic proteins such as recombinant vaccines and antibodies. To achieve an efficient level protein production, codon sequences expression cassette elements need to be optimized. However, systematical in biomass can generally controlled therapeutic after generation plants. Without understanding transgene patterns tissue, it difficult enhance further levels. In this study, single-cell...