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Nuclear and chloroplast genome diversity revealed by low-coverage whole-genome shotgun sequence in 44 Brassica oleracea breeding lines

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Horticultural Plant Journal 2021年第6期7卷 539-551页

作者： Sampath Perumal Nomar Espinosa Waminal Jonghoon Lee Hyun-Jin Koo Boem-soon Choi jee young park Kyounggu Ahn Tae-Jin Yang Department of Agriculture Forestry and BioresourcesPlant Genomics and Breeding Instituteand Research Institute of Agriculture and Life SciencesCollege of Agriculture and Life SciencesSeoul National UniversitySeoul 08826Republic of Korea Global Institute for Food Security University of Saskatchewan421 Downey RoadSaskatoonSK S7N 4L8Canada Agriculture and Agri-Food Canada 107 Science PlaceSaskatoon S7N 0X2Canada Chromosome Research Institute Department of Life ScienceSahmyook UniversitySeoul 01795Republic of Korea Joeun Seeds.Co. LtdGoesan-GunChungcheongbuk-Do 367-833Republic of Korea Phyzen Genomics Institute 13Seongnam-daero 331beon-gilBundang-guSeongnam-siGyeonggi-do 13558Republic of Korea

Whole-genome shogun sequence(WGS)data generated by next-generation sequencing(NGS)platforms are a valuable resource for crop *** produced 5–6×WGS coverage of 44 Brassica oleracea breeding lines representing seven subspecies/morphotypes:cabbage,broccoli,cauliflower,kailan,kale,Brussels sprout,and kohlrabi to systematically evaluate the nuclear and chloroplast(Cp)diversity in the 44 *** breeding *** then exploited the impact of low-coverage NGS by evaluating nuclear genome diversity and assembly,annotation of complete chloroplast(Cp)genomes and 45 S nuclear ribosomal DNA(45S nrDNA)sequences,and copy number variation for major *** genome diversity analysis has revealed a total of 496463 SNPs and 37493 indels in the nuclear genome across the 44 ***,some SNPs showed subspecies enrichment at certain chromosomal *** assembly of complete Cp genomes contained 153361–153372 bp with 37 variants including SNPs and *** 45S nrDNA transcription unit was 5802 bp long with a total of 31 SNPs from the 44 *** phylogenetic tree inferred from the nuclear and Cp genomes coincided and clustered broccoli,cauliflower,and kailan in one group and cabbage,Brussels sprout,kale,and kohlrabi in another *** morphotypes diverged during the last 0.17 million *** Cp genome diversity reflected the unique cytoplasm of each subspecies,and revealed that the cytoplasm of many breeding lines was replaced and intermingled via inter-subspecies crosses during the breeding process *** polymorphic Cp markers provide a classification system for the cytoplasm types in ***,copy numbers of major transposable elements(TEs)showed high diversity among the 44 accessions,indicating that many TEs have become active ***,we demonstrated a comprehensive utilization of low-coverage NGS data and might shed light on the genetic diversity and evolution of diverse *** morphotypes.

关键词： Brassica oleracea subspecies Chloroplast genome Nuclear ribosomal DNA Genetic diversity Phylogeny

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High-throughput discovery of plastid genes causing albino phenotypes in ornamental chimeric plants

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Horticulture Research 2023年第1期10卷 249-259页

作者： Hyun-Seung park Jae-Hyeon Jeon Woohyeon Cho Yeonjeong Lee jee young park Jiseok Kim young Sang park Hyun Jo Koo Jung Hwa Kang Taek Joo Lee Sang Hoon Kim Jin-Baek Kim Hae-Yun Kwon Suk-Hwan Kim Nam-Chon Paek Geupil Jang Jeong-Yong Suh Tae-Jin Yang Department of Agriculture Forestry and BioresourcesResearch Institute of Agriculture and Life Sciencesand Plant Genomics and Breeding InstituteCollege of Agriculture and Life SciencesSeoul National UniversitySeoul08826Republic of Korea Department of Integrative Biological Sciences and Industry Sejong UniversitySeoul 05006Korea Hantaek Botanical Garden YonginGyeonggi-do17183Republic of Korea Radiation Breeding Research Team Advanced Radiation Technology InstituteKorea Atomic Energy Research InstituteJeongeup 56212Korea Special Forest Resources Division National Institute of Forest ScienceSuwon 16631Korea School of Biological Sciences and Technology Chonnam National UniversityGwangjuSouth Korea Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences Seoul National UniversitySeoul 08826Korea

Chimeric plants composed of green and albino tissues have great ornamental *** unveil the functional genes responsible for albino phenotypes in chimeric plants,we inspected the complete plastid genomes(plastomes)in green and albino leaf tissues from 23 ornamental chimeric plants belonging to 20 species,including monocots,dicots,and *** nine chimeric plants,plastomes were identical between green and albino ***,another 14 chimeric plants were heteroplasmic,showing a mutation between green and albino *** identified 14 different point mutations in eight functional plastid genes related to plastid-encoded RNA polymerase(rpo)or photosystems which caused albinism in the chimeric *** them,12 were deleterious mutations in the target genes,in which early termination appeared due to small deletion-mediated frameshift or single nucleotide *** was single nucleotide substitution in an intron of the ycf3 and the other was a missense mutation in coding region of the rpoC2 *** inspected chlorophyll structure,protein functional model of the rpoC2,and expression levels of the related genes in green and albino tissues of Reynoutria japonica.A single amino acid change,histidine-to-proline substitution,in the rpoC2 protein may destabilize the peripheral helix of plastid-encoded RNA polymerase,impairing the biosynthesis of the photosynthesis system in the albino tissue of *** chimera plant.

关键词： plast substitution ornamental

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Comparison of Measurements for Enhanced Diffusion Problem in Chemical Reaction Systems

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Chinese Journal of Chemistry 2024年第14期42卷 1659-1664页

作者： Ah-young jee Ziyang Wen Huan Wang Beijing National Laboratory for Molecular Sciences College of Chemistry and Molecular EngineeringBeijing Key Laboratory of Polymer Chemistry&Physics of Ministry of EducationPeking UniversityBeijing100871 China

The problem of molecular diffusion in the soup of chemical reactions attracts mounting interest across fields ranging from chemistry to biophysics to material *** reactions involve bond breakup and formation,whose time scale is typically on the orders of fs to ps,while molecular diffusion occurs at time scales ofμs to *** two processes are often considered orthogonal,given the vastly different *** serial results show that the enzyme's diffusion is enhanced in a substrate-dependent manner,which was further extended to small molecule reaction systems,challenging this classical ***,the results from different groups using different techniques do not quantitatively agree,and a general mechanism is yet to be *** summarize experimental studies on diffusion problems and seek to reconcile the interpretation with understanding the limits of measurement tools and the chemical nature of reaction *** molecular diffusion in chemical reactions will provide fresh thoughts in designing chemical systems such as molecular machines that harvest work at the nanoscale in a controllable manner.

关键词： Molecular diffusion Chemical reactions Enzyme reactions Active matter Diffusion measurements Single-molecule studies Fluorescence Time-resolved spectroscopy

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Decomposition of Nitrogen Trifluoride Using Low Power Arc Plasma

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Plasma Science and Technology 2013年第9期15卷 923-927页

作者： jee-Hun KO Sooseok CHOI Hyun-Woo park Dong-Wha park Department of Chemical Engineering and Regional Innovation Center for Environmental Technology of Thermal Plasma (RIC-ETTP)INHA University253 Yonghyun-dongNam-guIncheon 402-751Republic of Korea Department of Environmental Chemistry and Engineering Tokyo Institute of Technology 4259-G1-22Nagatsuta-choMidori-kuYokohama 226-8502Japan

The low power arc plasma is characterized by extremely high enthalpy and temper- ature and it is easy to generate and control, and thus thermal decomposition process based on the plasma torch is receiving a great attention for decomposing non-degradable greenhouse gases. In order to elevate the economic feasibility, the effects of input power, waste gas flow rate and additive gases on the destruction and removal efficiency （DRE） of NF3 are examined. Specific energy density （SED） deceases as the flow rate increases, and accordingly, the DRE is reduced. The DRE is basically determined by the specific energy density. The highest DRE of NF3 was 97% for the waste gas flow rate of 100 L/min at a low input power level of 2 kW with the help of hydrogen additional gas. The inlet and outlet concentration of NF3 was analyzed using Fourier transform infrared spectroscopy （FT-IR） for DRE of NF3 evaluation. As a result, large amount of NF3 can be efficiently decomposed by low power arc plasma systems.

关键词： arc plasma decomposition nitrogen trifluoride

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Relationships between Pathological Patterns and Vocal Qualities Estimated by Acoustic Parameters

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Chinese Journal of Integrative Medicine 2015年第5期21卷 346-354页

作者： young-Jae park young-Bae park Department of Diagnosis and Biofunctional Medicine College of Korean MedicineKyung Hee University Department of Diagnosis and Biofunctional Medicine Kyung Hee University Hospital at Gangdong

Objective： To examine whether vocal characteristics estimated by acoustic parameters were associated with phlegm, yin deficiency, or cold-heat patterns. Methods： A total of 75 college students （males：females = 53：22） aged 19-24 years were enrolled in this study. Each subject was asked to complete the phlegm pattern questionnaire （PPQ）, yin deficiency questionnaire （YDQ） and cold-heat questionnaire （CHQ）. For the acoustic analysis, each subject was asked to produce a sustained vowel sound （/a/） for 3 s to be used to calculate acoustic parameters. Then, habitual fundamental frequency （F0）, jitter, shimmer, F0 tremor, mean F0, standard deviation of F0, maximum F0, minimum F0, normalized noise energy, harmonic-to-noise ratio, signal-to-noise ratio, amplitude tremor, and power ratio were calculated using the Dr. Speech software. Finally, four hierarchical regression models with pattern questionnaire scores as dependent variables were formed to examine which factors among acoustic parameters, sex, and age were predictive of those pattern scores. Results： PPQ, YDQ, heat, and cold pattern scores all formed significant regression model equations and the adjusted R2 values were 0.281, 0.164, 0.156, and 0.170, respectively. There were aging effects in the PPQ and YDQ models （standardized β =0.199, 0.271, respectively）. Vocal tremor-related Fo tremor and vocal ringing-related power ratio parameters were associated with PPQ and YDQ scores. Gender was directly predictive of PPQ and indirectly moderated the relationship between power ratio and YDQ score. Vocal pitch- related habitual F0 and mean F0 were associated with heat and cold scores. These results indicate that the vocal qualities of phlegm- and yin deficiency-susceptible subjects tend to be ringing and less tremorous, and those of heat- and cold-susceptible subjects tend to be high-pitched. Conclusion： Our study results suggest that vocal characteristics estimated by acoustic parameters are partially predictive of phlegm,

关键词： Chinese medicine syndrome oriental medicine acoustic parameters

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Analysis and optimization of nitrile butadiene rubber sealing mechanism of ball valve

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中国有色金属学会会刊：英文版 2009年第B9期19卷 220-224页

作者： young-Chul park Department of Mechanical Engineering Dong-A University

An approach for analyzing and optimizing sealing mechanism of ball valve made of nitrile butadiene rubber(NBR) with finite element method was presented. The Mooney-Rivlin hyperelastic material model was chosen to characterize NBR sealing, as it has been recommended in the similar applications. That is, NBR sealing was modeled as incompressible hyperelasticity, as well as the assumption of isotropic flow. The results illustrate the structural pressure and contact pressure on the contact surface, which shows that the NBR sealing mechanism is very suitable for sealing after dimension optimization.

关键词：橡胶密封丁腈橡胶尺寸优化机制球阀有限元方法材料模型各向同性

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Imidazole linker‐induced covalent triazine framework-ZIF hybrids for confined hollow carbon super‐heterostructures toward a long‐life supercapacitor

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Carbon Energy 2023年第10期5卷 25-39页

作者： Madagonda MVadiyar Ji‐young Kim jee‐Hwan Bae Kyung‐Wan Nam Department of Energy and Materials Engineering Dongguk UniversitySeoulSouth Korea Advanced Analysis&Data Center Korea Institute of Science and Technology(KIST)SeoulSouth Korea Advanced Energy and Electronic Materials Research Center Dongguk UniversitySeoulSouth Korea

Carbon super-heterostructures with high nitrogen contents from the covalent hybrid precursors of covalent triazine frameworks(CTFs)and zeolitic imidazolic frameworks(ZIFs)are scarcely explored because of CTF's ordered structure and toxic superacid that dissolves or destabilizes the metal *** solve this problem,herein,we report a straightforward two-step pathway for the covalent hybridization of disordered CTF(d–CTF)–ZIF composites via preincorporation of an imidazole(IM)linker into ordered CTFs,followed by the imidazole-site-specific covalent growth of *** carbonization of these synthesized d–CTF−IM−ZIF hybrids results in unique hollow carbon super-heterostructures with ultrahigh nitrogen content(>18.6%),high specific surface area(1663m^(2)g^(−1)),and beneficial trace metal(Co/Zn NPs)contents for promoting the redox *** proof of concept,the obtained carbon super-heterostructure(Co–Zn–NC_(SNH)–800)is used as a positive electrode in an asymmetric supercapacitor,demonstrating a remarkable energy density of 61Wh kg^(−1)and extraordinary cyclic stability of 97%retention after 30,000 cycles at the cell *** presynthetic modifications of CTF and their covalent hybridization with ZIF crystals pave the way toward new design strategies for synthesizing functional porous carbon materials for promising energy applications.

关键词： asymmetric supercapacitor defective covalent triazine frameworks hollow carbon superheterostructures linker defect

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Anti-neuro-inflammatory effects of Nardostachys chinensis in lipopolysaccharide-and lipoteichoic acid-stimulated microglial cells

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Chinese Journal of Natural Medicines 2016年第5期14卷 343-353页

作者： Sun young park young Hun Kim Geuntae park Bio-IT Fusion Technology Research Institute Pusan National University Department of Nanomaterials Engineering Pusan National University

Excessive microglial cell activation is related to the progression of chronic neuro-inflammatory disorders. Heme oxygenase-1(HO-1) expression mediated by the NFE2-related factor(Nrf-2) pathway is a key regulator of neuro-inflammation. Nardostachys chinensis is used as an anti-malarial, anti-nociceptive, and neurotrophic treatment in traditional Asian medicines. In the present study, we examined the effects of an ethyl acetate extract of N. chinensis(EN) on the anti-neuro-inflammatory effects mediated by HO-1 up-regulation in Salmonella lipopolysaccharide(LPS)- or Staphylococcus aureus lipoteichoic acid(LTA)-stimulated BV2 microglial cells. Our results indicated that EN suppressed pro-inflammatory cytokine production and induced HO-1 transcription and translation through Nrf-2/antioxidant response element(ARE) signaling. EN markedly inhibited LPS- and LTA-induced activation of nuclear factor-kappa B(NF-?B) as well as phosphorylation of mitogen-activated protein kinases(MAPKs) and signal transducer and activator of transcription(STAT). Furthermore, EN protected hippocampal HT22 cells from indirect neuronal toxicity mediated by LPS- and LTA-treated microglial cells. These results suggested that EN impairs LPS- and LTA-induced neuro-inflammatory responses in microglial cells and confers protection against indirect neuronal damage to HT22 cells. In conclusion, our findings indicate that EN could be used as a natural anti-neuro-inflammatory and neuroprotective agent.

关键词： Nardostachys chinensis Anti-inflammation Lipopolysaccharide Lipoteichoic acid Heme oxygenase-1

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White matter changes in 80 mild cognitive impairment patients using magnetic resonance imaging

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Neural Regeneration Research 2009年第9期4卷 654-658页

作者： Hyun Cho jee-Hyun Kwon Sun-young Kim Department of Neurology Ulsan University Hospital

BACKGROUND： Many studies have suggested that one possible etiology of mild cognitive impairment is small vessel cerebrovascular disease, which is associated with small subcortical infarcts and white matter abnormalities. These white matter changes have been detected as white matter hyperintensity （WMH） using magnetic resonance imaging. WMH may be associated with frontal lobe dysfunction. OBJECTIVE： To examine white matter changes in mild cognitive impairment patients of different subtypes, and to evaluate the correlation between white matter changes and neuropsychological characteristics, demographic information, vascular risk factors, and mild cognitive impairment subtypes. DESIGN, TIME AND SETTING： The neurophysiological, comparison study was performed at the Department of Neurology Memory Clinic, Ulsan University Hospital, South Korea, between March 2007 and March 2008. PARTICIPANTS： Out of a total of 83 subjects with clinically diagnosed mild cognitive impairment at the out-patient clinic, 3 subjects with severe WMH were excluded. A total of 80 subjects were included in this study. No patients suffered from cognitive impairment induced by neurological diseases, mental disorders, or somatic diseases. In accordance with magnetic resonance imaging results, the patients were assigned to two subtypes： 56 subjects without WMH and 24 subjects with WMH. METHODS： All patients were subjected to a standard neuropsychological battery using the Korean version of the Mini-Mental State Examination, Clinical Dementia Rating, and comprehensive Seoul Neuropsychological Screening Battery. The Clinical Dementia Rating reflected general cognitive function of patients. Results from the Seoul Neuropsychological Screening Battery reflected attention, language function, visuospatial function, verbal memory, nonverbal memory, long-term memory, and frontal/executive function. Magnetic resonance imaging was used to map changes in the brain. MAIN OUTCOME MEASURES： The association between va

关键词： mild cognitive impairment cerebrovascular disease white matter hyperintensity frontal/executive dysfunction

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Development of 3D bicontinuous metal-intermetallic composites through subsequent alloying process after liquid metal dealloying

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Journal of Magnesium and Alloys 2023年第11期11卷 4274-4281页

作者： jee Eun Jang Jihye Seong Soo-Hyun Joo Sung Hyuk park School of Materials Science and Engineering Kyungpook National UniversityDaegu 41566Republic of Korea Department of Materials Science and Engineering Dankook UniversityCheonan 31116Republic of Korea

This study presents a novel process for the fabrication of metal-intermetallic composites with a 3D bicontinuous structure, achieved through a combination of liquid metal dealloying(LMD) and subsequent alloying. Initially, porous Ti structures are produced using the LMD process, followed by immersion in a molten Mg-3Al(wt%) metal. Due to the higher thermodynamic miscibility of Al with Ti compared to Mg, the concentration of Al in the Ti matrix increases as the immersion time increases. This results in a sequential phase transition within the Ti matrix: α-Ti → Ti_(3)Al → Ti Al. The phase transition considerably affects the hardness and strength of the composite material,with the Mg-Ti_(3)Al-Ti Al composite exhibiting a maximum hardness nearly twice as high as that of the conventional Mg-Ti composite. This innovative process holds potential for the development of various bicontinuous metal-intermetallic composites.

关键词： Liquid metal dealloying Subsequent alloying Metal–intermetallic composite 3D bicontinuous structure Hardness

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