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Comparative transcriptomics of transgenic tobacco plants overexpressing Miscanthus sinensis BTF3

BMC Genomics 2025年第1期26卷 1-9页

作者： Seo, Ji Won Ham, Da Ye Lee, Jae Geun Kim, Hee Young Choi, Ik Young Kim, Myong Jo Seong, Eun Soo Interdisciplinary Program in Smart Science Kangwon National University Chuncheon 24341 South Korea Research Institute of Biotechnology Hwajin Cosmetics Hongcheon 25142 South Korea Department of Smart Farm Chungnam State University Cheongyang 33303 South Korea Department of Agriculture and Life Industry Kangwon National University Chuncheon 24341 South Korea Department of Applied Plant Sciences Division of Bioresource Sciences Kangwon National University Chuncheon 24341 South Korea

Background: Plant basic transcription factor3 (BTF3) plays an important role in photosynthesis rate and plant growth and development. In addition, it is involved in resistance mechanisms related to abiotic and biotic stress and has a significant impact on plant growth phenotype. This study was conducted to expand our understanding on plant transcriptome changes as there are no reports on plant transcriptome changes in normal environments due to the overexpression of Miscanthus sinensis BTF3 gene. Results: The amino acid sequence length of the BTF3 gene isolated from M. sinensis was 158 aa, and it showed the highest homology (97.47 %) with that of Paniocum virgatum (PvBTF3). Nicotiana benthamiana (Nb) transgenic plant was produced by transforming a binary vector into which the MsBTF3 gene was inserted into Agrobacterium. Up- and down-regulatory factors were classified through transcriptome analysis using transgenic plants overexpressing MsBTF3. Gene ontology (GO) analysis of up-regulated transcripts showed that the most expressed transcripts were involved in biological processes. Analysis of down-regulated differentially expressed genes (DEGs) showed that they were involved in metabolic processes that corresponded to biological processes. Blast analysis revealed that Nb03180T (chloroplast photosystem II 22 kDa component), Nb04871T (basic transcription factor 3-like), Nb13433T (expansin-B15- like), Nb15392T (receptor-like serine/threonine-protein kinase SD1-8 isoform X3), Nb17216T (3-bata-glucan endohydrolase), and Nb20214T (probable rhamnogalacturonate lyase B) were among the DEGs whose transcript expression was up-regulated more than 2-fold compared to the wild type. In particular, the reference gene, that is the NbBTF3 gene, showed the highest expression owing to the overexpression of MsBTF3. Conclusions: Transcriptome changes in tobacco plants through MsBTF3 overexpression revealed that MsBTF3 caused broad-spectrum changes in the biological processes of plants. Ms

关键词： Basic transcription factor3 Differentially expressed genes Gene ontology Miscanthus sinensis NbBTF3 Nicotiana benthamiana transgenic plant Transcriptome analysis

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EXCESSIVE SUCROSE EXACERBATES HIGH FAT DIET-INDUCED HEPATIC INFLAMMATION AND FIBROSIS PROMOTING OSTEOARTHRITIS IN MICE MODEL

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Osteoarthritis and Cartilage 2025年 33卷 S139-S140页

作者： Yunhui Min Yunji Heo Dinesh Suminda Godagama Gamaarachchige minhye Kim myeongyeon shin Md. M. Ansari Young-Ok Son Interdisciplinary Graduate Program in Advanced Convergence Technology and Science Jeju National University Jeju Korea (the Republic of) Department of Animal Biotechnology Faculty of Biotechnology College of Applied Life Sciences Jeju National University Jeju-si Jeju-do Korea (the Republic of) Interdisciplinary Graduate Program in Advanced Convergence Technology and Science Jeju national University Jeju-si Jeju-do Korea (the Republic of)

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Reliability of breast density estimation in follow-up mammograms: Repeatability and reproducibility of a fully automated areal percent density method

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12th International Workshop on Breast Imaging, IWDM 2014

作者： Kim, Youngwoo Kim, Jong Hyo Interdisciplinary Program of Radiation Applied Life Science Seoul National University College of Medicine Seoul Korea Republic of Department of Transdisciplinary Studies Seoul National University Suwon Korea Republic of

ISBN: (纸本)9783319078861

The aim of this study is to evaluate the reliability of the mammographic density estimations in follow-up examinations as measured by using a fully automated density estimation tool in terms of reproducibility and temporal stability. In our previous study, we have developed the fully automated mammographic density estimation method named as SIGMAM, which is based on the prior statistics of mammograms integrated into a novel level set scheme driven by a population-based tissue probability map (PTPM). This scheme was designed to capture the implicit knowledge of experts' visual systems in which the learned knowledge was modeled as the PTPM, which was shown to provide relatively high correlation coefficient of 0.93 with experts' estimations in a single equipment study (Senographe 2000D, GE). In this study, we evaluate the reliability of our SIGMAM method in follow-up mammogram examinations with respect to temporal stability and reproducibility. For evaluation of temporal stability, we selected 170 pairs of CC-view mammograms of 170 female patients taken with the same equipment (Senographe 2000D, GE) within one year from the breast cancer screening database in our institute. On the other hand, we collected pairs of mammograms taken with switched equipment: switched from GE (Senographe DS or Essential) to Hologic (Selenia). In total, 53 pairs of CC-view mammograms from 38 female patients taken within one or two months regarding the menstrual cycle were established as a dataset for reproducibility validation. The correlation coefficient of density estimates in temporal stability mammograms was 0.92, while that of the reproducibility mammograms was 0.87. In conclusion, our SIGMAM method showed relatively high reliability in both reproducibility and temporal stability. © 2014 Springer International Publishing.

关键词： Numerical methods

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Sub-fingerprint masking for a robust audio fingerprinting system in a real-noise environment for portable consumer devices

Sub-fingerprint masking for a robust audio fingerprinting sy...

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2010 International Conference on Consumer Electronics, ICCE 2010

作者： Son, Wooram Cho, Hyun-Tae Yoon, Kyoungro Program in Radiation Applied Life Science Seoul National University Korea Republic of Department of Computer Science and Engineering Konkuk University Korea Republic of

ISBN: (纸本)9781424443161

The robustness of audio fingerprinting system in a noisy environment is a principal challenge in the area of content-based audio retrieval, especially for use in portable consumer devices. Our new audio fingerprint method using sub-fingerprint masking based on the predominant pitch extraction increases the accuracy of the audio fingerprinting system in a noisy environment dramatically, while requiring much less computing power compared to the expanded hash table lookup method, where the searching complexity increases by the factor of 33 times the degree of expansion. ©2010 IEEE.

关键词： Computing power

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Estimation of necrosis volumes in focal liver lesions based on multi-phase hepatic CT images

Estimation of necrosis volumes in focal liver lesions based ...

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2nd Int.Workshop on Computational Challenges and Clinical Opportunities in Virtual Colonoscopy and Abdominal Imaging, Held in Conjunction with the 13th Int.Conf. on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2010

作者： Lee, June-Goo Cai, Wenli Singh, Anand Yoshida, Hiroyuki Department of Radiology Massachusetts General Hospital Harvard Medical School Boston MA 02114 United States Interdisciplinary Program in Radiation Applied Life Science Seoul National University College of Medicine Seoul Korea Republic of

ISBN: (纸本)9783642257186

This study presents a computer-aided volumety (CAV) scheme that estimates the necrosis volumes in the focal liver lesions based on the multi-phase hepatic CT images for estimation of liver tumor burden. We developed a CAV scheme that consisted of the following three major steps: registration of multi-phase series based upon the portal-venous phase images, modeling of the concentration-time curve and thus estimattion of the arterial and portal-venous blood flow, and segmentation of the necrotic and tumorous tissues. Sixteen hepatocellular carcinoma cases were used for the evaluation of the CAV scheme. The total blood volume distribution of the liver tissue, tumor, and necrosis was computed in these datasets. The blood volumes for the liver tissue, tumor, and necrosis had 0.250±0.129, 0.171±0.073, and 0.054±0.045 ml/sec, respectively. The CAV scheme was shown to be potentially useful for efficient and accurate longitudinal measurement of liver tumor burdens in hepatic CT images. © 2011 Springer-Verlag.

关键词： Tumors

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Active Blood Detection in a High Resolution Capsule Endoscopy using Color Spectrum Transformation

Active Blood Detection in a High Resolution Capsule Endoscop...

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International Conference on BioMedical Engineering and Informatics (BMEI)

作者： Yun Sub Jung Young Ho Kim Dong Ha Lee Jong Hyo Kim Interdisciplinary Program in Radiation Applied Life Science major College of Medicine Seoul national University South Korea Interdisciplinary Program in Radiation Applied Life Science major College of Intromedic Seoul national University South Korea

Capsule Endoscopy(CE) is a new modality for convenient and accurate investigation of small bowel pathology including obscure gastrointestinal bleeding. In this paper, we present a method for automatic detection of the bleeding region for a new high performance CE system with a new feature index in CE. The CE transmits 3 images per second to the receiver for about 10 hours. Over 100,000 images are recorded to the receiver. Typically, viewing such a large amount of images gives clinicians a significant burden [3]. We propose a technique to detect the bleeding automatically, utilizing the color spectrum transformation method and morphological filtering. Also, we can decide bleeding sites effectively through continuous image detection.

关键词： Blood Endoscopes Hemorrhaging Gastrointestinal tract Diseases Brightness Filtering Biomedical engineering Biomedical informatics radiation detectors

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Texture analysis of lesion perfusion volumes in dynamic contrast-enhanced breast MRI

Texture analysis of lesion perfusion volumes in dynamic cont...

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2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI

作者： Sang, Ho Lee Jong, Hyo Kim Jeong, Seon Park Jung, Min Chang Sang, Joon Park Yun, Sub Jung Tak, Sungho Woo, Kyung Moon Interdisciplinary Program in Radiation Applied Life Science Major Seoul National University College of Medicine Seoul Korea Republic of Department of Radiology Seoul National University College of Medicine Seoul Korea Republic of Institute of Radiation Medicine Seoul National University College of Medicine Seoul Korea Republic of Daejeon Korea Republic of

ISBN: (纸本)9781424420032

This study introduces a novel texture analysis scheme applied to perfusion volumes in dynamic contrast-enhanced (DCE) breast MRI to provide a method of lesion discrimination. DCE MRI was applied to 24 lesions (12 malignant, 12 benign). Automatic segmentation was performed for extraction of a lesion volume, which was divided into whole, rim and core volume partitions. Lesion perfusion volumes were classified using three-time-points (3TP) method of computer-aided diagnosis. Receiver operating characteristic curve (ROC) analysis was performed for differentiation of benign and malignant lesions using texture features of perfusion volumes classified by the 3TP method. When using the texture features of perfusion volumes divided into rim and core lesion volume, the texture features to have more improved accuracy appeared than using whole lesion volume. This result suggests that lesion classification using texture features of local perfusion volumes is helpful in selecting meaningful texture features for differentiation of benign and malignant lesions. ©2008 IEEE.

关键词： Dynamic contrast enhanced MRI

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The processed C-terminus of AvrRps4 effector suppresses plant immunity via targeting multiple WRKYs

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Journal of Integrative Plant Biology 2024年第8期66卷 1769-1787页

作者： Quang-Minh Nguyen Arya Bagus Boedi Iswanto Hobin Kang Jiyun Moon Kieu Anh Thi Phan Geon Hui Son Mi Chung Suh Eui-Hwan Chung Walter Gassmann Sang Hee Kim Division of Applied Life Science(BK21 Four Program) Plant Molecular Biology and Biotechnology Research CenterGyeongsang National UniversityJinju 52828Korea Department of Life Science Sogang UniversitySeoul 04107Korea Department of Plant Biotechnology Korea UniversitySeoul 02841Korea Division of Plant Science and Technology Christopher S.Bond Life Sciences Center and Interdisciplinary Plant GroupUniversity of MissouriColumbiaMissouri 65211USA Division of Life Science and Research Institute of Molecular Alchemy Gyeongsang National UniversityJinju 52828Korea

Pathogens generate and secrete effector proteins to the host plant cells during pathogenesis to promote virulence and *** the plant carries resistance(R)proteins that recognize pathogen effectors,effector-triggered immunity(ETI)is activated,resulting in a robust immune response and hypersensitive response(HR).The bipartite effector AvrRps4 from Pseudomonas syringae *** has been well studied in terms of avirulence *** planta,AvrRps4 is processed into two *** Cterminal fragment of AvrRps4(AvrRps4^(C))induces HR in turnip and is recognized by the paired resistance proteins AtRRS1/AtRPS4 in ***,we show that AvrRps4^(C)targets a group of Arabidopsis WRKY,including WRKY46,WRKY53,WRKY54,and WRKY70,to induce its virulence ***,AvrRps4^(C)suppresses the general binding and transcriptional activities of immune-positive regulator WRKY54 and WRKY54-mediated ***4^(C)interferes with WRKY54's binding activity to target gene SARD1 in vitro,suggesting WRKY54 is sequestered from the SARD1 promoter by AvrRps4^(C).Through the interaction of Avr Rps4^(C)with four WRKYs,AvrRps4 enhances the formation of homo-/heterotypic complexes of four WRKYs and sequesters them in the cytoplasm,thus inhibiting their function in plant ***,our results provide a detailed virulence mechanism of AvrRps4 through its C-terminus.

关键词： AvrRps4 bacterial effector effector-triggered immunity immune response suppression transcription factor WRKY

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Performance evaluation of SIEMENS CTI ECAT EXACT 47 PET scanner USING NEMA NU2-2001

Performance evaluation of SIEMENS CTI ECAT EXACT 47 PET scan...

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2004 Nuclear science Symposium, Medical Imaging Conference, Symposium on Nuclear Power Systems and the 14th International Workshop on Room Temperature Semiconductor X- and Gamma- Ray Detectors

作者： Kim, Jin Su Lee, Jae Sung Lee, Dong Soo Jung, June-Key Lee, Myung Chul Program in Radiation Applied Life Science Major College of Medicine Seoul National University Seoul Korea Republic of Department of Nuclear Medicine Seoul National University College of Medicine Seoul Korea Republic of

In this study, system performance of Siemens CTI ECAT EXACT 47 PET scanner was measured using NEMA NU2-2001 standard. ECAT EXACT 47 is a BGO crystal based PET scanner. Coincidence window are set to 12 ns, and energy window are set to 250-650 keV. For the spatial resolution measurement, F-18 point source was placed at 1cm and 10 cm offset from the center of transaxial FOV. Images were reconstructed using FBP with ramp filter. To measure the system sensitivity, NEMA sensitivity phantom filled with F-18 solution and surrounded by 1-5 aluminum sleeves were scanned at the center of transaxial FOV and 10 cm offset from the center. Attenuation free values of sensitivity were estimated by extrapolating data to the zero wall thickness. NEMA scatter phantom with length of 70 cm was filled with F-18 solution (2D: 2,900 MBq), and coincidence count rates were measured for 7 half-lives to obtain noise equivalent count rate (NECR) and scatter fraction. Transverse and axial resolutions at 1cm offset from the center were 9.1 and 9.8 nun (FBP, 2D and 3D), Sensitivity values were 709 (2D), 3332 (3D) cps/MBq at the center and 796(2D), 4050 (3D) cps/MBq at 10 cm offset from the center. Scatter fractions were 0.19 (2D). Peak true count rate and NECR were 64.0 kcps@37.5 kBq/mL and 49.6 kcps@37.5 kBq/mL in 2D. Information about the performance of EXACT 47 PET scanner reported in this study will be useful for the quantitative analysis of data and determination of optimal image acquisition protocols using this widely used scanner for clinical and research purposes. © 2004 IEEE.

关键词： Computerized tomography

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Taxonomic study on Sinopoda Jäger, 1999 (Araneae, Sparassidae, Heteropodinae), with three new species from Korea

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ZooKeys 2022年第1114期2022卷 77-104页

作者： Chae, Junho Lee, Jun-Gi Kim, Sam-Kyu Department of Biological Sciences Kangwon National University Chuncheon 24341 South Korea Applied Biology Program Division of Bio-Resource Science College of Agriculture & Life Sciences Kangwon National University Chuncheon 24341 South Korea Interdisciplinary Program in Smart Agriculture College of Agriculture & Life Sciences Kangwon National University Chuncheon 24341 South Korea

The genus Sinopoda Jäger, 1999 is a group of huntsman spiders (Araneae: Sparassidae: Heteropodinae), and currently seven species have been reported in Korea. In this study, three new species are described from Ko-rea, Sinopoda bigibba sp. nov., Sinopoda bogil sp. nov., and Sinopoda pantherina sp. nov.;Sinopoda jirisanen-sis Kim & Chae, 2013 is revalidated with neotype designation, and had been formerly synonymized with Si-nopoda forcipata (Karsch, 1881). Additionally, all previous records of Sinopoda stellatops Jäger & Ono, 2002 and S. forcipata from Korea are deemed misidentifications of S. jirisanensis and S. bogil sp. nov., respectively. © Junho Chae et al.

关键词： Biodiversity huntsman spiders Northeast Asia revalidation taxonomy

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