Journal Articles
Click CV 2024
(2024)
l Tien Van Vu, Ngan Thi Nguyen, Jihae Kim, Young Jong Song, Thu Hoai Nguyen, Jae-Yean Kim. Optimized Dicot Prime Editing Enables Heritable Desired Edits in Tomato and Arabidopsis. Nature Plants 2024, doi.org/10.1038/s41477-024-01786-w
l Tien Van Vu, Ngan Thi Nguyen, Jihae Kim, Minh Huy Vu, Young Jong Song, Mil Thi Tran, Yeon Woo Sung, Jae-Yean Kim. Enhancing CRISPR-Cas-based gene targeting in tomato using a dominant-negative ku80 Horticulture Research 2024. In press
l Jin-hee Jeong, Eun-young Jeon, Min Ki Hwang, Young Jong Song, and Jae-Yean Kim. Development of super-infective ternary vector systems for enhancing the agrobacterium-mediated plant transformation and genome editing efficiency Horticulture Research 2024, doi:10.1093/hr/uhae187
l Rahul Mahadev Shelake, Sopan Ganpatrao Wagh, Akshay MILIND Patil, Jan Cerveny, Rajesh Ramdas Waghunde, Jae-Yean Kim. Heat Stress and Plant-Biotic Interactions: Advances and Perspectives. Plants 2024. https://doi.org/10.3390/plants13152022
l Ritesh Kumar, Arya Bagus Boedi Iswanto, Dhinesh Kumar, Wu Shuwei, Kyujin Oh, Geon Hui Son, Eun-Seok Oh, Minh Huy Vu, Jinsu Lee, Keun Woo Lee, Man-Ho Oh, Chian Kwon, Woo Sik Chung, Jae-Yean Kim* and Sang Hee Kim*. C-TYPE LECTIN RECEPTOR-LIKE KINASE 1 and ACTIN DEPOLYMERIZING FACTOR 3 negatively regulate plasmodesmata callose. Plant Cell Environment. doi.org/10.1111/pce.14957
l Arya Bagus Boedi Iswanto, Minh Huy Vu, Jong Cheol Shon, Ritesh Kumar, Shuwei Wu, Hobin Kang, Da-Ran Kim, Geon Hui Son, Woe Yoen Kim, Youn-Sig Kwak, Kwang Hyeon Liu, Sang Hee Kim and Jae-Yean Kim. α1-COP modulates plasmodesmata function through sphingolipid enzymes regulation. Journal Integrative Plant Biology, 2024. doi: 10.1111/jipb.13711
l Rahul Mahadev Shelake1, Dibyajyoti Pramanik, Jae-Yean Kim. CRISPR base editor-based targeted random mutagenesis (BE-TRM) toolbox for directed evolution. BMB Reports 2024. 10.5483/BMBRep.2023-0086.
l Cam Chau Nguyen, Rahul Mahadev Shelake, Tien Van Vu, Hai Van Tong, Nhan Thi Nguyen, Xuan Canh Nguyen, Vo-Anh-Khoa Do, Hai Thanh Nguyen, Jae-Yean Kim. Characterization of yield and fruit quality parameters of Vietnamese elite tomato lines generated through phenotypic selection and conventional breeding methods. Euphytica 2024. 10.21203/rs.3.rs-2626574/v1.
l Tien V. Vu, Ngan Thi Nguyen, Jihae Kim , Jong Chan Hong and Jae-Yean Kim. Prime Editing: Mechanism Insight and Recent Applications in Plants. Plant Biotechnology Journal 2024. https://doi.org/10.1111/pbi.14188.
l Cam Chau Nguyen, Tien Van Vu, Rahul Mahadev Shelake, Nhan Thi Nguyen, Tran Dang Khanh, Jae-Yean Kim. Generation of parthenocarpic tomato plants in multiple elite cultivars using the CRISPR/Cas9 system. Molecular Breeding 2024. https://doi.org/10.1101/2023.04.27.538515.
l Swati Das, Moonhyuk Kwon and Jae-Yean Kim. Enhancement of specialized metabolites using CRISPR/Cas gene editing technology in medicinal plants. Frontiers in Plant Science 2024. 10.3389/fpls.2024.1279738.
l Jin-hee Jeong, Eun-young Jeon, Young Jong Song, Min Ki Hwang, Yeongji Gwak and Jae-Yean Kim. Impact of CRISPR/Cas9-induced mutations in nicotine biosynthesis core genes A622 and BBL on tobacco: Reduction in nicotine content and developmental abnormalities. Current Plant Biology 2024, 10.1016/j.cpb.2024.100343
l Rahul Mahadev Shelake, Jae-Yean Kim. Cas9 variants expand the targeting scope of base editing systems in bacteria. Nucleus 2024. https://doi.org/10.1007/s13237-024-00473-7.
(Year 2023)
Rajesh Ramdas Waghunde, Mrugesh Dhirajlal Khunt, Rahul Mahadev Shelake, Neelkanth Hiremani, Vijay Aadhar Patil, Jae-Yean Kim. Chapter 2 - Endophytes: a potential bioagent for plant disease management. Academic press, In Microbial Endophytes and Plant Growth 2023. 10.1016/B978-0-323-90620-3.00013-1
l Minh Huy Vu, Tae Kyung Hyun, Sungwha Bahk, Yeonhwa Jo, Ritesh Kumar, Dhinesh Kumar, Arya Bagus Boedi Iswanto, Rahul Mahadev Shelake, Woo Sik Chung, Jae-Yean Kim. ROS-mediated plasmodesmal regulation requires a network of an Arabidopsis receptor-like kinase, calmodulin-like proteins, and callose synthases . Frontiers in Plant Science 2023. 10.3389/fpls.2022.1107224.
l Rahul Mahadev Shelake, Dibyajyoti Pramanik, Rajesh Ramdas Waghunde, Jae-Yean Kim. Plant Mutagenesis Tools for Precision Breeding: Conventional CRISPR/Cas9 Tools and Beyond. Mutation Breeding for Sustainable Food Production and Climate Resilience 2023. 10.1007/978-981-16-9720-3_10.
l Mil Thi Tran, Geon Hui Son, Young Jong Song, Ngan Thi Nguyen, Seonyeong Park, Thanh Vu Thach, Jihae Kim, Yeon Woo Sung, Swati Das, Dibyajyoti Pramanik, Jinsu Lee, Ki-Ho Son, Sang Hee Kim, Tien Van Vu, Jae-Yean Kim. CRISPR-Cas9-based precise engineering of SlHyPRP1 protein towards multi-stress tolerance in tomato. Frontiers in Plant Science 2023. doi.org/10.3389/fpls.2023.1186932.
l Bich Ngoc Vu, Tien Van Vu, Jae Yong Yoo , Ngan Thi Nguyen, Ki Seong Ko, Jae-Yean Kim and Kyun Oh Lee. CRISPR-Cas-mediated unfolded protein response control for enhancing plant stress resistance. Frontiers in Plant Science. 10.3389/fpls.2023.1271368.
l Rahul Mahadev Shelake, Amol Maruti Jadhav, Pritam Bhagwan Bhosale, and Jae-Yean Kim. Unlocking secrets of nature's chemists: Potential of CRISPR/Cas-based tools in plant metabolic engineering for customized nutraceutical and medicinal profiles. Plant Physiology and Biochemistry 2023. https://doi.org/10.1016/j.plaphy.2023.108070.
l Ganesh Chandrakant Nikalje, Ashish Kumar Srivastava, Rahul Mahadev Shelake, Ulhas Sopanrao Kadam, Jong Chan Hong, Jae-Yean Kim, T D Nikam, Penna Suprasanna. Profiling of conserved orthologs and miRNAs for understanding their role in salt tolerance mechanism of Sesuvium portulacastrum L. Molecular Biology Reports 2023. 10.1007/s11033-023-08892-6.
l Rahul Mahadev Shelake, Dibyajyoti Pramanik, Jae-Yean Kim. Improved dual base editor systems for simultaneous conversion of adenine and cytosine in bacteria. mBio 2023.01 https://doi.org/10.1128/mbio.02296-22
(Year 2022)
l Rahul Mahadev Shelakea, Ulhas Sopanrao Kadama, Ritesh Kumarb, Dibyajyoti Pramanika, Anil Kumar Singhc, Jae-Yean Kim. Engineering drought and salinity tolerance traits in crops through CRISPR-mediated genome editing: Targets, tools, challenges, and perspectives. Plant Communication 2022.07 https://doi.org/10.1016/j.xplc.2022.100417
l Rahul Mahadev Shelake, Dibyajyoti Pramanik, Jae-Yean Kim. "In Vivo Rapid Investigation of CRISPR-Based Base Editing Components in Escherichia coli (IRI-CCE): A Platform for Evaluating Base Editing Tools and Their Components. International Journal of Molecular Sciences. 2022.01. https://doi.org/0.3390/ijms23031145
l Tien Van Vu, Swati Das, Goetz Hensel, Jae-Yean Kim. Gene editing and beyond: what would it mean for the future of our plant breeding? Planta 2022.05. https://doi.org/10.1007/s00425-022-03906-2
l Tien Van Vu, Swati Das, Cam Chau Nguyen, Jihae Kim, Jae-Yean Kim. Single-strand annealing: molecular mechanisms and potential applications in CRISPR-Cas-based precision genome editing. Biotechnology Journal 2022.07. https://doi.org/10.1002/biot.202100413
l Arya Bagus Boedi Iswanto, Minh Huy Vu, Sharon Pike, Jihyun Lee, Hobin Kang, Geon Hui Son, Jae-Yean Kim and Sang Hee Kim. Pathogen effectors: What do they do at plasmodesmata? Molecular Plant Pathology 2022. https://doi.org/10.1111/mpp.13142
l Tien Van Vu, Ngan Thi Nguyen, Jihae Kim, Swati Das, Jinsu Lee, Jae-Yean Kim. The obstacles and potential solution clues of prime editing applications in tomato. Biodesign Research 2022. 10.34133/bdr.0001
(Year 2021)
l Mil Thi Tran, Duong Thi Hai Doan, Jihae Kim, Yeong Jong Song, Yeon Woo Sung, Swati Das, Geon Hui Son, Sang Hee Kim, Tien Van Vu, Jae-Yean Kim. CRISPR/Cas9-based precise excision of SlHyPRP1 domain(s) to obtain salt stress-tolerant tomato. Plant Cell Report 2020.10/2021. https://doi.org/10.1007/s00299-020-02622-z
l Tien Van Vu, Duong Thi Hai Doan, Jihae Kim, Yeon Woo Sung, Mil Thi Tran, Yeong Jong Song, Swati Das, Jae-Yean Kim. CRISPR/Cas-based precision genome editing via microhomology-mediated end joining (MMEJ). Plant Biotechnology Journal 2021.02. https://doi.org/10.1111/pbi.13490
l Dibyajyoti Pramanik, Rahul Mahadev Shelake, Mi Jung Kim and Jae-Yean Kim. CRISPR-mediated engineering across the central dogma in plant biology for basic research and crop improvement. Molecular Plant 2021.01. https://doi.org/10.1016/j.molp.2020.11.002
l Tien Van Vu, Swati Das, Mil Thi Tran, Jong Chan Hong and Jae-Yean Kim. Precision Genome Engineering for the Breeding of Tomatoes: Recent Progress and Future Perspectives Frontiers in Genome Editing. 2020.12.15 https://doi.org/10.3389/fgeed.2020.612137
l Dibyajyoti Pramanik, Rahul Mahadev Shelake, Jiyeon Park, Mi Jung Kim, Indeok Hwang, Younghoon Park, and Jae-Yean Kim. CRISPR/Cas9-Mediated Generation of Pathogen-Resistant Tomato against Tomato Yellow Leaf Curl Virus and Powdery Mildew. International Journal of Molecular Science. 2021.02. https://doi.org/10.3390/ijms22041878
l Arya Bagus Boedi Iswanto, Rahul Mahadev Shelake, Minh Huy Vu, Jae-Yean Kim and Sang Hee Kim. Genome Editing for Plasmodesmal Biology. Frontiers in Plant Science, section Plant Cell Biology. 2021.06. https://doi.org/10.3389/fpls.2021.679140
l Jin Hwa Park, Halim Park, Yejin Lee, Dong U Woo, Ho Hwi Jeon, Yeon Woo Sung, Sangrea Shim, Sang Hee Kim, Kyun Oh Lee, Jae-Yean Kim, Chang-Kug Kim, Hwan Su Yoon, Yang Jae Kang. The genome of the world's smallest flowering plant, Wolffia australiana, disclosing its unique physiology and the most extreme morphological evolution. Communication Biology 2021.06. https://doi.org/10.1038/s42003-021-02422-5
l Kumar Nishant Chourasia, Milan Kumar Lal, Rahul Kumar Tiwari, Devanshu Dev, Hemant Balasaheb Kadile, Virupaksh U. Patil, Amarjeet Kumar, Girimalla Vanishree, Dharmendra Kumar, Vinay Bhardwaj, Jitendra Kumar Meena, Vikas Mangal, Rahul Mahadev Shelake, Jae-Yean Kim, Dibyajyoti Pramanik. Salinity Stress in Potato: Understanding Physiological, Biochemical and Molecular Responses. Life 2021.06. https://doi.org/10.3390/life11060545
l "Geon Hui Son, Jiyun Moon, Rahul Mahadev Shelake, Uyen Thi Vuong, Robert A. Ingle, Walter Gassmann, Jae-Yean Kim and Sang Hee Kim. Conserved Opposite Functions in Plant Resistance to Biotrophic and Necrotrophic Pathogens of the Immune Regulator SRFR1. International Journal of Molecular Sciences. 2021. https://doi.org/10.3390/ijms22126427
l Tien Van Vu, Duong Thi Hai Doan, Mil Thi Tran, Yeon Woo Sung, Young Jong Song, Jae-Yean Kim. Improvement of the LbCas12a-crRNA system for efficient gene targeting in tomato. Frontiers in Plant Science. 2021.07. https://doi.org/10.21203/rs.3.rs-301508/v2
(Year 2020)
l Vu TV, Swati Das1, Tran MT, Hong JC, Kim JY 2020. Precision Genome Engineering for the Breeding of Tomatoes: Recent Progress and Future Perspectives. Front in Genome Editing. Doi:10.3389/fgeed.2020.612137.
l Iswanto ABB, Shon JC,.., Liu GH, Kim JY 2020. Sphingolipids Involve the Modulation of the Secretion Machinery of a Subset of Plasmodesmata Proteins and a Change in the Plasmodesmata Callose Level. Plant Physiology. 184(1)407-420.
l Vu MH, Iswanto ABB, Lee J, Kim JY 2020. The role of plasmodesmata associated-receptor in plant development and environmental response. Plants. 9(2):216
l Vu VT, ..,Kim JY et al. 2020. Highly efficient homology-directed repair using CRISPR/Cpf1-geminiviral replicon in tomato. Plant Biotechnology Journal. 18(10) 2133-2143
l Kim SH, Bahk S, An J, Hussain S, Nguyen NT, Do HL, Kim JY, Chung WS 2020. A gain-of-function mutant of IAA15 inhibits lateral root development by transcriptional repression of LBD genes in Arabidopsis. Frontiers in Plant Science. 11, 1239
l Rajesh Ramdas Waghunde, Rahul Mahadev Shelake, Dibyajyoti Pramanik, Harish Sutar, Puja Pandey, Jae-Yean Kim. Application of cereal and vegetable endophytes in plant health management. In Microbiomes and plant health: Panoply and their applications 10.1016/B978-0-12-819715-8.00002-1.
l Pankaj Prakash Verma, Rahul Mahadev Shelake, Parul Sharma, Jae-Yean Kim, Suvendu Das, Mohinder Kaur. Microbes in crop production: Formulation and Application. Microcosm: Microbial Diversity, Interventions and Scope. doi.org/10.1007/978-981-15-4099-8_3
(Year 2019)
l Vu VT, Tran MT, Kim J, Sung YW, Doan DTH, Kim JY 2019. Challenges and perspectives in homology-directed repair-based Gene targeting in monocot plants. Rice, 12, 95
l Shelake RM, Pramanik D, Kim JY 2019. Evolution of plant mutagenesis tools: A shifting paradigm from random to targeted genome editing. Plant Biotechnology Reports, 13(5): 423–445.
l Kim JI, Kim JY (2019). New era of precision plant breeding using genome editing. Plant Biotechnology Reports. 13(5): 419-421
l Shelake RM, Pramanik D, Kim JY 2019. Exploration of plant-microbe interactions for sustainable agriculture in CRISPR era. Microorganisms 7(8): 269.
l 김재연, 손건희 2019. 유전자가위 기술을 활용한 정밀육종 신품종 개발의 혜택. Biosafety 20(1), 78-83.
l Vu VT, Sivankalyani V, Kim EJ, Tran MT, Kim J, Sung YW, Doan DTH, Kim JY 2019. Homology-directed repair using transient CRISPR/Cpf1-geminiviral replicon in tomato. BioRxiv http://dx.doi.org/10.1101/521419.
l Zeb A, .., Kim JY, Lee KW (2019). Computational Simulations Identify Pyrrolidine-2,3-dione Derivatives as Novel Inhibitors of Cdk5/p25 Complex to Attenuate Alzheimer’s Pathology. Journal of Clinical Medicine 8, 746
(Year 2018)
l 이진수, 성연우, 김지해, 김상규, 김재연 2018. CRISPR 기반 유전자가위 기술의 진화와 정밀육종. 종자과학과 산업 14(3): 40-51.
l Wu S, Kumar R, Iswanto ABB, and Kim JY 2018. Callose balancing at plasmodesmata. Journal of Experimental Botany 69(22): 5325–5339
l Kim JY 2018. Editorial: symplasmic intercellular communication through plasmodesmata. Plants 7(1): pii: E23
l Eom SH, Kim JY, Hyun TK (2018). Molecular cloning and functional characterization of the flavonoid 3΄-hydroxylase gene from Rubus coreanus Miquel. Journal of Applied Botany and Food Quality 91, 33 – 38.
(Year 2017)
l Kumar D, Kumar R, Baek D, Hyun TK, Chung WS, Yun DJ, and Kim JY 2017. An Arabidopsis thaliana RECEPTOR DEAD KINASE1(RDK1) gene functions as a positive regulator in plant responses to ABA. Molecular Plant 10(2): 223–243.
l Iswanto ABB, Kim JY 2017.LipidRaft,Regulator of Plasmodesmal Callose Homeostasis. Plants 6(2), 15-26.
l Kim SH, Kim HS, Bahk S, An J, Yoo Y, Kim JY, Chung WS (2017). Phosphorylation of the transcriptional repressor MYB15 by mitogen-activated protein kinase 6 is required for freezing tolerance in Arabidopsis. Nucleic Acid Research 45(11): 6613-6627.
(Year 2016)
l Han X, Kim JY (2016. 01) Integrating hormone- and micromolecule-mediated signaling with plasmodesmal communication. Molecular Plant 9(1):46-56.
l Kumar R, Wu SW, Iswanto ABB, Kumar D, Han X and Kim JY (2016. 04) A Strategy to Validate the Role of Callose-Mediated Plasmodesmal Gating in the Tropic Response. J. Vis. Exp. (110), e53513, doi:10.3791/53513.
l Mun G, Jung SH, Ahn A, Lee SS, Choi MY, Kim DH, Kim JY, and Jung JH (2016. 05) Fluorescence imaging for Fe3+ in Arabidopsis by using simple naphthalene-based ligands. RSC Advances 6;53912-53918
(Year 2015)
l Kumar D, Kumar R, Hyun TK and Kim JY (2015.1) Cell-to-cell movement of viruses via plasmodesmata. Journal of Plant Research 128:37-47.
l Kumar D, Chen H, Rim Y, Kim JY (2015.1) GAL4 Transactivation-Based Assay for the Detection of Selective Intercellular Protein Movement. Methods in Molecular Biology 1217: 231-243.
l Kumar R, Kumar D, Hyun TK and Kim JY (2015.1) Players at plasmodesmal nano-channels. Journal of Plant Biology 58:75-86.
l Ji Ha Lee , Jin Hyeok Lee, Sung Ho Jung, Tae Kyung Hyun, Mingxiao Feng, Jae-Yean Kim, Jae-Hong Lee, Hoyeon Lee, Jong Seung Kim, Chulhun Kang, Ki-Young Kwon and Jong Hwa Jung (2015) Highly selective fluorescence imaging of zinc distribution in HeLa cells and Arabidopsis using a naphthalene-based fluorescent probe. Chem Comm DOI:10.1039/c5cc01364j.
l Sung Ho Jung, Tae Kyung Hyun, Jae-Yean Kim and Jong Hwa Jung (2015) High selective fluorescence imaging of cesium distribution in Arabidopsis using a bis(trihydroxyphenyl)- appended fluorescent probe with a turn-on system. RSC Advances 5:26662-26665.
(Year 2014)
l Han X, Kumar D, Chen H, Wu S, Kim JY (2014.4) Transcription factor-mediated cell-to-cell signalling in plants. Journal of Experimental Botany 65(7): 1737-1749.
l Hyun TK, Lee S, Rim Y, Kumar R, Han X, Lee SY, Lee CH, Kim JY (2014. 02) De-novo RNA sequencing and metabolite profiling to identify genes involved in anthocyanin biosynthesis in Korean black raspberry (Rubus coreanus Miquel). PLos One 9(2): e88292
l Han X, Hyun TK, Zhang M, Koh E, Kumar R, Kang BH, Lucas WJ, Kim JY (2014. 01) Auxin-callose Mediated Plasmodesmal Gating is Essential for Tropic Auxin Gradient Formation and Signaling. Developmental Cell 28(2): 132-146
l Chen H, Jackson D, Kim JY(2014. 02) Identification of evolutionarily conserved amino acid residues in homeodomain of KNOX proteins for intercellular trafficking. Plant Signaling and Behavior 9(2) pii28355
l Hyun TK, Lee S, Kumar D, Rim Y, Lee SY, Lee CH, Kim JY (2014 . 07) RNA-seq analysis of Rubus idaeus cv. Nova : Transcriptome sequencing and de-novo assembly for subsequent functional genomics approaches. Plant Cell Reports 33(10)1617-1628.
l Mohammad Nazim Uddin, Patrice Dunoyer, Gregory Schott, Salina Akhter, Chunlin Shi, William J. Lucas, Olivier Voinnet, Jae-Yean Kim (2014. 08) Protein kinase TOUSLED facilitates RNAi in Arabidopsis. Nucleic acid Research 42(12): 7941-7980
(Year 2013)
l Uddin MN, Kim JY (2013) Intercellular and systemic spread of RNA and RNAi in plants. WIREs RNA 4(3) : 279-293Kumar D, Kumar R, Hyun TK and Kim JY (2013) Plasmodesmata and phloem-based trafficking of macromolecules. Symplasmic Transport in Vascular Plants (Book Chapter) Ch7.183-216.
l Chen H, Ahmad M, Rim Y, Lucas WJ, Kim JY (2013) Evolutionary and molecular analysis of Dof transcription factors identified a conserved motif for intercellular protein trafficking. New Phytologist 198(4) : 1250-1260
l Fanata WID, Lee KH, Son BH, Yoo JY, Harmoko R, Ko KS, Ramasamy NK, Kim KH, Oh DB, Jung HS, Kim JY, Lee SY, Lee KO (2013) N-glycan maturation is crucial for cytokinin-mediated N-glycan maturation is crucial for cytokinin-mediated development and cellulose synthesis in Oryza sativa. Plant J. 73(6): 66-979
l Shah AA, Wang C, Chung YR, Kim JY, Choi ES, Kim SW (2013) Enhancement of geraniol resistance of Escherichia coli by MarA overexpression. J Biosci Bioeng 115(3): 253-258.
l Ahmad M, Rim Y, Chen H, Kim JY (2013) Functional Characterization of Arabidopsis Dof Transcription Factor AtDof4.1. Russ J Plant Physiol 60(1): 116-123.
l Das A, Lee SH, Hyun TK, Kim SW, Kim JY (2013) Plant volatiles as method of communication. Plant Biotech Rep 7: 9-26.
l Wang C, Zhou J, Jang HJ, Yoon SH, Kim JY, Lee SG, Choi ES, Kim SW (2013) Engineered heterologous FPP synthases-mediated Z,E-FPP synthesis in E. coli. Metabolic Engineering 18: 53-59
(Year 2012)
l Han X, Chen C, Hyun TK, Kim JY (2012) Metabolic module mining based on independent component analysis in Arabidopsis thaliana. Mol Cells 34(3): 295-304.
l Chu H, Cho WK, Rim Y, Jo Y, Kim JY (2012) Genetic Diversity of Common Reed in Korea Based on Morphological Characteristics and Random Amplified Polymorphic DNA Markers. Kor J Plant Res 25(1): 666-674.
l Hyun TK, Rim Y, Jang HJ, Kim CH, Park J, Kumar R, Lee S, Kim BC, Bhack J, Quoc BN, Kim SW, Lee SY, Kim JY (2012) De novo transcriptome sequencing of Momordica cochinchinensis to identify genes involved in the carotenoid biosynthesis. Plant Mol Biol 79:413-427
(Year 2011)
l Rim Y, Huang L, Chu H, Han X, Cho WK, Jeon CO, Kim HJ, Hong JC, Lucas WL, Kim JY (2011) Analysis of Arabidopsis transcription factor families revealed extensive capacity for cell-to-cell movement as well as discrete trafficking patterns. Mol Cells 32(6):519-526.
l Vaten V, Dettmer J, Wu S, Stierhof Y, Roberts CJ, Yadav SR, Miyashima S, Campilho A, Bulone V, Lichtenberger R, Lehesranta S, Mahonen AP, Kim JY, Sauer N, Scheres B, Carlsbecker A, Gallagher KL, Helariutta Y (2011) Callose biosynthesis regulates symplastic molecular traffic during root development. Developmental Cell 21(6):1144-1155.
l Xu XM, Wang J, Xuan Z, Borrill PGM, Kim JY and Jackson D (2011) Chaperonins facilitate KNOTTED1 cell-to-cell trafficking and stem cell function. Science 333, 1141-1144
l Jang HJ, Yoon SH, Ryu HK, Kim JH, Wang CL, Kim JY, Oh DK and Kim SW (2011) Retinoid production using metabolically engineered Escherichia coli with a two-phase culture system. Microbial Cell Factories 10:59
l Wang C, Kim JY, Choi ES, Kim SW (2011) Microbial Production of Farnesol (FOH): Current states and Beyond. Process Biochemistry 46:1221–1229
l Kim JH, Jung IJ, Kim DY, Fanata WI, Son BH, Yoo JY, Harmoko R, Ko KS, Moon JC, Jang HH, Kim WY, Kim JY, Lim CO, Lee SY, Lee KO (2011) Proteomic identification of an embryo-specific 1Cys-Prx promoter and analysis of its activity in transgenic rice. Biochemical and Biophysical Research Communications 408(1):78-83
l Ahmad M, Cho WK, Rim Y, Huang LJ and Kim JY (2011) How to assess the intercellular trafficking of transcription factors. Methods in Molecular Biology” “Plant Transcription Factors”. 754, 235-245
l Chu H, Cho YK, Jo Y, Kim WI, Rim Y, Kim JY (2011) Ientification of natural hybrids in Korean Phragmites using haplotype and genotype analyses, Plant Systematics and Evolution 293:247–253
l Uddin MN, Kim JY (2011) Non-cell-autonomous RNA silencing spread in plants. Botanic Stud 52(2) 129-136
l Jo Y, Cho YK, Rim Y, Moon J, Chen XY, Chu H, Kim CY, Park ZY, Lucas WJ, Kim JY (2011) Plasmodesmal receptor-like kinases identified through analysis of a rice cell wall proteomics database. Protoplasma(Special issue for Plasmodesmata) 248(1): 101-116
l Hyun TK, Uddin MN, Rim Y, Kim JY (2011) Cell-to-cell trafficking of RNA and RNA silencing through plasmodesmata. Protoplasma (Special issue for Plasmodesmata, invited review) 248(1): 191-203
(Year 2010)
l Cho WK, Chen XY, Rim Y, Chu H, Kim S, Kim SW, Park ZY, Kim JY (2010) Proteome study of the phloem sap of pumpkin using multidimensional protein identification technology. J Plant Physiol 167: 771-778
l Cho WK, Chen XY, Rim Y, Chu H, Jo Y, Kim S, Park ZY, Kim JY (2010) Extended latex proteome analysis deciphers additional roles of the lettuce laticifer. Plant Biotechnology Reports. 4(4): 311-319
l Noh W, Kim SW, Dong-Won B, Kim JY, Ro HS (2010) Genetic introduction of foreign genes to Pleurotus eryngii by restriction enzyme-mediated integration. J Microbiol 48: 253-256
l Wang C, Yoon SH, Shah AA, Chung YR, Kim JY, Choi ES, Keasling JD, Kim SW (2010) Farnesol Production From Escherichia coli by Harnessing the Exogenous Mevalonate Pathway. Biotechnology & Bioengineering 107(3): 421-429
(Year 2009)
l Luca, W.J., Ham, B.K., J.Y. Kim. Plasmodesmata-bridging the gaps between neighboring plant cells. Trend in Cell Biol, 2009 Oct;19(10): p. 495-503
l Huang…J.Y. Kim et al. The genome of the cucumber, Cucumis sativus L. Nature Genetics, 2009 Dec;41(12): p. 1275-81
l Spensley , M., Kim, J.Y., Picot, E. Reid,J., Ott, S., Helliwell, C., I.A. Carré. Evolutionarily conserved regulatory motifs in the promoter of the Arabidopsis clock gene LHY. Plant Cell 2009 Sep; 21(9): p. 2606-23
l Chen, X.Y., L. Liu, E. Lee, X. Han, Y. Rim, H. Chu, S.W. Kim, F. Sack, and J.Y. Kim, The Arabidopsis callose synthase gene, GSL8, is required for cytokinesis and cell patterning. Plant Physiol, 2009. 150: p. 105-113.
l Huang, L., X.Y. Chen, Y. Rim, X. Han, W.K. Cho, S.W. Kim, and J.Y. Kim, Arabidopsis glucan synthase-like 10 functions in male gametogenesis. J Plant Physiol, 2009. 166(4): p. 344-52.
l Chen, X.Y. and J.Y. Kim, Callose synthesis in higher plants. Plant Signaling & Behavior, 2009. 4(6): p. 1-4.
l Cho, W.K., et al., Comprehensive proteome analysis of lettuce latex using multi-dimensional protein identification technology. Phytochem, 2009. 70: p. 570-8.
l Lee, E.G., S.H. Yoon, A. Das, S.H. Lee, C. Li, J.Y. Kim, M.S. Choi, D.K. Oh, and S.W. Kim, Directing vanillin production from ferulic acid by increased acetyl-CoA consumption in recombinant Escherichia coli. Biotechnol Bioeng, 2009. 102(1): p. 200-8.
l Rim, Y.G., J.H. Jung, H.S. Chu, W.K. Cho, S.W. Kim, J.C. Hong, D. Jackson, R. Datla, and J.Y. Kim, A Non-cell Autonomous Mechanism for Control of Plant Architecture and Epidermal Differentiation Involves Intercellular Trafficking of BREVIPEDICELLUS. Functional Plant Biol, 2009. 36: p. 280-9.
l Cho, W.K., X.Y. Chen, H. Chu, Y. Rim, S. Kim, S.T. Kim, S.W. Kim, Z.Y. Park, and J.Y. Kim, Proteomic analysis of the secretome of rice calli. Physiol Plant, 2009. 135(4): p. 331-41.
l Cho, W.K. and J.Y. Kim, Integrated analyses of the rice secretome. Plant Signaling and Behavior, 2009, 4: p. 345-7
l Chen, X.Y., Kim, S.T., Cho, W.K., Rim, Y., Kim, S., Kim, S.W., Kang, K.Y., Park, Z.Y., J.Y. Kim, Proteomics of weakly- bound cell wall proteins in rice calli. J Plant Physiol, 2009. 150; p.105-13.
l Noh, W., Kim, S.W., Bae, D.W., J. Y. Kim, H.S. Ro, Genetic Introduction of Foreign Genes to Pleurotus eryngii by Restriction Enzyme-Mediated Integration. J. Microbiol. 2009. In press
l Yoon, S.-. et al. Combinatorial expression of bacterial whole mevalonate pathway for the production of β-carotene in E. coli. J. Biotechnol. 2009. 140, 218-26
l Cha, J.-. et al. Characterization of orchardgrass p23, a flowering plant Hsp90 cohort protein. Cell Stress and Chaperones, 2009 14: p. 233–43
l Chen, X.Y., S.T. Kim, Y.G. Rim, S. Kim, S.W. Kim, K.Y. Kang, Z.Y. ParK, and J.Y. Kim, Proteomics of weakly bound cell wall proteins in rice calli. J Plant Physiol, 2009. 150; p.105-13.
World Class University Program initiation (2008.12)
(Before Year 2009)
l Chi, Y.H., et al., Abnormal chloroplast development and growth inhibition in rice thioredoxin m knock-down plants. Plant Physiol, 2008. 148(2): p. 808-17.
l Kim, S.T., S. Yu, Y.H. Kang, S.G. Kim, J.Y. Kim, S.H. Kim, and K.Y. Kang, The rice pathogen-related protein 10 (JIOsPR10) is induced by abiotic and biotic stresses and exhibits ribonuclease activity. Plant Cell Rep, 2008. 27(3): p. 593-603.
l Kim, S.T., et al., Proteomics analysis of rice lesion mimic mutant (spl1) reveals tightly localized probenazole-induced protein (PBZ1) in cells undergoing programmed cell death. J Proteome Res, 2008. 7(4): p. 1750-60.
l Yoon, S.H., H.M. Park, J.E. Kim, S.H. Lee, M.S. Choi, J.Y. Kim, D.K. Oh, J.D. Keasling, and S.W. Kim, Increased beta-carotene production in recombinant Escherichia coli harboring an engineered isoprenoid precursor pathway with mevalonate addition. Biotechnol Prog, 2007. 23(3): p. 599-605.
l Yoon, S.H., et al., Engineering the lycopene synthetic pathway in E. coli by comparison of the carotenoid genes of Pantoea agglomerans and Pantoea ananatis. Appl Microbiol Biotechnol, 2007. 74(1): p. 131-9.
l Shi, C.L., X.Y. Chen, and J.Y. Kim, Messenger "RNA" as an intercellular signaling molecule. New Messenger RNA Research Communications, 2007: p. 25-42.
l Moon, J., J.H. Jung, Y. Rim, R. Datla, A. Joliot, D. Jackson, and J.Y. Kim, Regulation of Intercellular Protein and RNA Movement. J Plant biotech, 2007. 34(2): p. 129-37.
l Lee, J.R., et al., Molecular and functional characterization of monocot-specific Pex5p splicing variants, using OsPex5pL and OsPex5pS from rice (Oryza sativa). Mol Cells, 2007. 23(2): p. 161-9.
l Kim, C.Y., L. Liu, and J.Y. Kim, Signaling network for stem cell maintenance and functioning in Arabidopsis shoot apical meristem. Journal of Plant Biology, 2007. 50(3): p. 274.
l Duong, V.C., A. Das, S.W. Kim, and J.Y. Kim, Recent advances in understanding and regulation of plant flavour. Functional Plant Science and Biotechnology, 2007. 1(2): p. 223-31.
l Das, A., S.H. Yoon, S.H. Lee, J.Y. Kim, D.K. Oh, and S.W. Kim, An update on microbial carotenoid production: application of recent metabolic engineering tools. Appl Microbiol Biotechnol, 2007. 77(3): p. 505-12.
l Yoon, S.H., et al., Enhanced lycopene production in Escherichia coli engineered to synthesize isopentenyl diphosphate and dimethylallyl diphosphate from mevalonate. Biotechnol Bioeng, 2006. 94(6): p. 1025-32.
l Lee, J.R., et al., Cloning of two splice variants of the rice PTS1 receptor, OsPex5pL and OsPex5pS, and their functional characterization using pex5-deficient yeast and Arabidopsis.Plant J, 2006. 47(3): p. 457-66.
l Chen, X.Y. and J.Y. Kim, Transport of macromolecules through plasmodesmata and the phloem. Physiologia Plantarum, 2006. 126(4): p. 560.
l Kim, S.W., et al., Intercellular trafficking of Homeodomain proteins. Plant Pathol J, 2005. 21(1): p. 21-6.
l Kim, J.Y., Y. Rim, J. Wang, and D. Jackson, A novel cell-to-cell trafficking assay indicates that the KNOX homeodomain is necessary and sufficient for intercellular protein and mRNA trafficking. Genes Dev, 2005. 19(7): p. 788-93.
l Yoon, S.H., et al., Production of vanillin by metabolically engineered Escherichia coli. Biotechnol Lett, 2005. 27(22): p. 1829-32.
l Kim, J.Y., Regulation of short-distance transport of RNA and protein. Curr Opin Plant Biol, 2005. 8(1): p. 45-52.
l Kim, J.Y., Z. Yuan, and D. Jackson, Developmental regulation and significance of KNOX protein trafficking in Arabidopsis. Development, 2003. 130: p. 4351-62.
l Kim, J.Y., H.R. Song, B.L. Taylor, and I.A. Carre, Light-regulated translation mediates gated induction of the Arabidopsis clock protein LHY. EMBO J, 2003. 22(4): p. 935-44.
l Jackson, D. and J.Y. Kim, Dispatch. Intercellular signaling: an elusive player steps forth. Curr Biol, 2003. 13(9): p. R349-50.
Before 2003 (Cold Spring Harbor Lab, Warwick University, University of Paris XI)
l Kim, J.Y., Z. Yuan, M. Cilia, Z. Khalfan-Jagani, and D. Jackson, Intercellular trafficking of a KNOTTED1 green fluorescent protein fusion in the leaf and shoot meristem of Arabidopsis.Proc Natl Acad Sci U S A, 2002. 99(6): p. 4103-8.
l Carre, I.A. and J.Y. Kim, MYB transcription factors in the Arabidopsis circadian clock. J Exp Bot, 2002. 53(374): p. 1551-7.
l Carre, I.A., J.Y. Kim, H.R. Song, and B. Taylor, Multiple functions of the LHY transcription factor in the Arabidopsis circadian clock. Perspective in comparative endocrinnology, 2001: p. 103-8.
l Kim, J.Y., A. Mahe, S. Guy, J. Brangeon, O. Roche, P.S. Chourey, and J.L. Prioul, Characterization of two members of the maize gene family, Incw3 and Incw4, encoding cell-wall invertases. Gene, 2000. 245(1): p. 89-102.
l Kim, J.Y., A. Mahe, J. Brangeon, and J.L. Prioul, A maize vacuolar invertase, IVR2, is induced by water stress. Organ/tissue specificity and diurnal modulation of expression. Plant Physiol, 2000. 124(1): p. 71-84.
l Taliercio, E.W., J.Y. Kim, A. Mahe, S. Shanker, J. Choi, W.H. Cheng, J.L. Prioul, and P.S. Chourey, Isolation, characterization and expression analyses of two cell wall invertase genes in maize (Incw1 and Incw2). 1999 Aug. J Plant Physiol, 1999. 155: p. 197-204.
l Pelleschi, S., S. Guy, J.Y. Kim, C. Pointe, A. Mahe, L. Barthes, A. Leonardi, and J.L. Prioul, Ivr2, a candidate gene for a QTL of vacuolar invertase activity in maize leaves. Gene-specific expression under water stress. Plant Mol Biol, 1999. 39(2): p. 373-80.
A patent application / registration
l "원형질연락사를 통해 이동 가능한 복합체 및 그를 이용하여 식물 세포 간 목적 물질을 이동시키는 방법, 2013.02.27 pending # 10-2013-0014122 , Korea
l Kim et al, GSL8 and its use, 2009.06.27 pending PCT/KR2009/003356
l Kim et al, GSL10 and its use, 2008.03.14 pending # 10-2008-0023901, Korea
l Kim et al, GSL8 and its use, 2008.06.27 pending # 10-2008-0061565, Registration # 10-1075819, Korea
Book Chapters
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Selected Other Publications
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