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Dr. Hye Sun Cho
125 Gwahakro, Yuseong-gu 34141, Daejeon, Korea

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0 Plant molecular biology
0 Plant Sciences
0 RNA splicing
0 Plant Abiotic Stress
0 Plant post translational modification

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RNA splicing

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Journal article
Published: 22 August 2021 in International Journal of Molecular Sciences
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OsFKBP20-1b, a plant-specific cyclophilin protein, has been implicated to regulate pre-mRNA splicing under stress conditions in rice. Here, we demonstrated that OsFKBP20-1b is SUMOylated in a reconstituted SUMOylation system in E.coli and in planta, and that the SUMOylation-coupled regulation was associated with enhanced protein stability using a less SUMOylated OsFKBP20-1b mutant (5KR_OsFKBP20-1b). Furthermore, OsFKBP20-1b directly interacted with OsSUMO1 and OsSUMO2 in the nucleus and cytoplasm, whereas the less SUMOylated 5KR_OsFKBP20-1b mutant had an impaired interaction with OsSUMO1 and 2 in the cytoplasm but not in the nucleus. Under heat stress, the abundance of an OsFKBP20-1b-GFP fusion protein was substantially increased in the nuclear speckles and cytoplasmic foci, whereas the heat-responsiveness was remarkably diminished in the presence of the less SUMOylated 5KR_OsFKBP20-1b-GFP mutant. The accumulation of endogenous SUMOylated OsFKBP20-1b was enhanced by heat stress in planta. Moreover, 5KR_OsFKBP20-1b was not sufficiently associated with the UsnRNAs in the nucleus as a spliceosome component. A protoplast transfection assay indicated that the low SUMOylation level of 5KR_OsFKBP20-1b led to inaccurate alternative splicing and transcription under heat stress. Thus, our results suggest that OsFKBP20-1b is post-translationally regulated by SUMOylation, and the modification is crucial for proper RNA processing in response to heat stress in rice.

ACS Style

Hyun-Ji Park; Hae-Myeong Jung; Areum Lee; Seung-Hee Jo; Hyo-Jun Lee; Hyun-Soon Kim; Choon-Kyun Jung; Sung-Ran Min; Hye-Sun Cho. SUMO Modification of OsFKBP20-1b Is Integral to Proper Pre-mRNA Splicing upon Heat Stress in Rice. International Journal of Molecular Sciences 2021, 22, 9049 .

AMA Style

Hyun-Ji Park, Hae-Myeong Jung, Areum Lee, Seung-Hee Jo, Hyo-Jun Lee, Hyun-Soon Kim, Choon-Kyun Jung, Sung-Ran Min, Hye-Sun Cho. SUMO Modification of OsFKBP20-1b Is Integral to Proper Pre-mRNA Splicing upon Heat Stress in Rice. International Journal of Molecular Sciences. 2021; 22 (16):9049.

Chicago/Turabian Style

Hyun-Ji Park; Hae-Myeong Jung; Areum Lee; Seung-Hee Jo; Hyo-Jun Lee; Hyun-Soon Kim; Choon-Kyun Jung; Sung-Ran Min; Hye-Sun Cho. 2021. "SUMO Modification of OsFKBP20-1b Is Integral to Proper Pre-mRNA Splicing upon Heat Stress in Rice." International Journal of Molecular Sciences 22, no. 16: 9049.

Focus article
Published: 15 July 2021 in Plant Cell Reports
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ACS Style

Seung Hee Jo; Hyun Ji Park; Areum Lee; Haemyeong Jung; Sung Ran Min; Hyo-Jun Lee; Hyun-Soon Kim; Min Jung; Ji Young Hyun; Youn-Sung Kim; Hye Sun Cho. A single amino acid insertion in LCYB2 deflects carotenoid biosynthesis in red carrot. Plant Cell Reports 2021, 40, 1793 -1795.

AMA Style

Seung Hee Jo, Hyun Ji Park, Areum Lee, Haemyeong Jung, Sung Ran Min, Hyo-Jun Lee, Hyun-Soon Kim, Min Jung, Ji Young Hyun, Youn-Sung Kim, Hye Sun Cho. A single amino acid insertion in LCYB2 deflects carotenoid biosynthesis in red carrot. Plant Cell Reports. 2021; 40 (9):1793-1795.

Chicago/Turabian Style

Seung Hee Jo; Hyun Ji Park; Areum Lee; Haemyeong Jung; Sung Ran Min; Hyo-Jun Lee; Hyun-Soon Kim; Min Jung; Ji Young Hyun; Youn-Sung Kim; Hye Sun Cho. 2021. "A single amino acid insertion in LCYB2 deflects carotenoid biosynthesis in red carrot." Plant Cell Reports 40, no. 9: 1793-1795.

Preprint content
Published: 11 June 2021
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Carotenoids are phytochemicals that are precursors of vitamin A and effective antioxidants, required for human health. The mechanisms and underlying genetic network responsible for regulating carotenoid production in plants, however, is poorly understood, despite the carotenoid biosynthesis pathway being known. We found that a single amino acid insertion in lycopene β-cyclase2 (LCYB2) caused catalytic failure, possibly due to a flux down of lycopene to the carotenoids which may be the molecular basis for the color of red carrot roots.

ACS Style

Hye Sun Cho; Seung Hee Jo; Hyun Ji Park; Areum Lee; Haemyeong Jung; Sung Ran Min; Hyo-Jun Lee; Hyun-Soon Kim; Min Jung; Ji Young Hyun; Youn-Sung Kim. A Single Amino Acid Insertion in LCYB2 Deflects Carotenoid Biosynthesis in Red Carrot. 2021, 1 .

AMA Style

Hye Sun Cho, Seung Hee Jo, Hyun Ji Park, Areum Lee, Haemyeong Jung, Sung Ran Min, Hyo-Jun Lee, Hyun-Soon Kim, Min Jung, Ji Young Hyun, Youn-Sung Kim. A Single Amino Acid Insertion in LCYB2 Deflects Carotenoid Biosynthesis in Red Carrot. . 2021; ():1.

Chicago/Turabian Style

Hye Sun Cho; Seung Hee Jo; Hyun Ji Park; Areum Lee; Haemyeong Jung; Sung Ran Min; Hyo-Jun Lee; Hyun-Soon Kim; Min Jung; Ji Young Hyun; Youn-Sung Kim. 2021. "A Single Amino Acid Insertion in LCYB2 Deflects Carotenoid Biosynthesis in Red Carrot." , no. : 1.

Journal article
Published: 28 April 2021 in International Journal of Molecular Sciences
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Precise flowering timing is critical for the plant life cycle. Here, we examined the molecular mechanisms and regulatory network associated with flowering in Chinese cabbage (Brassica rapa L.) by comparative transcriptome profiling of two Chinese cabbage inbred lines, “4004” (early bolting) and “50” (late bolting). RNA-Seq and quantitative reverse transcription PCR (qPCR) analyses showed that two positive nitric oxide (NO) signaling regulator genes, nitrite reductase (BrNIR) and nitrate reductase (BrNIA), were up-regulated in line “50” with or without vernalization. In agreement with the transcription analysis, the shoots in line “50” had substantially higher nitrogen levels than those in “4004”. Upon vernalization, the flowering repressor gene Circadian 1 (BrCIR1) was significantly up-regulated in line “50”, whereas the flowering enhancer genes named SUPPRESSOR OF OVEREXPRESSION OF CONSTANCE 1 homologs (BrSOC1s) were substantially up-regulated in line “4004”. CRISPR/Cas9-mediated mutagenesis in Chinese cabbage demonstrated that the BrSOC1-1/1-2/1-3 genes were involved in late flowering, and their expression was mutually exclusive with that of the nitrogen signaling genes. Thus, we identified two flowering mechanisms in Chinese cabbage: a reciprocal negative feedback loop between nitrogen signaling genes (BrNIA1 and BrNIR1) and BrSOC1s to control flowering time and positive feedback control of the expression of BrSOC1s.

ACS Style

Haemyeong Jung; Areum Lee; Seung Jo; Hyun Park; Won Jung; Hyun-Soon Kim; Hyo-Jun Lee; Seon-Geum Jeong; Youn-Sung Kim; Hye Cho. Nitrogen Signaling Genes and SOC1 Determine the Flowering Time in a Reciprocal Negative Feedback Loop in Chinese Cabbage (Brassica rapa L.) Based on CRISPR/Cas9-Mediated Mutagenesis of Multiple BrSOC1 Homologs. International Journal of Molecular Sciences 2021, 22, 4631 .

AMA Style

Haemyeong Jung, Areum Lee, Seung Jo, Hyun Park, Won Jung, Hyun-Soon Kim, Hyo-Jun Lee, Seon-Geum Jeong, Youn-Sung Kim, Hye Cho. Nitrogen Signaling Genes and SOC1 Determine the Flowering Time in a Reciprocal Negative Feedback Loop in Chinese Cabbage (Brassica rapa L.) Based on CRISPR/Cas9-Mediated Mutagenesis of Multiple BrSOC1 Homologs. International Journal of Molecular Sciences. 2021; 22 (9):4631.

Chicago/Turabian Style

Haemyeong Jung; Areum Lee; Seung Jo; Hyun Park; Won Jung; Hyun-Soon Kim; Hyo-Jun Lee; Seon-Geum Jeong; Youn-Sung Kim; Hye Cho. 2021. "Nitrogen Signaling Genes and SOC1 Determine the Flowering Time in a Reciprocal Negative Feedback Loop in Chinese Cabbage (Brassica rapa L.) Based on CRISPR/Cas9-Mediated Mutagenesis of Multiple BrSOC1 Homologs." International Journal of Molecular Sciences 22, no. 9: 4631.

Journal article
Published: 16 April 2021 in Plants
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Both obtaining high-yielding, viable protoplasts and following reliable regeneration protocols are prerequisites for the continuous expansion and development of newly emerging systems involving protoplast utilization. This study determines an efficient process from protoplast isolation to shoot regeneration in vitro. The maximum yield of protoplast extraction, which was 6.36 ± 0.51 × 106 protoplasts/g fresh weight (FW), was approximately 3.7 times higher than that previously reported for potato protoplasts. To obtain data, wounded leaves were used by partially cutting both sides of the midrib, and isolated protoplasts were purified by the sucrose cushion method, with a sucrose concentration of 20%. We confirmed a significant effect on the extraction efficiency by measuring enzymolysis during a 6 h period, with three times more washing buffer than the amount normally used. Protoplasts fixed in alginate lenses with appropriate space were successfully recovered and developed into microcalli 2 weeks after culture. In addition, to induce high efficiency regeneration from protoplasts, calli in which greening occurred for 6 weeks were induced to develop shoots in regeneration medium solidified by Gelrite, and they presented a high regeneration efficiency of 86.24 ± 11.76%.

ACS Style

Ki-Beom Moon; Ji-Sun Park; Su-Jin Park; Hyo-Jun Lee; Hye-Sun Cho; Sung-Ran Min; Youn-Il Park; Jae-Heung Jeon; Hyun-Soon Kim. A More Accessible, Time-Saving, and Efficient Method for In Vitro Plant Regeneration from Potato Protoplasts. Plants 2021, 10, 781 .

AMA Style

Ki-Beom Moon, Ji-Sun Park, Su-Jin Park, Hyo-Jun Lee, Hye-Sun Cho, Sung-Ran Min, Youn-Il Park, Jae-Heung Jeon, Hyun-Soon Kim. A More Accessible, Time-Saving, and Efficient Method for In Vitro Plant Regeneration from Potato Protoplasts. Plants. 2021; 10 (4):781.

Chicago/Turabian Style

Ki-Beom Moon; Ji-Sun Park; Su-Jin Park; Hyo-Jun Lee; Hye-Sun Cho; Sung-Ran Min; Youn-Il Park; Jae-Heung Jeon; Hyun-Soon Kim. 2021. "A More Accessible, Time-Saving, and Efficient Method for In Vitro Plant Regeneration from Potato Protoplasts." Plants 10, no. 4: 781.

Journal article
Published: 06 November 2020 in Communications Biology
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Flooding is a common and critical disaster in agriculture, because it causes defects in plant growth and even crop loss. An increase in herbivore populations is often observed after floods, which leads to additional damage to the plants. Although molecular mechanisms underlying the plant responses to flooding have been identified, how plant defence systems are affected by flooding remains poorly understood. Herein, we show that submergence deactivates wound-induced defence against herbivore attack in Arabidopsis thaliana. Submergence rapidly suppressed the wound-induced expression of jasmonic acid (JA) biosynthesis genes, resulting in reduced JA accumulation. While plants exposed to hypoxia in argon gas exhibited similar reduced wound responses, the inhibitory effects were initiated after short-term submergence without signs for lack of oxygen. Instead, expression of ethylene-responsive genes was increased after short-term submergence. Blocking ethylene signalling by ein2-1 mutation partially restored suppressed expression of several wound-responsive genes by submergence. In addition, submergence rapidly removed active markers of histone modifications at a gene locus involved in JA biosynthesis. Our findings suggest that submergence inactivates defence systems of plants, which would explain the proliferation of herbivores after flooding.

ACS Style

Hyo-Jun Lee; Ji-Sun Park; Seung Yong Shin; Sang-Gyu Kim; Gisuk Lee; Hyun-Soon Kim; Jae Heung Jeon; Hye Sun Cho. Submergence deactivates wound-induced plant defence against herbivores. Communications Biology 2020, 3, 1 -9.

AMA Style

Hyo-Jun Lee, Ji-Sun Park, Seung Yong Shin, Sang-Gyu Kim, Gisuk Lee, Hyun-Soon Kim, Jae Heung Jeon, Hye Sun Cho. Submergence deactivates wound-induced plant defence against herbivores. Communications Biology. 2020; 3 (1):1-9.

Chicago/Turabian Style

Hyo-Jun Lee; Ji-Sun Park; Seung Yong Shin; Sang-Gyu Kim; Gisuk Lee; Hyun-Soon Kim; Jae Heung Jeon; Hye Sun Cho. 2020. "Submergence deactivates wound-induced plant defence against herbivores." Communications Biology 3, no. 1: 1-9.

Journal article
Published: 07 May 2020 in Plants
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Gibberellic acid (GA) is one of the factors that promotes flowering in radish (Raphanus Sativus L.), although the mechanism mediating GA activation of flowering has not been determined. To identify this mechanism in radish, we compared the effects of GA treatment on late-flowering (NH-JS1) and early-flowering (NH-JS2) radish lines. GA treatment promoted flowering in both lines, but not without vernalization. NH-JS2 plants displayed greater bolting and flowering pathway responses to GA treatment than NH-JS1. This variation was not due to differences in GA sensitivity in the two lines. We performed RNA-seq analysis to investigate GA-mediated changes in gene expression profiles in the two radish lines. We identified 313 upregulated, differentially expressed genes (DEGs) and 207 downregulated DEGs in NH-JS2 relative to NH-JS1 in response to GA. Of these, 21 and 8 genes were identified as flowering time and GA-responsive genes, respectively. The results of RNA-seq and quantitative PCR (qPCR) analyses indicated that RsFT and RsSOC1-1 expression levels increased after GA treatment in NH-JS2 plants but not in NH-JS1. These results identified the molecular mechanism underlying differences in the flowering-time genes of NH-JS1 and NH-JS2 after GA treatment under insufficient vernalization conditions.

ACS Style

Haemyeong Jung; Seung Hee Jo; Won Yong Jung; Hyun Ji Park; Areum Lee; Jae Sun Moon; So Yoon Seong; Ju-Kon Kim; Youn-Sung Kim; Hye Sun Cho. Gibberellin Promotes Bolting and Flowering via the Floral Integrators RsFT and RsSOC1-1 under Marginal Vernalization in Radish. Plants 2020, 9, 594 .

AMA Style

Haemyeong Jung, Seung Hee Jo, Won Yong Jung, Hyun Ji Park, Areum Lee, Jae Sun Moon, So Yoon Seong, Ju-Kon Kim, Youn-Sung Kim, Hye Sun Cho. Gibberellin Promotes Bolting and Flowering via the Floral Integrators RsFT and RsSOC1-1 under Marginal Vernalization in Radish. Plants. 2020; 9 (5):594.

Chicago/Turabian Style

Haemyeong Jung; Seung Hee Jo; Won Yong Jung; Hyun Ji Park; Areum Lee; Jae Sun Moon; So Yoon Seong; Ju-Kon Kim; Youn-Sung Kim; Hye Sun Cho. 2020. "Gibberellin Promotes Bolting and Flowering via the Floral Integrators RsFT and RsSOC1-1 under Marginal Vernalization in Radish." Plants 9, no. 5: 594.

Original article
Published: 10 January 2020 in The Plant Journal
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Sessile plants have evolved distinct mechanisms to respond and adapt to adverse environmental conditions through diverse mechanisms including RNA processing. While the role of RNA processing in the stress response is well understood for Arabidopsis thaliana, limited information is available for rice (Oryza sativa). Here, we show that OsFKBP20-1b, belonging to the immunophilin family, interacts with the splicing factor OsSR45 in both nuclear speckles and cytoplasmic foci, and plays an essential role in post-transcriptional regulation of abiotic stress response. The expression of OsFKBP20-1b was highly upregulated under various abiotic stresses. Moreover genetic analysis revealed that OsFKBP20-1b positively affected transcription and pre-mRNA splicing of stress-responsive genes under abiotic stress conditions. In osfkbp20-1b loss-of-function mutants, the expression of stress-responsive genes was downregulated, while that of their splicing variants was increased. Conversely, in plants overexpressing OsFKBP20-1b, the expression of the same stress-responsive genes was strikingly upregulated under abiotic stress. In vivo experiments demonstrated that OsFKBP20-1b directly maintains protein stability of OsSR45 splicing factor. Furthermore, we found that the plant-specific OsFKBP20-1b gene has uniquely evolved as a paralogue only in some Poaceae species. Together, our findings suggest that OsFKBP20-1b-mediated RNA processing contributes to stress adaptation in rice.

ACS Style

Hyun Ji Park; Young Nim You; Areum Lee; Haemyeong Jung; Seung Hee Jo; Nuri Oh; Hyun‐Soon Kim; Hyo‐Jun Lee; Ju‐Kon Kim; Youn Shic Kim; Choonkyun Jung; Hye Sun Cho. OsFKBP20‐1b interacts with the splicing factor OsSR45 and participates in the environmental stress response at the post‐transcriptional level in rice. The Plant Journal 2020, 102, 992 -1007.

AMA Style

Hyun Ji Park, Young Nim You, Areum Lee, Haemyeong Jung, Seung Hee Jo, Nuri Oh, Hyun‐Soon Kim, Hyo‐Jun Lee, Ju‐Kon Kim, Youn Shic Kim, Choonkyun Jung, Hye Sun Cho. OsFKBP20‐1b interacts with the splicing factor OsSR45 and participates in the environmental stress response at the post‐transcriptional level in rice. The Plant Journal. 2020; 102 (5):992-1007.

Chicago/Turabian Style

Hyun Ji Park; Young Nim You; Areum Lee; Haemyeong Jung; Seung Hee Jo; Nuri Oh; Hyun‐Soon Kim; Hyo‐Jun Lee; Ju‐Kon Kim; Youn Shic Kim; Choonkyun Jung; Hye Sun Cho. 2020. "OsFKBP20‐1b interacts with the splicing factor OsSR45 and participates in the environmental stress response at the post‐transcriptional level in rice." The Plant Journal 102, no. 5: 992-1007.

Review
Published: 24 December 2019 in Plants
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Over the last several decades, plants have been developed as a platform for the production of useful recombinant proteins due to a number of advantages, including rapid production and scalability, the ability to produce unique glycoforms, and the intrinsic safety of food crops. The expression methods used to produce target proteins are divided into stable and transient systems depending on applications that use whole plants or minimally processed forms. In the early stages of research, stable expression systems were mostly used; however, in recent years, transient expression systems have been preferred. The production of the plant itself, which produces recombinant proteins, is currently divided into two major approaches, open-field cultivation and closed-indoor systems. The latter encompasses such regimes as greenhouses, vertical farming units, cell bioreactors, and hydroponic systems. Various aspects of each system will be discussed in this review, which focuses mainly on practical examples and commercially feasible approaches.

ACS Style

Ki-Beom Moon; Ji-Sun Park; Youn-Il Park; In-Ja Song; Hyo-Jun Lee; Hye Sun Cho; Jae-Heung Jeon; Hyun-Soon Kim; Park. Development of Systems for the Production of Plant-Derived Biopharmaceuticals. Plants 2019, 9, 30 .

AMA Style

Ki-Beom Moon, Ji-Sun Park, Youn-Il Park, In-Ja Song, Hyo-Jun Lee, Hye Sun Cho, Jae-Heung Jeon, Hyun-Soon Kim, Park. Development of Systems for the Production of Plant-Derived Biopharmaceuticals. Plants. 2019; 9 (1):30.

Chicago/Turabian Style

Ki-Beom Moon; Ji-Sun Park; Youn-Il Park; In-Ja Song; Hyo-Jun Lee; Hye Sun Cho; Jae-Heung Jeon; Hyun-Soon Kim; Park. 2019. "Development of Systems for the Production of Plant-Derived Biopharmaceuticals." Plants 9, no. 1: 30.

Article
Published: 30 November 2019 in Plant Molecular Biology
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Plant possesses particular Golgi-resident cyclophilin 21 proteins (CYP21s) and the catalytic isomerase activities have a negative effect on ABA signalling gene expression during early seedling development. Cyclophilins (CYPs) are essential for diverse cellular process, as these catalyse a rate-limiting step in protein folding. Although Golgi proteomics in Arabidopsis thaliana suggests the existence of several CYPs in the Golgi apparatus, only one putative Golgi-resident CYP protein has been reported in rice (Oryza sativa L.; OsCYP21-4). Here, we identified the Golgi-resident CYP21 family genes and analysed their molecular characteristics in Arabidopsis and rice. The CYP family genes (CYP21-1, CYP21-2, CYP21-3, and CYP21-4) are plant-specific, and their appearance and copy numbers differ among plant species. CYP21-1 and CYP21-4 are common to all angiosperms, whereas CYP21-2 and CYP21-3 evolved in the Malvidae subclass. Furthermore, all CYP21 proteins localize to cis-Golgi, trans-Golgi or both cis- and trans-Golgi membranes in plant cells. Additionally, based on the structure, enzymatic function, and topological orientation in Golgi membranes, CYP21 proteins are divided into two groups. Genetic analysis revealed that Group I proteins (CYP21-1 and CYP21-2) exhibit peptidyl prolyl cis–trans isomerase (PPIase) activity and regulate seed germination and seedling growth and development by affecting the expression levels of abscisic acid signalling genes. Thus, we identified the Golgi-resident CYPs and demonstrated that their PPIase activities are required for early seedling growth and development in higher plants.

ACS Style

Haemyeong Jung; Seung Hee Jo; Hyun Ji Park; Areum Lee; Hyun-Soon Kim; Hyo-Jun Lee; Hye Sun Cho. Golgi-localized cyclophilin 21 proteins negatively regulate ABA signalling via the peptidyl prolyl isomerase activity during early seedling development. Plant Molecular Biology 2019, 102, 19 -38.

AMA Style

Haemyeong Jung, Seung Hee Jo, Hyun Ji Park, Areum Lee, Hyun-Soon Kim, Hyo-Jun Lee, Hye Sun Cho. Golgi-localized cyclophilin 21 proteins negatively regulate ABA signalling via the peptidyl prolyl isomerase activity during early seedling development. Plant Molecular Biology. 2019; 102 (1-2):19-38.

Chicago/Turabian Style

Haemyeong Jung; Seung Hee Jo; Hyun Ji Park; Areum Lee; Hyun-Soon Kim; Hyo-Jun Lee; Hye Sun Cho. 2019. "Golgi-localized cyclophilin 21 proteins negatively regulate ABA signalling via the peptidyl prolyl isomerase activity during early seedling development." Plant Molecular Biology 102, no. 1-2: 19-38.

Regular article
Published: 23 July 2019 in New Phytologist
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Plants sense mechanical stimuli to recognize nearby obstacles and change their growth patterns to adapt to the surrounding environment. When roots encounter an obstacle, they rapidly bend away from the impenetrable surface and find the edge of the barrier. However, the molecular mechanisms underlying root obstacle avoidance are largely unknown. Here, we demonstrate that PIN‐FORMED (PIN)‐mediated polar auxin transport facilitates root bending during obstacle avoidance. We analyzed two types of bending after roots touched barriers. In auxin receptor mutants, the rate of root movement during first bending was largely delayed. Gravity‐oriented second bending was also disturbed in these mutants. The reporter assays showed that asymmetrical auxin responses occurred in the roots during obstacle avoidance. Pharmacological analysis suggested that polar auxin transport mediates local auxin accumulation. We found that PINs are required for auxin‐assisted root bending during obstacle avoidance. We propose that rapid root movement during obstacle avoidance is not just a passive but an active bending completed through polar auxin transport. Our findings suggest that auxin plays a role in thigmotropism during plant‐obstacle interactions. This article is protected by copyright. All rights reserved.

ACS Style

Hyo‐Jun Lee; Hyun‐Soon Kim; Jeong Mee Park; Hye Sun Cho; Jae Heung Jeon. PIN ‐mediated polar auxin transport facilitates root−obstacle avoidance. New Phytologist 2019, 225, 1285 -1296.

AMA Style

Hyo‐Jun Lee, Hyun‐Soon Kim, Jeong Mee Park, Hye Sun Cho, Jae Heung Jeon. PIN ‐mediated polar auxin transport facilitates root−obstacle avoidance. New Phytologist. 2019; 225 (3):1285-1296.

Chicago/Turabian Style

Hyo‐Jun Lee; Hyun‐Soon Kim; Jeong Mee Park; Hye Sun Cho; Jae Heung Jeon. 2019. "PIN ‐mediated polar auxin transport facilitates root−obstacle avoidance." New Phytologist 225, no. 3: 1285-1296.

Original article
Published: 02 February 2019 in Plant Biotechnology Reports
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Jerusalem artichoke (JA) tubers are an important bio-economy developing crop because of its invaluable bioproducts in both food and biofuel aspects. However, the molecular mechanism of its tuberization, and the differences among different cultivars have been little studied to date. Therefore, here we selected PJA, DJA, and HJA cultivars of JA tubers, showing variations in their tuber epidermal pigmentation, underground tuberization, and inulin content. A comparative proteome analysis led to the identification of 402 proteins in the tubers of which 114 were significantly modulated among different cultivars. Gene Ontology (GO) analysis showed proteins related to the biosynthesis of amino acids and carbohydrate metabolism were differentially modulated in the tubers of three cultivars. Results from the inulin content measurement and proteome analysis suggest that Sucrose:sucrose 1-fructosyltransferase (1-SST) prioritizes inulin biosynthesis rather than rate-limiting enzyme fructan:fructan 1-fructosyltransferases (1-FFT). Furthermore, we confirmed the relationship between transcript-protein expression levels was in discord within inulin biosynthesis enzymes 1-SST and 1-FFT with the terms in previous RT-qPCR results using the same tubers. Our data represent the first report of comparative tuber proteome profiling of different JA and provide the metabolic and molecular basis for understanding carbohydrate metabolism in the tuber tissue.

ACS Style

Cheol Woo Min; Won Yong Jung; Hyun Ji Park; Ki-Beom Moon; Hyunjun Ko; Jung-Hoon Sohn; Jae-Heung Jeon; Hyun-Soon Kim; Ravi Gupta; Sun Tae Kim; Hye Sun Cho. Label-free quantitative proteomic analysis determines changes in amino acid and carbohydrate metabolism in three cultivars of Jerusalem artichoke tubers. Plant Biotechnology Reports 2019, 13, 111 -122.

AMA Style

Cheol Woo Min, Won Yong Jung, Hyun Ji Park, Ki-Beom Moon, Hyunjun Ko, Jung-Hoon Sohn, Jae-Heung Jeon, Hyun-Soon Kim, Ravi Gupta, Sun Tae Kim, Hye Sun Cho. Label-free quantitative proteomic analysis determines changes in amino acid and carbohydrate metabolism in three cultivars of Jerusalem artichoke tubers. Plant Biotechnology Reports. 2019; 13 (2):111-122.

Chicago/Turabian Style

Cheol Woo Min; Won Yong Jung; Hyun Ji Park; Ki-Beom Moon; Hyunjun Ko; Jung-Hoon Sohn; Jae-Heung Jeon; Hyun-Soon Kim; Ravi Gupta; Sun Tae Kim; Hye Sun Cho. 2019. "Label-free quantitative proteomic analysis determines changes in amino acid and carbohydrate metabolism in three cultivars of Jerusalem artichoke tubers." Plant Biotechnology Reports 13, no. 2: 111-122.

Original article
Published: 29 October 2018 in Plant Biotechnology Reports
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Flowering time (Ft) is the most important characteristic of Chinese cabbage with high leaf yields and late-flowering are favorable traits, while little knowledge on genes involved in Ft and the flowering mechanism in this crop. In this study, we conducted genome-wide RNA-seq analysis using an inbred Chinese cabbage ‘4004’ line in response to vernalization and compared the Ft gene expression with radish crop. A number of Ft genes which play roles in flowering pathways were performed quantitative RT-PCR analysis to verify the regulatory flowering gene network in Chinese cabbage. We found that a total of 223 Ft genes in Chinese cabbage, and 50 of these genes responded to vernalization. The majority of flowering enhancers were upregulated, whereas most flowering repressors were downregulated in response to vernalization as confirmed by RT-qPCR. Among the major Ft genes, the expression of BrCOL1-2, BrFT1/2, BrSOC1/2/3, BrFLC1/2/3/5, and BrMAF was strongly affected by vernalization. In reference to comparative RNA-seq profiling of Ft genes, Chinese cabbage and radish revealed substantially different vernalization response in particular GA flowering pathway. Thus, this study provides new insight into functional divergence in flowering pathways and the regulatory mechanisms in Brassicaceae crops. Further analysis of the major integrator genes between early and late-flowering inbred lines facilitates understanding flowering trait variation and molecular basis of flowering in Chinese cabbage.

ACS Style

Won Yong Jung; Areum Lee; Jae Sun Moon; Youn-Sung Kim; Hye Sun Cho. Genome-wide identification of flowering time genes associated with vernalization and the regulatory flowering networks in Chinese cabbage. Plant Biotechnology Reports 2018, 12, 347 -363.

AMA Style

Won Yong Jung, Areum Lee, Jae Sun Moon, Youn-Sung Kim, Hye Sun Cho. Genome-wide identification of flowering time genes associated with vernalization and the regulatory flowering networks in Chinese cabbage. Plant Biotechnology Reports. 2018; 12 (5):347-363.

Chicago/Turabian Style

Won Yong Jung; Areum Lee; Jae Sun Moon; Youn-Sung Kim; Hye Sun Cho. 2018. "Genome-wide identification of flowering time genes associated with vernalization and the regulatory flowering networks in Chinese cabbage." Plant Biotechnology Reports 12, no. 5: 347-363.

Journal article
Published: 01 December 2017 in Current Genomics
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Introduction: High-throughput RNA sequencing (RNA-Seq) studies demonstrate that Alternative Splicing (AS) is a widespread mechanism that enhances transcriptome diversity, particularly in plants exposed to environmental stress. In an attempt to determine the transcriptome and AS patterns of cabbage inbred line “HO” under Heat Stress (HS), RNA-Seq was carried out using HS-treated and control samples. Genome-wide analysis indicated that AS is differentially regulated in response to HS. The number of AS events markedly increased in HS-treated samples compared to the control. Conclusion: We identified 1,864 genes, including Heat shock transcription factor (Hsf) and heat shock protein (Hsp) genes, that exhibited >4-fold changes in expression upon exposure to HS. The enriched Gene Ontology (GO) terms of the 1,864 genes included ‘response to stress/abiotic stimulus/ chemical stimulus’, among, which the genes most highly induced by HS encode small Hsps and Hsf proteins. The heat-induced genes also showed an increased number of AS events under HS conditions. In addition, the distribution of AS types was altered under HS conditions, as the level of Intron Retention (IR) decreased, whereas other types of AS increased, under these conditions. Severe HSinduced AS was also observed in Hsfs and Hsps, which play crucial roles in regulating heat tolerance. Our results support the notion that AS of HS-related genes, such as HsfA2 and HsfB2a, are important for heat stress adaptation in cabbage.

ACS Style

Sang Sook Lee; Won Yong Jung; Hyun Ji Park; Arum Lee; Suk-Yoon Kwon; Hyun-Soon Kim; Hye Sun Cho. Genome-wide Analysis of Alternative Splicing in An Inbred Cabbage (Brassica oleracea L.) Line ‘HO’ in Response to Heat Stress. Current Genomics 2017, 19, 12 -20.

AMA Style

Sang Sook Lee, Won Yong Jung, Hyun Ji Park, Arum Lee, Suk-Yoon Kwon, Hyun-Soon Kim, Hye Sun Cho. Genome-wide Analysis of Alternative Splicing in An Inbred Cabbage (Brassica oleracea L.) Line ‘HO’ in Response to Heat Stress. Current Genomics. 2017; 19 (1):12-20.

Chicago/Turabian Style

Sang Sook Lee; Won Yong Jung; Hyun Ji Park; Arum Lee; Suk-Yoon Kwon; Hyun-Soon Kim; Hye Sun Cho. 2017. "Genome-wide Analysis of Alternative Splicing in An Inbred Cabbage (Brassica oleracea L.) Line ‘HO’ in Response to Heat Stress." Current Genomics 19, no. 1: 12-20.

Journal article
Published: 01 December 2017 in Korean Journal of Breeding Science
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Youn-Sung Kim; Won-Yong Jung; Sun-Geum Jung; Jeong-Pal Seo; Jae-Yong Lee; Hye-Sun Cho. Sequence Variation Analysis of Flowering-time Genes in Two Radish Lines with Different Flowering Time. Korean Journal of Breeding Science 2017, 49, 351 -358.

AMA Style

Youn-Sung Kim, Won-Yong Jung, Sun-Geum Jung, Jeong-Pal Seo, Jae-Yong Lee, Hye-Sun Cho. Sequence Variation Analysis of Flowering-time Genes in Two Radish Lines with Different Flowering Time. Korean Journal of Breeding Science. 2017; 49 (4):351-358.

Chicago/Turabian Style

Youn-Sung Kim; Won-Yong Jung; Sun-Geum Jung; Jeong-Pal Seo; Jae-Yong Lee; Hye-Sun Cho. 2017. "Sequence Variation Analysis of Flowering-time Genes in Two Radish Lines with Different Flowering Time." Korean Journal of Breeding Science 49, no. 4: 351-358.

Journal article
Published: 01 November 2017 in Journal of Plant Physiology
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We previously isolated Nicotiana benthamiana matrix metalloprotease 1 (NMMP1) from tobacco leaves. The NMMP1 gene encodes a highly conserved, Zn-containing catalytic protease domain that functions as a factor in the plant's defense against bacterial pathogens. Expression of NMMP1 was strongly induced during interactions between tobacco and one of its pathogens, Phytophthora infestans. To elucidate the role of the NMMP1 in defense of N. benthamiana against fungal pathogens, we performed gain-of-function and loss-of-function studies. NMMP1-overexpressing plants had stronger resistance responses against P. infestans infections than control plants, while silencing of NMMP1 resulted in greater susceptibility of the plants to the pathogen. This greater susceptibility correlated with fewer NMMP1 transcripts than the non-silenced control. We also examined cell death as a measure of disease. The amount of cell death induced by the necrosis-inducing P. infestans protein 1, PiNPP1, was dependent on NMMP1 in N. benthamiana. Potato plants overexpressing NMMP1 also had enhanced disease resistance against P. infestans. RT-PCR analysis of these transgenic potato plants revealed constitutive up-regulation of the potato defense gene NbPR5. NMMP1-overexpressing potato plants were taller and produced heavier tubers than control plants. We suggest a role for NMMP1in pathogen defense and development.

ACS Style

Jang Ho Ha; Hyun A. Jang; Ki-Beom Moon; Kwang Hyun Baek; Gyung Ja Choi; Doil Choi; Hye Sun Cho; Suk Yun Kwon; Jae-Heung Jeon; Sang-Keun Oh; Hyun-Soon Kim. Nicotiana benthamiana Matrix Metalloprotease 1 (NMMP1) gene confers disease resistance to Phytophthora infestans in tobacco and potato plants. Journal of Plant Physiology 2017, 218, 189 -195.

AMA Style

Jang Ho Ha, Hyun A. Jang, Ki-Beom Moon, Kwang Hyun Baek, Gyung Ja Choi, Doil Choi, Hye Sun Cho, Suk Yun Kwon, Jae-Heung Jeon, Sang-Keun Oh, Hyun-Soon Kim. Nicotiana benthamiana Matrix Metalloprotease 1 (NMMP1) gene confers disease resistance to Phytophthora infestans in tobacco and potato plants. Journal of Plant Physiology. 2017; 218 ():189-195.

Chicago/Turabian Style

Jang Ho Ha; Hyun A. Jang; Ki-Beom Moon; Kwang Hyun Baek; Gyung Ja Choi; Doil Choi; Hye Sun Cho; Suk Yun Kwon; Jae-Heung Jeon; Sang-Keun Oh; Hyun-Soon Kim. 2017. "Nicotiana benthamiana Matrix Metalloprotease 1 (NMMP1) gene confers disease resistance to Phytophthora infestans in tobacco and potato plants." Journal of Plant Physiology 218, no. : 189-195.

Journal article
Published: 20 July 2017 in Frontiers in Plant Science
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CYP21-4 is a novel Golgi-localized cyclophilin protein involved in oxidative stress tolerance. Here, we generated transgenic plants overexpressing AtCYP21-4 and OsCYP21-4 in potato and rice, respectively. The stems and roots of AtCYP21-4-overexpressing potato plants were longer than those of wild-type (WT) plants, which resulted in heavier tubers. In vitro tuberization in the transgenic potato also resulted in significantly greater tuber number and weight, as well as a shorter time to microtuber formation. Similarly, OsCYP21-4-overexpressing transgenic rice plants had higher biomass and productivity with longer early-stage internodes than the WT and higher seed weight. Immunoblot analysis with CYP21-4 antibody showed that these productivity-enhancing phenotypes were associated with high CYP21-4s protein expression. Anatomically, transgenic potato stems exhibited higher lignin content in xylem cells and thicker leaves. In addition, relative content of mannosidic glycoproteins per unit of total protein was above 20% in transgenic potato tubers and rice grains. Based on these findings, we propose that CYP21-4s are involved in the growth and development of plant vegetative and storage tissues via their effects on glycoprotein abundance or glycan processing in the Golgi apparatus. Thus, increasing CYP21-4s expression in crops could represent an alternative way to increase crop productivity and yield.

ACS Style

Hyun Ji Park; Areum Lee; Sang Sook Lee; Dong-Ju An; Ki-Beom Moon; Jun Cheul Ahn; Hyun-Soon Kim; Hye Sun Cho. Overexpression of Golgi Protein CYP21-4s Improves Crop Productivity in Potato and Rice by Increasing the Abundance of Mannosidic Glycoproteins. Frontiers in Plant Science 2017, 8, 1250 .

AMA Style

Hyun Ji Park, Areum Lee, Sang Sook Lee, Dong-Ju An, Ki-Beom Moon, Jun Cheul Ahn, Hyun-Soon Kim, Hye Sun Cho. Overexpression of Golgi Protein CYP21-4s Improves Crop Productivity in Potato and Rice by Increasing the Abundance of Mannosidic Glycoproteins. Frontiers in Plant Science. 2017; 8 ():1250.

Chicago/Turabian Style

Hyun Ji Park; Areum Lee; Sang Sook Lee; Dong-Ju An; Ki-Beom Moon; Jun Cheul Ahn; Hyun-Soon Kim; Hye Sun Cho. 2017. "Overexpression of Golgi Protein CYP21-4s Improves Crop Productivity in Potato and Rice by Increasing the Abundance of Mannosidic Glycoproteins." Frontiers in Plant Science 8, no. : 1250.

Original research article
Published: 09 December 2016 in Frontiers in Plant Science
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Late bolting after cold exposure is an economically important characteristic of radish (Raphanus sativus L.), an important Brassicaceae root vegetable crop. However, little information is available regarding the genes and pathways that govern flowering time in this species. We performed high-throughput RNA sequencing analysis to elucidate the molecular mechanisms that determine the differences in flowering times between two radish lines, NH-JS1 (late bolting) and NH-JS2 (early bolting). In total, 71,188 unigenes were identified by reference-guided assembly, of which 309, 788, and 980 genes were differentially expressed between the two inbred lines after 0, 15, and 35 days of vernalization, respectively. Among these genes, 218 homologs of Arabidopsis flowering-time (Ft) genes were identified in the radish, and 49 of these genes were differentially expressed between the two radish lines in the presence or absence of vernalization treatment. Most of the Ft genes up-regulated in NH-JS1 vs NH-JS2 were repressors of flowering, such as RsFLC, consistent with the late-bolting phenotype of NH-JS1. Although the functions of genes down-regulated in NH-JS1 were less consistent with late-bolting characteristics than the up-regulated Ft genes, several Ft enhancer genes, including RsSOC1, a key floral integrator, showed an appropriate expression to the late-bolting phenotype. In addition, the patterns of gene expression related to the vernalization pathway closely corresponded with the different bolting times of the two inbred lines. These results suggest that the vernalization pathway is conserved between radish and Arabidopsis.

ACS Style

Won Yong Jung; Hyun Ji Park; Areum Lee; Sang Sook Lee; Youn-Sung Kim; Hye Sun Cho. Identification of Flowering-Related Genes Responsible for Differences in Bolting Time between Two Radish Inbred Lines. Frontiers in Plant Science 2016, 7, 1844 .

AMA Style

Won Yong Jung, Hyun Ji Park, Areum Lee, Sang Sook Lee, Youn-Sung Kim, Hye Sun Cho. Identification of Flowering-Related Genes Responsible for Differences in Bolting Time between Two Radish Inbred Lines. Frontiers in Plant Science. 2016; 7 ():1844.

Chicago/Turabian Style

Won Yong Jung; Hyun Ji Park; Areum Lee; Sang Sook Lee; Youn-Sung Kim; Hye Sun Cho. 2016. "Identification of Flowering-Related Genes Responsible for Differences in Bolting Time between Two Radish Inbred Lines." Frontiers in Plant Science 7, no. : 1844.

Original article
Published: 01 November 2016 in Plant Biotechnology Reports
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Jerusalem artichoke (Helianthus tuberosus L.), a plant of the Asteraceae family, is widely cultivated for its multiple pharmacological properties and is being developed as a renewable feedstock, as well as a source of biofuels and biochemicals for industrial applications. Despite its nutritional benefits and economic potential, transcriptomic and genomic information is scarce. In the present study, we performed phenotypic characterization and RNA-Seq analysis of three Jerusalem artichoke cultivars, “Purple Jerusalem artichoke” (PJA), “Hindung Jerusalem artichoke” (HJA) and “Dafeng Jerusalem artichoke” (DJA). The cultivars exhibited obvious differences in their responses to drought, high salinity and oxidative stress, as well as morphological variations. The PJA cultivar had the highest concentration of anthocyanin, and the DJA cultivar had the strongest tolerance to environmental stresses among the three cultivars. Based on the three assembled transcriptomes, we identified 2435, 3283 and 3657 putative cultivar-specific transcripts from leaf and tuber tissues in cultivars PJA, HJA and DJA, respectively, which enlarges the pool of transcriptomes available for Jerusalem artichoke. We also detected 11,319, 13,190 and 12,717 potential cultivar-specific simple sequence repeats (SSRs) from the transcriptomic data for, PJA, HJA and DJA, respectively. In addition, five SSRs were identified as candidate molecular markers for cultivar identification, as determined by genomic PCR analysis. Our comparative RNA-Seq analysis and de novo transcriptome assemblies constitute a comprehensive transcriptome resource and provide essential sequence information for identifying Jerusalem artichoke cultivars. These results should therefore be useful for future gene discovery, molecular studies and agricultural improvement of this important non-model species.

ACS Style

Won Yong Jung; Sang Sook Lee; Hyun Ji Park; Chul Wook Kim; Suk-Yoon Kwon; Jae-Heung Jeon; Hyun-Soon Kim; Hye Sun Cho. Comparative transcriptome profiling and SSR marker identification in three Jerusalem artichoke (Helianthus tuberosus L.) cultivars exhibiting phenotypic variation. Plant Biotechnology Reports 2016, 10, 447 -461.

AMA Style

Won Yong Jung, Sang Sook Lee, Hyun Ji Park, Chul Wook Kim, Suk-Yoon Kwon, Jae-Heung Jeon, Hyun-Soon Kim, Hye Sun Cho. Comparative transcriptome profiling and SSR marker identification in three Jerusalem artichoke (Helianthus tuberosus L.) cultivars exhibiting phenotypic variation. Plant Biotechnology Reports. 2016; 10 (6):447-461.

Chicago/Turabian Style

Won Yong Jung; Sang Sook Lee; Hyun Ji Park; Chul Wook Kim; Suk-Yoon Kwon; Jae-Heung Jeon; Hyun-Soon Kim; Hye Sun Cho. 2016. "Comparative transcriptome profiling and SSR marker identification in three Jerusalem artichoke (Helianthus tuberosus L.) cultivars exhibiting phenotypic variation." Plant Biotechnology Reports 10, no. 6: 447-461.

Review
Published: 13 October 2016 in International Journal of Molecular Sciences
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Disease prevention through vaccination is considered to be the greatest contribution to public health over the past century. Every year more than 100 million children are vaccinated with the standard World Health Organization (WHO)-recommended vaccines including hepatitis B (HepB). HepB is the most serious type of liver infection caused by the hepatitis B virus (HBV), however, it can be prevented by currently available recombinant vaccine, which has an excellent record of safety and effectiveness. To date, recombinant vaccines are produced in many systems of bacteria, yeast, insect, and mammalian and plant cells. Among these platforms, the use of plant cells has received considerable attention in terms of intrinsic safety, scalability, and appropriate modification of target proteins. Research groups worldwide have attempted to develop more efficacious plant-derived vaccines for over 30 diseases, most frequently HepB and influenza. More inspiring, approximately 12 plant-made antigens have already been tested in clinical trials, with successful outcomes. In this study, the latest information from the last 10 years on plant-derived antigens, especially hepatitis B surface antigen, approaches are reviewed and breakthroughs regarding the weak points are also discussed.

ACS Style

Young Hee Joung; Se Hee Park; Ki-Beom Moon; Jae-Heung Jeon; Chang Won Choi; Hyun-Soon Kim. The Last Ten Years of Advancements in Plant-Derived Recombinant Vaccines against Hepatitis B. International Journal of Molecular Sciences 2016, 17, 1715 .

AMA Style

Young Hee Joung, Se Hee Park, Ki-Beom Moon, Jae-Heung Jeon, Chang Won Choi, Hyun-Soon Kim. The Last Ten Years of Advancements in Plant-Derived Recombinant Vaccines against Hepatitis B. International Journal of Molecular Sciences. 2016; 17 (10):1715.

Chicago/Turabian Style

Young Hee Joung; Se Hee Park; Ki-Beom Moon; Jae-Heung Jeon; Chang Won Choi; Hyun-Soon Kim. 2016. "The Last Ten Years of Advancements in Plant-Derived Recombinant Vaccines against Hepatitis B." International Journal of Molecular Sciences 17, no. 10: 1715.