Article
Plant Sciences
Hosna Alvandi, S. Mohsen Taghavi, Moein Khojasteh, Touraj Rahimi, Cecile Dutrieux, Geraldine Taghouti, Marie-Agnes Jacques, Perrine Portier, Ebrahim Osdaghi
Summary: In this study, a pathovar-specific primer pair was designed using comparative genomics approach to detect and differentiate X. translucens pv. undulosa from other pathovars of the species. The PCR test showed high sensitivity, allowing detection of the pathogen even at low concentrations. This method is a significant step towards precise detection and identification of X. translucens pv. undulosa to prevent outbreaks of the bacterial leaf streak disease.
Article
Plant Sciences
Priya Lal Biswas, Ujjal Kumar Nath, Sharmistha Ghosal, Gayatri Goswami, Md Shalim Uddin, Omar M. Ali, Arafat Abdel Hamed Abdel Latef, Alison M. Laing, Yong-Ming Gao, Akbar Hossain
Summary: In this study, combinations of four BB resistance genes were pyramided into populations derived from a widely planted Indonesian rice variety crossed with an IRBB60 resistant variety. Promising recombinants with high yield potential and broad spectrum resistance were identified through marker-assisted selection. The developed BB-resistant RILs have the potential to be further developed for cultivation or as sources of BB resistance for varietal improvement in other rice lines.
Article
Agriculture, Multidisciplinary
Yanlin Chen, Tingting Li, Zhichao Jin, Yonggui Robin Chi
Summary: A new class of axially chiral thiazine molecules were constructed and showed promising antibacterial activities against Xanthomonas oryzae pv. oryzae (Xoo). The axial chiralities of these compounds had clear impacts on the inhibitory activities against Xoo. The optimal molecule exhibited superior inhibitory activity and outperformed the controls in in vivo studies.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2022)
Article
Plant Sciences
Anirban Nath, Disharee Nath, Atish Barua, Kasturi Majumder, Tapash Dasgupta, Sabyasachi Kundagrami
Summary: This paper evaluates the resistance of rice genotypes from diverse origins against three strains of Xanthomonas oryzae in India, and identifies the importance of the combination of xa5 + xa13 + Xa21 genes in maintaining stable resistance.
JOURNAL OF PLANT PATHOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Hinda Doucoure, Florence Auguy, Servane Blanvillain-Baufume, Sandrine Fabre, Marc Gabriel, Emilie Thomas, Fleur Dambreville, Coline Sciallano, Boris Szurek, Ousmane Koita, Valerie Verdier, Sebastien Cunnac
Summary: This study investigates the transcriptional activation of Xoo strains in rice. Genome editing can confer broad resistance on Asian Xoo strains but not on African Xoo strains. The study also identifies a possible off-target gene for TalC and documents the first example of divergent transcription activation by a native TALE during infection.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Agronomy
Kittisak Buddhachat, Onchira Ritbamrung, Nattaporn Sripairoj, Phithak Inthima, Kumrop Ratanasut, Thanita Boonsrangsom, Kawee Sujipuli
Summary: This study developed a rapid and reliable detection method for Xanthomonas oryzae pv. oryzae (Xoo) using a one-step colorimetric loop-mediated isothermal amplification (cLAMP) assay, which demonstrated high specificity and sensitivity with visualized results. The cLAMP assay showed promising performance for Xoo detection in both laboratory and field settings.
Article
Plant Sciences
Prashantee Singh, Raj Kumar Verma, Subhadeep Chatterjee
Summary: The Xanthomonas group of phytopathogens communicate using a fatty acid-like signal molecule known as diffusible signal factor (DSF). In the rice pathogen, Xanthomonas oryzae pv. oryzae, DSF regulates virulence-associated functions including the secretion of cell wall hydrolysing type II effectors. Mutant analysis showed that DSF is required for membrane integrity in regulating the secretion of type II effectors and virulence. Increasing osmolarity could rescue the hypersecretion phenotype of the mutant.
MOLECULAR PLANT PATHOLOGY
(2022)
Article
Agronomy
Congying Wang, Shen Chen, Aiqing Feng, Jing Su, Wenjuan Wang, Jinqi Feng, Bing Chen, Meiying Zhang, Jianyuan Yang, Liexian Zeng, Xiaoyuan Zhu
Summary: The research revealed that the rice resistance gene Xa7 is an orphan gene encoding a novel protein that triggers resistance reaction by perceiving AvrXa7. Additionally, it was found that Xa7 is absent in most cultivated rice varieties, but highly homologs of XA7 were identified in wild grasses such as Leersia perrieri.
Article
Biochemistry & Molecular Biology
Yuxuan Hou, Yan Liang, Changdeng Yang, Zhijuan Ji, Yuxiang Zeng, Guanghao Li, E. Zhiguo
Summary: In 2020-2022, there was an outbreak of rice bacterial blight (BB) in the Yangtze River area, China. We determined the complete genome of Xanthomonas oryzae pv. oryzae (Xoo) strain LA20 using PacBio and Illumina sequencing. Comparative analysis of LA20 and the representative strain YC11 revealed significant variability in Tal genes, which may be responsible for LA20's ability to overcome resistance in rice varieties, leading to the resurgence of BB. The complete genome of this new pandemic Xoo strain will provide insights into pathogen evolution and the epidemic status of the disease in China.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Tushar Joshi, Tanuja Joshi, Priyanka Sharma, Subhash Chandra, Veena Pande
Summary: The study screened 14 plant compounds with good antibacterial activity against Xoo for potential bactericidal candidates against bacterial leaf blight of rice. Eight compounds showed good stability in molecular dynamics simulations, indicating their potential as effective treatments for BLB disease.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2021)
Article
Plant Sciences
Sharmila Roy, Pragya Mittal, Lavanya Tayi, Sahitya Bondada, Malay K. Ray, Hitendra K. Patel, Ramesh V. Sonti
Summary: RNase R is essential for virulence, motility and growth of Xanthomonas oryzae pv. oryzae (Xoo) in rice.
Article
Plant Sciences
Raj Kumar Gautam, Pankaj Kumar Singh, Krishnan Sakthivel, K. Venkatesan, Shyam S. Rao, M. Srikumar, Joshitha Vijayan, B. Rakesh, Soham Ray, Jameel Akhtar, Bharat Raj Meena, Sapna Langyan, Sharik Ali, S. L. Krishnamurthy
Summary: Bacterial blight is a major disease of rice, and developing rice varieties with resistance genes is an effective solution. In this study, we successfully introgressed four resistance genes into Carri Dhan 5, a popular rice variety, through marker-assisted backcross breeding.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Microbiology
John Webster, Monica A. Kehoe, Elisse Nogarotto, Linda Falconer, Nerida Jane Donovan, Toni A. Chapman
Summary: Swift and accurate diagnostics are essential for responding to pathogen incursions. Current assays for citrus bacterial canker lack specificity when testing Australian samples, prompting the development of a more specific detection tool. Genomic comparisons and validation against isolates were utilized to develop an improved diagnostic method with 100% corroboration, enhancing the ability for effective identification of citrus bacterial canker.
Article
Plant Sciences
Yan Lin, Yong-Yan Liao, Ru-Xia Huang, Ai-Zhou Li, Shi-Qi An, Ji-Liang Tang, Dong-Jie Tang
Summary: The research unveiled the crucial role of extracellular amylase in the virulence of Xanthomonas campestris pv. campestris. They found that amyA(XCC) is responsible for controlling the activity of extracellular amylase, which is induced by starch and regulated by the posttranscriptional regulator RsmA. Additionally, RsmA also plays a role in regulating the expression of amyA(XCC) at the transcriptional level, potentially through an indirect mechanism.
Article
Microbiology
Lata Jain, Vinay Kumar, Sanjay Kumar Jain, Pankaj Kaushal, Probir Kumar Ghosh
Summary: This study isolated 19 bacteriophages infecting Xanthomonas oryzae pv. oryzae (Xoo) from a rice field, one of which, Phage vB_XooS_NR08, showed antibacterial activity against all Xoo strains tested and did not lyse unrelated bacterial hosts. Phage NR08 displayed high viability under various conditions and had a genome size that was almost double that of previously reported Xoophages, indicating it as a novel Xoophage. In vitro and in vivo experiments demonstrated the potential of NR08 as a biocontrol agent for controlling bacterial leaf blight (BLB) disease in rice.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Changwoo Park, Jina Lee, Zohaib Ul Hassan, Keun Bon Ku, Seong-Jun Kim, Hong Gi Kim, Edmond Changkyun Park, Gun-Soo Park, Daeui Park, Seung-Hwa Baek, Dongju Park, Jihye Lee, Sangeun Jeon, Seungtaek Kim, Chang-Seop Lee, Hee Min Yoo, Seil Kim
Summary: The study found that ddPCR is more sensitive than RT-qPCR in detecting viral RNA, especially for determining the copy number of reference materials.
JOURNAL OF MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Plant Sciences
Young-Hee Jin, Jung Sun Min, Sangeun Jeon, Jihye Lee, Seungtaek Kim, Tamina Park, Daeui Park, Min Seong Jang, Chul Min Park, Jong Hwan Song, Hyoung Rae Kim, Sunoh Kwon
Summary: Lycorine has been shown to efficiently inhibit various coronavirus infections, especially MERS-CoV and SARS-CoV-2, by directly inhibiting viral RdRp activity. Its binding affinities with SARS-CoV-2 RdRp residues are higher than those of remdesivir, indicating its potential as a candidate for combating the COVID-19 pandemic.
Article
Microbiology
Geum-Seok Jeong, Myung-Gyun Kang, Sang-Ah Han, Ji-In Noh, Jong-Eun Park, Sang-Jip Nam, Daeui Park, Sung-Tae Yee, Hoon Kim
Summary: The study found that HMC is a substance with high selective inhibitory activity against MAO-B and can be considered as a candidate for the treatment of neurodegenerative diseases.
Article
Biochemistry & Molecular Biology
Ngoc Minh Hong Hoang, Sungjin Kim, Hai Duc Nguyen, Minjo Kim, Jin Kim, Byoung-Chul Kim, Daeui Park, Sujun Lee, Byung Pal Yu, Hae Young Chung, Min-Sun Kim
Summary: The study found that rats of different ages exhibit age-dependent responses to the neurotoxic effects of DAB, with inflammatory pathways up-regulated in old rats and metabolism- and detoxification-related pathways up-regulated in young rats.
BIOMOLECULES & THERAPEUTICS
(2021)
Article
Biochemistry & Molecular Biology
Seung-Hwa Baek, Sungbo Hwang, Tamina Park, Yoon-Ju Kwon, Myounglae Cho, Daeui Park
Summary: The study revealed that kuwanon A is a compound with selective COX-2 inhibitory activity, which interacts strongly with key positions at the COX active site, potentially explaining its high selectivity and efficacy.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Jun-Young Park, Hyun-Ju Choi, Tamina Park, Moon-Jo Lee, Hak-Seong Lim, Woong-Suk Yang, Cher-Won Hwang, Daeui Park, Cheorl-Ho Kim
Summary: Melanin-related pigmentation disorders can be prevented by anti-melanogenic agents like Avenanthramide (Avn)-A-B-C, which demonstrated dose-dependent tyrosinase inhibitory activity, with Avn-A-B-C showing the strongest competitive inhibition against intracellular tyrosinase and melanin synthesis. AvnC was found to have a higher binding affinity for tyrosinase than AvnA and AvnB, and was predicted to interact with tyrosinase through two hydrogen bonds at specific amino acid residues. Additionally, AvnB and AvnC were predicted to be non-sensitizers in mammals.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Cell Biology
Heeyoung Yang, Daeui Park, Jeongho Ryu, Tamina Park
Summary: Research has shown that USP11, as a deubiquitinating enzyme interacting with KLF4, affects the growth and chemoresistance of HCC cells by degrading KLF4, while knocking out USP11 leads to reduced lipid content and down-regulation of genes involved in fatty acid metabolism. These findings suggest that USP11 may serve as a potential treatment target for liver diseases.
JOURNAL OF CELLULAR AND MOLECULAR MEDICINE
(2021)
Article
Engineering, Chemical
Geum-Seok Jeong, Eun-Young Lee, Myung-Gyun Kang, Sang-Jip Nam, Daeui Park, Hoon Kim
Summary: This study evaluated the inhibitory activities of lichen fungi against human monoamine oxidases (hMAOs). A compound called (S)-5-methylmellein (5MM) was isolated from an extract and exhibited strong inhibitory activity against hMAO-A. It also showed moderate inhibitory activity against acetylcholinesterase. Molecular docking analysis indicated that 5MM had higher binding affinity for hMAO-A compared to hMAO-B. In silico pharmacokinetic analysis suggests that 5MM has good absorption and permeability properties. These findings suggest that 5MM may be a potential candidate for the treatment of neuropsychiatric disorders.
Article
Chemistry, Medicinal
Sungbo Hwang, Seung-Hwa Baek, Daeui Park
Summary: This study proposes a method that combines statistical analysis and molecular quantum mechanics simulations to efficiently predict the binding affinity between SARS-CoV-2 variants and hACE2 or monoclonal antibodies. The method accurately predicts the trend of binding affinity and interaction energy changes, demonstrating its effectiveness in predicting the effects of mutations.
JOURNAL OF CHEMICAL INFORMATION AND MODELING
(2022)
Article
Developmental Biology
Jinsoo Lee, Ji-Seong Jeong, Sang Yun Kim, Woojin Kim, Sun-Young Lee, Jeong-Dong Park, Jung-Hwa Oh, Daeui Park, Seung-Jin Lee, Sang-Ki Baek, Yixian Quah, Sang-Yoon Nam, Wook-Joon Yu
Summary: This study investigated and characterized an animal model for bis-diamine-induced congenital heart defects. The results demonstrate the potential clinical value of this animal model and its usefulness in further studies on cardiovascular defects and related mechanisms.
BIRTH DEFECTS RESEARCH
(2022)
Article
Biochemical Research Methods
Hyun Kil Shin, Hang-Suk Chun, Sangwoo Lee, Se-Myo Park, Daeui Park, Myung-Gyun Kang, Sungbo Hwang, Jung-Hwa Oh, Hyoung-Yun Han, Woo-Keun Kim, Seokjoo Yoon
Summary: Drug-induced liver injury poses challenges in predictive toxicology due to complex metabolites and various mechanisms involved. ToxSTAR offers structural similarity-based analysis and prediction models for different DILI subtypes.
Article
Toxicology
Heeyoung Yang, Tamina Park, Daeui Park, Myung-Gyun Kang
Summary: Drug-induced liver injury (DILI) is a serious concern for public healthcare systems and pharmaceutical companies. This study investigates the mechanism by which DILI drugs alter the activation and phenotype of hepatic macrophages. The findings suggest that proinflammatory M1-like macrophages contribute to hepatotoxicity mediated by DILI drugs, and the interferon type I pathway, cytokines, and apoptosis pathway are involved in the initiation of liver injury. Transcriptional changes in genes related to macrophage polarization could be used as indicators to reflect the severity of DILI during drug development.
TOXICOLOGY IN VITRO
(2022)
Article
Gastroenterology & Hepatology
Ji-Yoon Noh, In Pyo Lee, Na Rae Han, Miok Kim, Yong Ki Min, Sang-Yeop Lee, Sung Ho Yun, Seung Il Kim, Tamina Park, Hyunmin Chung, Daeui Park, Chang Hoon Lee
Summary: In this study, a novel combination therapy of AB680 and palbociclib was demonstrated to be advantageous for the treatment of CRC.
CELLULAR AND MOLECULAR GASTROENTEROLOGY AND HEPATOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Sang Gyun Noh, Hee Jin Jung, Seungwoo Kim, Radha Arulkumar, Dae Hyun Kim, Daeui Park, Hae Young Chung
Summary: This study aimed to evaluate the effects of age and sex on gene expression and identify sex-specific target molecules in the regulation of aging. The results showed that the expression of genes related to circadian rhythms changed more in males than in females during liver aging, and Nr1d1 and Nr1d2 were upregulated in males. These findings suggest that age-related upregulation of Nr1d1/2 may play a more crucial role in the change in circadian rhythms in males during liver aging.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Jong Min Oh, Hyun-Jae Jang, Myung-Gyun Kang, Seul-Ki Mun, Daeui Park, Su-Jin Hong, Min Ha Kim, Soo-Young Kim, Sung-Tae Yee, Hoon Kim
Summary: Thirteen compounds were isolated from Canavalia lineata pods and their inhibitory activities against hMAO-A and -B were evaluated. Compounds 8 and 13 showed potent inhibitory activity against hMAO-B, while most compounds weakly inhibited MAO-A. Compounds 8 and 13 were reversible competitive inhibitors against hMAO-B.