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        Characterization of the global transcriptome using Illumina sequencing and novel microsatellite marker information in seashore paspalum

        Xinping Jia,Yanming Deng,Xiaobo Sun,Lijian Liang,Xiaoqing Ye 한국유전학회 2015 Genes & Genomics Vol.37 No.1

        Seashore paspalum (Paspalum vaginatum O. Swartz) is a halophytic warm-season perennial grass,which plays an important role in protection of environment. However, very limited transcriptomic and genomic informationare currently available for seashore paspalum. Inthis study, the seashore paspalum transcriptome weresequenced using Illumina paired-end sequencing technology. In total, 32,603 unigenes with an average length of970 bp were obtained by de novo assembly. Of the unigenes,25,411 unigenes (77.94 %) had significant similaritywith known proteins in the NCBI non-redundant proteinand Swiss-Prot databases. Of these annotated unigenes,20,962 and 10,620 unigenes were assigned to gene ontologycategories and clusters of orthologous groups,respectively. A total of 4,699 unigenes were mapped into118 Kyoto Encyclopedia of Genes and Genomes pathways. In addition, 3,010 potential simple sequence repeats (SSRs)were predicted for microsatellite analyse. Tri-nucleotidewas the dominant repeat (1,583, 52.58 %), followed by dinucleotide(975, 32.39 %) and tetra-nucleotide (217,7.21 %). Fifty SSR sites were randomly selected for validationand development of EST–SSR markers. This studyprovided the global sequence data for seashore paspalumand demonstrated that the Illumina paired-end sequencingis a fast and cost-effective approach to gene discovery andmolecular marker development.

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        MiR-506 Promotes Natural Killer Cell Cytotoxicity against Human Hepatocellular Carcinoma Cells by Targeting STAT3

        Zhixiong Su,Xinping Ye,Liming Shang 연세대학교의과대학 2019 Yonsei medical journal Vol.60 No.1

        Purpose: It is well documented that natural killer (NK) cytotoxicity against hepatocellular carcinoma (HCC) cells is impaired inHCC, which might account for the failure of anti-tumor immune response. miRNAs are considered as important regulators forthe development and functions of NK cells. However, the entire role of miR-506 in NK cells remains far from being addressed. Materials and Methods: The expressions of miR-506 and signal transducer and activator of transcription 3 (STAT3) mRNA in primaryNK cells from HCC patients and healthy controls were detected by quantitative real-time PCR. NK cell cytotoxicity was assessedby CFSE/7AAD cytotoxicity assay and lactate dehydrogenase assay. Luciferase reporter assay, RNA immunoprecipitationassay, and western blot were conducted to confirm the interaction between miR-506 and STAT3. Results: miR-506 expression was downregulated and STAT3 mRNA was upregulated in primary NK cells from HCC patients. PrimaryNK cells from HCC patients showed remarkably reduced cytotoxicity against SMMC7721 or HepG2 cells. NK cell cytotoxicitywas positively correlated with miR-506 expression and negatively correlated with STAT3 mRNA expression. Additionally, miR-506 overexpression enhanced NK cell cytotoxicity against HCC cells, while miR-506 inhibitor showed the reverse effect. Moreover,miR-506 could suppress STAT3 expression by directly targeting 3'-untranslated regions of STAT3. A negative correlation betweenmiR-506 and STAT3 mRNA expression in HCC patients was observed. Mechanistically, overexpressing STAT3 greatly reversedmiR-506-mediated promotion of NK cell cytotoxicity against HCC cells. Conclusion: miR-506 enhanced NK cell cytotoxicity against HCC cells by targeting STAT3, suggesting that modulating miR-506expression maybe a promising approach for enhancing NK cell-based antitumor therapies.

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        Disinfection Effect and Its Mechanism of Electrolyzed Oxidizing Water on Spores of Bacillus subtilis var. niger

        Wenwei Tang,Xinping Zeng,Yusheng Zhao,Guoqing Ye,Wenchi Gui,Yaming Ni 한국식품과학회 2011 Food Science and Biotechnology Vol.20 No.4

        A study was carried out on the disinfection efficiency of electrolyzed oxidizing water (EOW) on spores of Bacillus subtilis var. niger. The results showed a remarkable fungicidal rate of 100% after 20 min duration of 191mg/L active available chlorine (ACC). The disinfection effect was improved with increased ACC or prolonged disinfection time, while organic interferents exerted a strong concentration-dependent inhibition against the disinfection. The disinfection mechanism was also investigated at bio-molecular level. EOW decreased dehydrogenase activity, intensified membrane permeability,elevated suspension conductivity, and caused leakage of intracellular K+, proteins, and DNA, indicating a damage of cell walls and membranes. Effects of EOW on microbiological ultra-structures were also verified by transmission electronic microscopy (TEM) images,showing that EOW destroyed protective barriers of the microbe and imposed some damages upon the nucleus area.

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