Applied Biochemistry and Biotechnology最新文献

Activation of Cryptic Secondary Metabolite Biosynthesis in Tobacco BY-2 Suspension Cells by Epigenetic Modifiers. 表观遗传修饰剂激活烟草 BY-2 悬浮细胞中隐性次生代谢物的合成

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2024-11-19 DOI: 10.1007/s12010-024-05096-x

Taiji Nomura, Yasuo Kato

{"title":"Activation of Cryptic Secondary Metabolite Biosynthesis in Tobacco BY-2 Suspension Cells by Epigenetic Modifiers.","authors":"Taiji Nomura, Yasuo Kato","doi":"10.1007/s12010-024-05096-x","DOIUrl":"https://doi.org/10.1007/s12010-024-05096-x","url":null,"abstract":"<p><p>Cultured plant cells often biosynthesize secondary metabolites to a lesser extent relative to the mother plants. This phenomenon is associated with epigenetic alterations of the biosynthetic gene(s). Here we investigated the effectiveness of epigenetic modifiers, such as inhibitors of histone deacetylase (HDAC) and DNA methyltransferase (DNMT), to activate cryptic secondary metabolite biosynthesis in tobacco (Nicotiana tabacum) BY-2 cells. The BY-2 suspension cells cultured with an HDAC inhibitor, suberoyl bis-hydroxamic acid, exhibited strong biosynthesis of four compounds that were originally present at trace concentrations. The induced compounds were identified as caffeoylputrescine (1), 4-O-β-D-glucopyranosylferulic acid (2), 5-O-caffeoylquinic acid (3), and feruloylputrescine (4). Biosynthetic activation of compounds 1-4 was reproduced by two other HDAC inhibitors. Treatment of the cells with a DNMT inhibitor (zebularine) also activated the biosynthesis of compounds 1-4, but had a limited effectiveness relative to the HDAC inhibitors, indicating that histone acetylation levels are involved more than DNA methylation levels in the epigenetic regulation of the biosynthesis of compounds 1-4 in the BY-2 cells. Following our previous demonstration using cultured cells of a monocotyledonous plant, this study demonstrates the utility of epigenetic modifiers to activate cryptic secondary metabolite biosynthesis in cultured cells of a dicotyledonous plant.</p>","PeriodicalId":465,"journal":{"name":"Applied Biochemistry and Biotechnology","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2024-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142666519","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Correction to: Initiation of Apoptotic Pathway by the Cell‑Free Supernatant Synthesized from Weissella cibaria Through In‑Silico and In‑Vitro Methods 更正：无细胞上清液通过硅内和体外方法从西氏Weissella cibaria合成，启动凋亡途径。

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2023-10-26 DOI: 10.1007/s12010-023-04763-9

Manovina Manoharan, Prathiviraj Ragothaman, Thamarai Selvi Balasubramanian

引用次数: 0

Non-targeted Profiling of Sea Buckthorn Fruit Oil Fingerprints from 3 Regions and Study on Its Antioxidant Activity 三个地区沙棘果油指纹图谱的非靶向图谱及其抗氧化活性研究。

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2023-10-24 DOI: 10.1007/s12010-023-04744-y

Ziyi Sun, Gaoning Zhang, Xiaoru Li, Qingqi Cui, Lili Gong, Zhenhua Tian

{"title":"Non-targeted Profiling of Sea Buckthorn Fruit Oil Fingerprints from 3 Regions and Study on Its Antioxidant Activity","authors":"Ziyi Sun, Gaoning Zhang, Xiaoru Li, Qingqi Cui, Lili Gong, Zhenhua Tian","doi":"10.1007/s12010-023-04744-y","DOIUrl":"10.1007/s12010-023-04744-y","url":null,"abstract":"<div><p>This study investigated the chemical and volatile characteristics of sea buckthorn fruits from three different regions in China. The chemical composition of the volatile oil was determined by using a non-targeted gas chromatography and mass spectrometry (GC/MS) method and the differences in chemical composition among the three producing areas were compared by heatmap providing a visual basis for researchers. A total of 93 compounds were identified, including 52 compounds from the Northeast China, 51 from the Xinjiang region, and 37 from Inner Mongolia region. Then, the in vitro antioxidant activity of sea buckthorn fruit oil was measured using DPPH, ABTS, and SOD inhibition tests, and the results showed that sea buckthorn fruit oil in northeast China was the strongest antioxidant, followed by Inner Mongolia and Xinjiang. The results of the CCK-8 experiment indicated that within the tested concentration, there is no cell cytotoxicity of the essential oil in human umbilical vein endothelial cells (HUVECs) cells. The results could supply reference to distinguish sea buckthorn fruit from different production areas and, meanwhile, clarify the activity and safety of sea buckthorn oil.</p></div>","PeriodicalId":465,"journal":{"name":"Applied Biochemistry and Biotechnology","volume":"196 7","pages":"4067 - 4087"},"PeriodicalIF":3.1,"publicationDate":"2023-10-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49688215","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Combining E-ice-COLD-PCR and Pyrosequencing with Di-Base Addition (PDBA) Enables Sensitive Detection of Low-Abundance Mutations 将E-ice-COLD-PCR和焦测序与二碱基加成（PDBA）相结合，能够灵敏地检测低丰度突变。

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2023-10-21 DOI: 10.1007/s12010-023-04718-0

Dan Pu, Huimin Chen, Wenjuan Fu, Youhong Cui, Kunxian Shu

{"title":"Combining E-ice-COLD-PCR and Pyrosequencing with Di-Base Addition (PDBA) Enables Sensitive Detection of Low-Abundance Mutations","authors":"Dan Pu, Huimin Chen, Wenjuan Fu, Youhong Cui, Kunxian Shu","doi":"10.1007/s12010-023-04718-0","DOIUrl":"10.1007/s12010-023-04718-0","url":null,"abstract":"<div><p>Detecting low-abundance mutations is of particular interest in the fields of biology and medical science. However, most currently available molecular assays have limited sensitivity for the detection of low-abundance mutations. Here, we established a platform for detecting low-level DNA mutations with high sensitivity and accuracy by combining enhanced-<i>ice</i>-COLD-PCR (E-<i>ice</i>-COLD-PCR) and pyrosequencing with di-base addition (PDBA). The PDBA assay was performed by selectively adding one di-base (AG, CT, AC, GT, AT, or GC) instead of one base (A, T, C, or G) into the reaction at a time during sequencing primer extension and thus enabling to increase the sequencing intensity. A specific E-<i>ice</i>-COLD-PCR/PDBA assay was developed for the detection of the most frequent <i>BRAF</i> V600E mutation to verify the feasibility of our method. E-<i>ice</i>-COLD-PCR/PDBA assay permitted the reliable detection of down to 0.007% of mutant alleles in a wild-type background. Furthermore, it required only a small amount of starting material (20 pg) to sensitively detect and identify low-abundance mutations, thus increasing the screening capabilities in limited DNA material. The E-<i>ice</i>-COLD-PCR/PDBA assay was applied in the current study to clinical formalin-fixed paraffin-embedded (FFPE) and plasma samples, and it enabled the detection of <i>BRAF</i> V600E mutations in samples that appeared as a wild type using PCR/conventional pyrosequencing (CP) and E-<i>ice</i>-COLD-PCR/CP. E-<i>ice</i>-COLD-PCR/PDBA assay is a rapid, cost-effective, and highly sensitive method that could improve the detection of low-abundance mutations in routine clinical use.</p></div>","PeriodicalId":465,"journal":{"name":"Applied Biochemistry and Biotechnology","volume":"196 7","pages":"4049 - 4066"},"PeriodicalIF":3.1,"publicationDate":"2023-10-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49672868","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Correction to: Electrochemical DNA Sensor Designed Using the Pencil Graphite Electrode to Detect Listeria monocytogenes 更正：使用铅笔石墨电极设计的电化学DNA传感器检测单核细胞增多性李斯特菌。

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2023-10-16 DOI: 10.1007/s12010-023-04746-w

Emine Dinçer, Nurçin Küçükoğlu, Merih Kıvanç, Yücel Şahin

引用次数: 0

Primer Exchange Reaction (PER)–Based Construction of Scaffold for Low-Speed Centrifugation–Based Isolation and Quantitative Analysis of P. aeruginosa and its application in analyzing uterine secretions with intrauterine adhesion 基于引物交换反应（PER）的铜绿假单胞菌低速离心分离定量分析支架的构建及其在宫腔粘连子宫分泌物分析中的应用。

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2023-10-11 DOI: 10.1007/s12010-023-04742-0

Boping Yang, Ying Wang, Xiaohuan Yan, Qian Fen, Yugang Chi

{"title":"Primer Exchange Reaction (PER)–Based Construction of Scaffold for Low-Speed Centrifugation–Based Isolation and Quantitative Analysis of P. aeruginosa and its application in analyzing uterine secretions with intrauterine adhesion","authors":"Boping Yang, Ying Wang, Xiaohuan Yan, Qian Fen, Yugang Chi","doi":"10.1007/s12010-023-04742-0","DOIUrl":"10.1007/s12010-023-04742-0","url":null,"abstract":"<p>Efficient isolation and sensitive quantification of <i>Pseudomonas aeruginosa</i> (<i>P. aeruginosa</i>) are crucial for identifying intrauterine infections and preventing the occurrence of intrauterine adhesion (IUA). However, traditional approaches, such as culture-based approach, are time-consuming. Herein, we constructed a detection scaffold by using primer exchange reaction (PER) that integrated the low-speed centrifugation–based isolation and sensitive quantification of target pathogenic bacteria. The established approach possesses several advantages, including (i) the approach is capable of simultaneous isolation and sensitive quantification of target bacteria; (ii) low-speed centrifugation or even manual equipment could be used to isolate target bacteria; and (iii) a low limit of detection was obtained as 54 cfu/mL. Based on this, the approach is a promising approach in analyzing <i>P. aeruginosa</i> from uterine secretions with IUA.</p>","PeriodicalId":465,"journal":{"name":"Applied Biochemistry and Biotechnology","volume":"196 7","pages":"4038 - 4048"},"PeriodicalIF":3.1,"publicationDate":"2023-10-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41187521","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Carboxy-Functionalized Covalent Organic Framework as a Carrier for Lipase Immobilization and Its Application in Inhibitors Screening 羧官能化共价有机骨架作为脂肪酶固定化载体及其在抑制剂筛选中的应用。

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2023-10-11 DOI: 10.1007/s12010-023-04725-1

Xue Liu, Jiaqi Wu, Shan Yang, Lingyu Li, Yibing Ji

{"title":"Carboxy-Functionalized Covalent Organic Framework as a Carrier for Lipase Immobilization and Its Application in Inhibitors Screening","authors":"Xue Liu, Jiaqi Wu, Shan Yang, Lingyu Li, Yibing Ji","doi":"10.1007/s12010-023-04725-1","DOIUrl":"10.1007/s12010-023-04725-1","url":null,"abstract":"<div><p>Covalent organic frameworks (COFs) with large specific surface areas, high porosity, good stability, and designable structure are promising carriers for immobilized enzymes. It is important to explore lipase inhibitors from natural foods as lipase inhibitors are closely related to the treatment of obesity. In this work, a carboxyl functionalized covalent organic framework (TpBD-3COOH) was prepared by solvothermal method for covalent immobilization of porcine pancreatic lipase (PPL) and obtained the enzyme-decorated COF (PPL@COF). The immobilized lipase showed wider pH and temperature tolerance with the same optimal pH and temperature of 7.5 and 50 ℃ compared to free lipase. After 6 successive reuses, the PPL@COF maintained 53.0% of its original activity. Immobilized lipase also displayed enhanced storage stability (55.4% after 14 days at 4 ℃). When p-nitrophenyl acetate was applied as the substrate, the calculated Michaelis constant was 3.57 mM and the half maximal inhibitory concentration of orlistat was 3.20 μM. Finally, the PPL@COF was used for enzyme inhibitors screening from natural foods combined with UV spectrophotometry, and Hawthorn was screened for excellent lipase inhibitory activity.</p><h3>Graphical Abstract</h3>\u0000<div><figure><div><div><picture><source><img></source></picture></div></div></figure></div></div>","PeriodicalId":465,"journal":{"name":"Applied Biochemistry and Biotechnology","volume":"196 7","pages":"4024 - 4037"},"PeriodicalIF":3.1,"publicationDate":"2023-10-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41187520","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Hsa_circ_0054220 Upregulates HMGA1 by the Competitive RNA Pattern to Promote Neural Impairment in MPTP Model of Parkinson’s Disease Hsa_cir_0054220通过竞争性RNA模式上调HMGA1以促进帕金森病MPTP模型中的神经损伤。

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2023-10-10 DOI: 10.1007/s12010-023-04740-2

Cundi Zhong, Qiang Zhang, Haiping Bao, Yu Li, Chen Nie

{"title":"Hsa_circ_0054220 Upregulates HMGA1 by the Competitive RNA Pattern to Promote Neural Impairment in MPTP Model of Parkinson’s Disease","authors":"Cundi Zhong, Qiang Zhang, Haiping Bao, Yu Li, Chen Nie","doi":"10.1007/s12010-023-04740-2","DOIUrl":"10.1007/s12010-023-04740-2","url":null,"abstract":"<div><p>Parkinson’s disease (PD) is a common neurodegenerative disease. Circular RNAs (circRNAs) have been confirmed to regulate neurodegenerative diseases. This study was aimed to explore hsa_circ_0054220 functions in PD. MPP-stimulated SH-SY5Y cells were established as the PD cell model. PD mouse model was established by MPTP. Gene expression in cells and tissues was tested by RT-qPCR. Cell viability and apoptosis were evaluated through CCK-8 and TUNEL assays. The interactions of RNAs were determined by RNA pull-down assay, RIP assay, and luciferase reporter assay. Circ_0054220 expressed at a high level in MPP-treated SH-SY5Y cells. Circ_0054220 inhibition promoted viability and suppressed apoptosis in MPP-stimulated cells. Furthermore, we found that circ_0054220 can competitively bind to miR-145 and miR-625 to upregulate high mobility group A1 (HMGA1) expression. HMGA1 was positively regulated by circ_0054220 and overexpressed in MPP-treated cells as well as the striatum (STR), substantia nigra pars compacta (SNpc), and serum of MPTP-induced mouse model of PD. HMGA1 overexpression counteracted the function of circ_0054220 silencing on cell apoptosis. Furthermore, HMGA1 inhibition notably alleviated motor dysfunction and increased the quantity of neurons in mice resembling PD. Circ_0054220 upregulates HMGA1 by the competitive endogenous RNAs (ceRNA) pattern to promote neural impairment in PD.</p><h3>Graphical Abstract</h3>\u0000<div><figure><div><div><picture><source><img></source></picture></div></div></figure></div></div>","PeriodicalId":465,"journal":{"name":"Applied Biochemistry and Biotechnology","volume":"196 7","pages":"4008 - 4023"},"PeriodicalIF":3.1,"publicationDate":"2023-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41181671","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Fabric Fiber as a Biofilm Carrier for Halomonas sp. H09 Mixed with Lactobacillus rhamnosus GG 织物纤维作为Halomonas sp.H09与鼠李糖乳杆菌GG混合的生物膜载体。

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2023-10-06 DOI: 10.1007/s12010-023-04728-y

Jing Liu, Yan Ding, Xinqi Yu, Shuhong Ye, Pengfei Guo, Biying Yang

引用次数: 0

Neuroprotective Effect of Ethanolic Extract of Scoparia dulcis on Acrylamide-Induced Neurotoxicity in Zebrafish Model Scoparia dulcis乙醇提取物对斑马鱼模型中丙烯酰胺诱导的神经毒性的神经保护作用。

IF 3.1 4区生物学

Applied Biochemistry and Biotechnology Pub Date : 2023-10-06 DOI: 10.1007/s12010-023-04733-1

Trisha Raghunathan, Subhiksha Srinivasan, Sankar Jamuna

{"title":"Neuroprotective Effect of Ethanolic Extract of Scoparia dulcis on Acrylamide-Induced Neurotoxicity in Zebrafish Model","authors":"Trisha Raghunathan, Subhiksha Srinivasan, Sankar Jamuna","doi":"10.1007/s12010-023-04733-1","DOIUrl":"10.1007/s12010-023-04733-1","url":null,"abstract":"<div><p>All herbal medicines are reported to be safe and have better results in curing disabilities. <i>Scoparia dulcis</i> is known for its anti-inflammatory and antioxidant properties. This study has been executed to explore the neuroprotective effects of ethanolic extract of <i>Scoparia dulcis</i> (EESD) against acrylamide using adult zebrafish. The experimental period was 72 h. After fixing the optimum acrylamide concentration and EESD<i>,</i> the healthy adult fish were grouped into control, induction, and treatment. During the experimental period, behavioural changes such as memory and locomotion were observed in control and experimental groups using the T-maze experiment. After 72 h, the neuronal tissues were isolated from the grouped fishes and analysed for various biochemical and enzymatic assays. The mRNA of the HSP-70 gene in control and experimental groups was expressed using RT-PCR. The optimum dosages for acrylamide and EESD were found to be 0.75 mM and 20 µg/mL, respectively<i>.</i> Memory improvement was observed in <i>S. dulcis-</i>treated fish, compared to the acrylamide-treated group using the T-maze assay. The extract reduced the toxicity induced by acrylamide from the various biochemical and histopathological parameters. The result shows the potential neuroprotective effects of ethanolic extract of <i>Scoparia dulcis</i> (EESD) against acrylamide-induced neurotoxicity in adult zebrafish. Therefore, <i>Scoparia dulcis</i> is a potent neuroprotective agent.</p><h3>Graphical Abstract</h3>\u0000<div><figure><div><div><picture><source><img></source></picture></div></div></figure></div></div>","PeriodicalId":465,"journal":{"name":"Applied Biochemistry and Biotechnology","volume":"196 7","pages":"3992 - 4007"},"PeriodicalIF":3.1,"publicationDate":"2023-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41098860","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0