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Assessment of measurement accuracy of amplified DNA using a colorimetric loop-mediated isothermal amplification assay. 使用比色环介导等温扩增检测法评估扩增 DNA 的测量精度。
IF 2.7 4区 工程技术
BioTechniques Pub Date : 2024-03-01 Epub Date: 2023-12-22 DOI: 10.2144/btn-2023-0104
Seongsoo Hong, Jeongho Park, Jaekyung Bok, Euna Cho, Joowon Rhee
{"title":"Assessment of measurement accuracy of amplified DNA using a colorimetric loop-mediated isothermal amplification assay.","authors":"Seongsoo Hong, Jeongho Park, Jaekyung Bok, Euna Cho, Joowon Rhee","doi":"10.2144/btn-2023-0104","DOIUrl":"10.2144/btn-2023-0104","url":null,"abstract":"<p><p>A colorimetric loop-mediated isothermal amplification assay detects changes in pH during amplification based on color changes at a constant temperature. Currently, various studies have focused on developing and assessing molecular point-of-care testing instruments. In this study, we evaluated amplified DNA concentrations measured using the colorimetric LAMP assay of the 1POT™ Professional device (1drop Inc, Korea). Results of the 1POT analysis of clinical samples were compared with measurements obtained from the Qubit™ 4 and NanoDrop™ 2000 devices (both from Thermo Fisher Scientific, MA, USA). These results showed a correlation of 0.98 (95% CI: 0.96-0.99) and 0.96 (95% CI: 0.92-0.98) between 1POT and the Qubit and NanoDrop. 1POT can measure amplified DNA accurately and is suitable for on-site molecular diagnostics.</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"114-118"},"PeriodicalIF":2.7,"publicationDate":"2024-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138828138","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A novel method for sampling subgingival microbiome: a comparative metatranscriptomic study. 龈下微生物组取样的新方法：一项元转录组学比较研究。
IF 2.7 4区 工程技术
BioTechniques Pub Date : 2024-03-01 Epub Date: 2024-02-06 DOI: 10.2144/btn-2023-0076
Diana Demusaj, Ryan Toma, Tanveer Khan, Lan Hu, Guruduth Banavar, Momchilo Vuyisich
{"title":"A novel method for sampling subgingival microbiome: a comparative metatranscriptomic study.","authors":"Diana Demusaj, Ryan Toma, Tanveer Khan, Lan Hu, Guruduth Banavar, Momchilo Vuyisich","doi":"10.2144/btn-2023-0076","DOIUrl":"10.2144/btn-2023-0076","url":null,"abstract":"<p><p>The subgingival microbiome has been implicated in oral and systemic diseases such as periodontitis and Alzheimer's disease. However, subgingival sampling is challenging. We developed a novel method of sampling the subgingival microbiome by rotationally swabbing the supragingival area, named subgingival-P (for proxy) samples. We sampled and metatranscriptomically analyzed subgingival and subgingival-P samples of three different teeth in 20 individuals. The subgingival-P samples were comparable to the subgingival samples in the relative abundances of microorganisms and microbial gene expression levels. Our data demonstrate that the novel method of collecting and analyzing the subgingival-P samples can act as a proxy for the subgingiva, paving the way for large and diverse studies investigating the role of the subgingival microbiome in health and disease.</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"83-93"},"PeriodicalIF":2.7,"publicationDate":"2024-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139691151","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Age is just a number: can proteomic analysis provide insight into the aging body? 年龄只是一个数字：蛋白质组分析能否让人了解人体的衰老？
IF 2.7 4区 工程技术
BioTechniques Pub Date : 2024-03-01 Epub Date: 2024-02-22 DOI: 10.2144/btn-2024-0008
Jenny Straiton
{"title":"Age is just a number: can proteomic analysis provide insight into the aging body?","authors":"Jenny Straiton","doi":"10.2144/btn-2024-0008","DOIUrl":"10.2144/btn-2024-0008","url":null,"abstract":"<p><p>Recent proteomic studies have increased our understanding of the molecular process of aging, potentially enabling age-related diseases to be treated before the appearance of symptoms. [Formula: see text].</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"81-82"},"PeriodicalIF":2.7,"publicationDate":"2024-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139929907","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
PS4: a next-generation dataset for protein single-sequence secondary structure prediction. PS4:下一代蛋白质单序列二级结构预测数据集。
IF 2.7 4区 工程技术
BioTechniques Pub Date : 2024-02-01 Epub Date: 2023-11-24 DOI: 10.2144/btn-2023-0024
Omar Peracha
{"title":"PS4: a next-generation dataset for protein single-sequence secondary structure prediction.","authors":"Omar Peracha","doi":"10.2144/btn-2023-0024","DOIUrl":"10.2144/btn-2023-0024","url":null,"abstract":"<p><p>Protein secondary structure prediction is a subproblem of protein folding. A light-weight algorithm capable of accurately predicting secondary structure from only the protein residue sequence could provide useful input for tertiary structure prediction, alleviating the reliance on multiple sequence alignments typically seen in today's best-performing models. Unfortunately, existing datasets for secondary structure prediction are small, creating a bottleneck. We present PS4, a dataset of 18,731 nonredundant protein chains and their respective secondary structure labels. Each chain is identified, and the dataset is nonredundant against other secondary structure datasets commonly seen in the literature. We perform ablation studies by training secondary structure prediction algorithms on the PS4 training set and obtains state-of-the-art accuracy on the CB513 test set in zero shots.</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"63-70"},"PeriodicalIF":2.7,"publicationDate":"2024-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138298252","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Is space the final frontier for mitochondrial study? 太空是线粒体研究的最终前沿吗？
IF 2.7 4区 工程技术
BioTechniques Pub Date : 2024-02-01 Epub Date: 2023-12-12 DOI: 10.2144/btn-2023-0071
Kit Neikirk, Dominique C Stephens, Heather K Beasley, Andrea G Marshall, Jennifer A Gaddy, Steven M Damo, Antentor Hinton
{"title":"Is space the final frontier for mitochondrial study?","authors":"Kit Neikirk, Dominique C Stephens, Heather K Beasley, Andrea G Marshall, Jennifer A Gaddy, Steven M Damo, Antentor Hinton","doi":"10.2144/btn-2023-0071","DOIUrl":"10.2144/btn-2023-0071","url":null,"abstract":"<p><p>Tweetable abstract This perspective considers several avenues for future research on mitochondrial dynamics, stress, and DNA in outer space.</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"46-51"},"PeriodicalIF":2.7,"publicationDate":"2024-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138797429","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A technique for the masses: single-cell analysis using mass cytometry. 面向大众的技术：利用质谱仪进行单细胞分析。
IF 2.7 4区 工程技术
BioTechniques Pub Date : 2024-02-01 Epub Date: 2024-01-08 DOI: 10.2144/btn-2023-0121
Beatrice Bowlby
{"title":"A technique for the masses: single-cell analysis using mass cytometry.","authors":"Beatrice Bowlby","doi":"10.2144/btn-2023-0121","DOIUrl":"10.2144/btn-2023-0121","url":null,"abstract":"<p><p>Mass cytometry, a technique that bridges the gap between flow cytometry and mass spectrometry, reveals how immune cell distribution differs in disease states, such as in the peripheral blood of coronary artery disease patients and the lesion microenvironment of endometriosis. [Formula: see text].</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"43-45"},"PeriodicalIF":2.7,"publicationDate":"2024-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139377176","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Application of a 3D bioprinter: jet technology for 'biopatch' development using cells on hydrogel supports. 三维生物打印机的应用：在水凝胶支持物上使用细胞进行 "生物补丁 "开发的喷射技术。
IF 2.7 4区 工程技术
BioTechniques Pub Date : 2024-02-01 Epub Date: 2023-12-12 DOI: 10.2144/btn-2023-0052
Derek C DeMel, Grayson A Wagner, Jamie A Maresca, John P Geibel
{"title":"Application of a 3D bioprinter: jet technology for 'biopatch' development using cells on hydrogel supports.","authors":"Derek C DeMel, Grayson A Wagner, Jamie A Maresca, John P Geibel","doi":"10.2144/btn-2023-0052","DOIUrl":"10.2144/btn-2023-0052","url":null,"abstract":"<p><p>Additive manufacturing (3D printing) has been deployed across multiple platforms to fabricate bioengineered tissues. We demonstrate the use of a Thermal Inkjet Pipette System (TIPS) for targeted delivery of cells onto manufactured substrates to design bio-bandages. Two cell lines - HEK 293 (kidney) and K7M2 wt (bone) - were applied using TIPS. We demonstrate a novel means for targeted cell delivery to a hydrogel support structure. These cell/support constructs (bio-bandages) had a high viability for survival and growth over extended periods. Combining a flexible biosupport with application of cells via TIPS printing now for the first time allows for custom cell substrate constructs with various densities to be deployed for regenerative medicine applications.</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"52-62"},"PeriodicalIF":2.7,"publicationDate":"2024-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138797428","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Comparison of colorimetric, spectroscopic and electrochemical techniques for quantification of hydrogen sulfide. 硫化氢定量的比色、光谱和电化学技术比较。
IF 2.7 4区 工程技术
BioTechniques Pub Date : 2024-02-01 Epub Date: 2023-12-07 DOI: 10.2144/btn-2023-0075
Susmit Mhatre, Anjali Rai, Hatim Ali, Akash Patil, Neetu Singh, Richa Verma, John Auden, Cole Chandler, Alekha Dash, Catherine Opere, Somnath Singh
{"title":"Comparison of colorimetric, spectroscopic and electrochemical techniques for quantification of hydrogen sulfide.","authors":"Susmit Mhatre, Anjali Rai, Hatim Ali, Akash Patil, Neetu Singh, Richa Verma, John Auden, Cole Chandler, Alekha Dash, Catherine Opere, Somnath Singh","doi":"10.2144/btn-2023-0075","DOIUrl":"10.2144/btn-2023-0075","url":null,"abstract":"<p><p><b>Background:</b> Hydrogen sulfide (H<sub>2</sub>S), an endogenous gasotransmitter, has potential applications in several conditions. However, its quantification in simulated physiological solutions is a major challenge due to its gaseous nature and other physicochemical properties. <b>Aim:</b> This study was designed to compare four commonly used H<sub>2</sub>S detection and quantification methods in aqueous solutions. <b>Methods:</b> The four techniques compared were one colorimetric, one chromatographic and two electrochemical methods. <b>Results:</b> Colorimetric and chromatographic methods quantified H<sub>2</sub>S in millimolar and micromole ranges, respectively. The electrochemical methods quantified H<sub>2</sub>S in the nanomole and picomole ranges and were less time-consuming. <b>Conclusion:</b> The H<sub>2</sub>S quantification method should be selected based on the specific requirements of a research project in terms of sensitivity, response time and cost-effectiveness.</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"71-80"},"PeriodicalIF":2.7,"publicationDate":"2024-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10910492/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138497750","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The environmental impact of AI in the lab: a double-edged sword? 实验室人工智能对环境的影响：一把双刃剑？
IF 2.2 4区 工程技术
BioTechniques Pub Date : 2024-01-01 Epub Date: 2024-07-31 DOI: 10.1080/07366205.2024.2376459
Annie Coulson
{"title":"The environmental impact of AI in the lab: a double-edged sword?","authors":"Annie Coulson","doi":"10.1080/07366205.2024.2376459","DOIUrl":"10.1080/07366205.2024.2376459","url":null,"abstract":"<p><p>Computational tools, particularly AI, are becoming more ubiquitous in scientific research; but what impact do they have on the environment?[Formula: see text].</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"353-356"},"PeriodicalIF":2.2,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141854655","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Cancer's sweet spot: techniques to harness saccharides in tumor biology. 癌症的甜蜜点:在肿瘤生物学中利用糖类的技术。
IF 2.2 4区 工程技术
BioTechniques Pub Date : 2024-01-01 Epub Date: 2023-12-04 DOI: 10.2144/btn-2023-0110
Jade Parker
{"title":"Cancer's sweet spot: techniques to harness saccharides in tumor biology.","authors":"Jade Parker","doi":"10.2144/btn-2023-0110","DOIUrl":"10.2144/btn-2023-0110","url":null,"abstract":"<p><p>All of the cells in our bodies are enveloped in sugar, this sweet coating plays a particularly interesting and crucial role in tumor biology. Here, we review the techniques being used to detect and exploit cancer's sweet spot. including click chemistry, glycoproteomic profiling and bioorthogonal chemistry.</p>","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"5-8"},"PeriodicalIF":2.2,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138476703","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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