BioTechniques最新文献

Developing an insert to protect large DNA molecules during cell lysis.

IF 2.2 4区工程技术

BioTechniques Pub Date : 2025-03-26 DOI: 10.1080/07366205.2025.2483601

Charles Polen, Esmeralda Mendez Ortiz, Cordelia Harbison, Nate Garringer, Martin Lopez, Kristy L Kounovsky-Shafer

引用次数: 0

Impact of commercial RNA extraction methods on the recovery of human RNA sequence data from archival fixed tissues.

IF 2.2 4区工程技术

BioTechniques Pub Date : 2025-03-12 DOI: 10.1080/07366205.2025.2473842

Tess Wilson, Melanie Kuch, Debi Poinar, Jasmine Rockarts, Bruce Wainman, Susan Morgello, Hendrik Poinar

{"title":"Impact of commercial RNA extraction methods on the recovery of human RNA sequence data from archival fixed tissues.","authors":"Tess Wilson, Melanie Kuch, Debi Poinar, Jasmine Rockarts, Bruce Wainman, Susan Morgello, Hendrik Poinar","doi":"10.1080/07366205.2025.2473842","DOIUrl":"https://doi.org/10.1080/07366205.2025.2473842","url":null,"abstract":"Archival fixed tissues hold key insights into the evolutionary history of RNA viruses and the associated host immune response, yet access to the RNA sequence data is limited by a lack of robust methods for RNA extraction and sequence retrieval from these tissue types. Here we compared three commercial RNA extraction techniques (bead, column, and phase-based) on five fixed human brain tissues done in triplicate, that have been stored for up to 43 years. We found that for this sample set, bead-based extractions captured longer molecules and yielded a greater proportion of unique reads when aligned to the human genome, than did column and phase-based extraction methods. Via the incorporation of multiple extraction replicates, we quantified the variability in sequencing metrics resulting from tissue sample and extraction technique heterogeneity. Additionally, we compared pre- and post-sequencing metrics and found that the former poorly predicted post-sequencing on-target success. Our findings help inform future research on the recovery of RNA from archival fixed tissues.","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"1-18"},"PeriodicalIF":2.2,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143603124","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

Utilizing the biosimulator to analyze the environmental microbiome within the intensive care units of a hospital.

IF 2.2 4区工程技术

BioTechniques Pub Date : 2025-02-26 DOI: 10.1080/07366205.2025.2467550

Sunil Thomas, Kyle Bittinger, Lawrence L Livornese

{"title":"Utilizing the biosimulator to analyze the environmental microbiome within the intensive care units of a hospital.","authors":"Sunil Thomas, Kyle Bittinger, Lawrence L Livornese","doi":"10.1080/07366205.2025.2467550","DOIUrl":"https://doi.org/10.1080/07366205.2025.2467550","url":null,"abstract":"Hospital-acquired infections (HAIs), also known as nosocomial infections, are illnesses contracted during treatment at a healthcare facility and can result in severe or life-threatening complications. HAIs are caused by microorganisms that exhibit resistance to standard antibiotics. HAIs can lead to severe complications, longer stays, and increased mortality, particularly in vulnerable patients. In our previous study, we demonstrated the ability of an engraved Petri dish, referred to as a \"biosimulator,\" to induce adhesion of non-adherent cells and the microbiome. This paper explores the use of the biosimulator to elucidate the microbiome composition within intensive care units (ICUs) in a hospital setting. The biosimulator, with a nutrient-rich bacterial growth medium, was placed in ICUs for 24 h, then incubated for three days under aerobic and anaerobic conditions. Using 16S rRNA sequencing, we profiled the ICU microbiome from multiple samples. Our findings showed that ICU microbiomes closely mirrored those of patients, with microorganisms in the ICU exhibiting stronger interrelationships than in control conditions. The combined use of the biosimulator and profiling offers an effective approach for analyzing and understanding microbiome changes in healthcare settings, particularly in high-risk areas, such as ICUs.","PeriodicalId":8945,"journal":{"name":"BioTechniques","volume":" ","pages":"1-10"},"PeriodicalIF":2.2,"publicationDate":"2025-02-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143514676","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

Alkaline dip DNA extraction from skin mucus for high-throughput sexing of sterlets (Acipenser ruthenus).

IF 2.2 4区工程技术

BioTechniques Pub Date : 2025-02-20 DOI: 10.1080/07366205.2025.2467584

Ryuhei Kinami, Toshinao Ineno

引用次数: 0

Development of an enhanced anti-pan-N-formylmethionine-specific antibody.

IF 2.2 4区工程技术

BioTechniques Pub Date : 2025-02-20 DOI: 10.1080/07366205.2025.2467583

Dasom Kim, Kyu-Sang Park, Cheol-Sang Hwang

引用次数: 0

Correction. 修正。