Article
Biochemical Research Methods
Chia-Yu Sung, Chi-Chien Huang, Yi-Sin Chen, Keng-Fu Hsu, Gwo-Bin Lee
Summary: The study developed an integrated microfluidic platform for isolating and quantifying ovarian cancer blood biomarkers, demonstrating high sensitivity and accuracy. The system showed promising potential as a valuable tool for ovarian cancer biomarker measurements.
Article
Entomology
Norman B. Barr, Daniel Garza, Lisa A. Ledezma, David A. Salinas
Summary: The cherry-infesting fruit fly Rhagoletis cerasi is a significant commercial pest in Europe that has recently invaded North America. Prompt diagnosis is crucial for surveys and response to new detections.
JOURNAL OF ECONOMIC ENTOMOLOGY
(2021)
Article
Cell Biology
Bruno Marcal Repoles, Choco Michael Gorospe, Phong Tran, Anna Karin Nilsson, Paulina H. Wanrooij
Summary: This study demonstrates that commonly-used isolation procedures for mitochondrial DNA (mtDNA) result in mtDNA with single-strand breaks. By comparing different DNA isolation methods, a procedure is identified that yields the highest integrity of mtDNA and shows improved performance in downstream assays. These findings emphasize the importance of choosing the right isolation method for obtaining high-quality mtDNA from solid tissues.
Article
Biochemical Research Methods
Rajat Hegde, Smita Hegde, Pooja Joshi, Prabhanjan P. Gai, Suyamindra S. Kulkarni, Pramod B. Gai
Summary: A simple, rapid, and cost-effective DNA isolation method has been developed in this study, which is suitable for isolating high-molecular-weight genomic DNA from human peripheral blood and saliva, and produces high-quality DNA products.
ANALYTICAL BIOCHEMISTRY
(2022)
Article
Multidisciplinary Sciences
Paola de Avelar Carpinetti, Vinicius Sartori Fioresi, Thais Ignez da Cruz, Francine Alves Nogueira de Almeida, Drielli Canal, Adesio Ferreira, Marcia Flores da Silva Ferreira
Summary: High-quality RNA extraction is essential for plant molecular biology and genetic studies, but it can be challenging due to the biochemical diversity present in different plant tissues. Guava samples, rich in polyphenols and polysaccharides, have posed difficulties in RNA isolation. The use of CTAB-based methods has been shown to provide the highest RNA yields and quality for Psidium guajava tissues, making them efficient and cost-effective for downstream applications.
Article
Engineering, Chemical
Ana M. Ferreira, Maria V. Quental, Mukesh Sharma, Dibyendu Mondal, Augusto Q. Pedro, Joao A. P. Coutinho, Mara G. Freire
Summary: Early infection diagnosis is essential for reducing morbidity and mortality rates. A study investigated the use of aqueous biphasic systems (ABS) composed of polypropylene glycol 400 and cholinium-based ionic liquids (ILs) at different pH values for pre-treating human serum, aiming to separate DNA from human serum albumin (HSA) to improve the accuracy of DNA quantification. The ABS demonstrated high extraction efficiencies of DNA to the IL-rich phase, with minimal DNA loss. It was found that adjusting the pH allowed for selective isolation of DNA from HSA. The IL-rich phase of the ABS was shown to maintain DNA integrity and could potentially serve as a DNA storage medium.
SEPARATION AND PURIFICATION TECHNOLOGY
(2023)
Article
Chemistry, Analytical
D. Zybin, A. Prostyakova, D. Kapustin
Summary: A one-step DNA isolation method from soil extracts was developed using a two-component bioseparating element, allowing for simultaneous purification of DNA from humic substances. This innovative approach improved DNA purity and isolation efficiency, providing a promising solution to the challenges faced in DNA isolation from soil samples.
MICROCHEMICAL JOURNAL
(2021)
Article
Biochemistry & Molecular Biology
Hossam A. Sayed, Shimaa Mostafa, Ibrahim M. Haggag, Neveen A. Hassan
Summary: Two intergenic cpDNA regions, trnH-psbA and trnL-trnF, were used to assess the genetic diversity and phylogenetic structure of 25 Prunus accessions. These regions were able to distinguish and identify four Prunus species. Differences were observed in evolutionary divergence, variable sites, and nucleotide diversity between the two regions.
MOLECULAR BIOTECHNOLOGY
(2023)
Article
Chemistry, Analytical
Ping Jiang, Kejun Dong, Wei Zhang, Hongbo Wang, Xianjin Xiao, Na Chen, Yanxiang Cheng
Summary: A universal probe detection system based on endonuclease IV and DNA strand displacement reaction was constructed for single base mutations. The system has advantages of simple operation, rapid detection, and low cost, and has been successfully applied to detect common clinical mutation sites.
Article
Plant Sciences
Katherine M. D'Amico-Willman, Gina M. Sideli, Brian J. Allen, Elizabeth S. Anderson, Thomas M. Gradziel, Jonathan Fresnedo-Ramirez
Summary: This study found differences in CG and CHG methylation levels between almond and peach progenies exhibiting NBF, with no differences when aligned to the peach genome. Significantly differentially methylated regions (DMRs) were identified between NBF and no-NBF hybrids, providing potential gene targets for future almond breeding to mitigate NBF effects.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Horticulture
Eliska Rampackova, Martina Mrazova, Jana Cizkova, Tomas Necas
Summary: This study estimated pomological traits and nuclear DNA content of apricot cultivars with different geographical origins, revealing their genetic characteristics. The results showed different correlations among apricot cultivars from different geographical groups.
Article
Food Science & Technology
Ivana Dimic, Branimir Pavlic, Sladana Rakita, Aleksandra Cvetanovic Kljakic, Zoran Zekovic, Nemanja Teslic
Summary: The suitability of three extraction techniques (cold pressing, Soxhlet, and supercritical fluid extraction) in isolating oil from cherry seeds was compared. The extraction yield, fatty acids profile, tocopherols yield, and antioxidant activity of the oils were examined. Supercritical fluid extraction (SFE) achieved the highest yield and exhibited better or comparable antioxidant potential compared to traditional techniques. The comparison between modern and conventional extractions provides insights into their pros and cons for industrial application.
Article
Plant Sciences
Zuhal Bayrakceken Guven, Iclal Saracoglu, Akito Nagatsu, Mustafa Abdullah Yilmaz, A. Ahmet Basaran
Summary: The study investigated the chemical composition and antimelanogenesis effect of P. mahaleb seed and kernel extracts. Five cinnamic acid derivatives were isolated and their structures were determined. These compounds showed inhibitory effects on tyrosinase activity and dose-dependent inhibitory effects on melanin levels in melanoma cells. The findings suggest that P. mahaleb could be a new resource for the cosmeceutical industry and in skin diseases associated with hyperpigmentation due to its potent tyrosinase inhibitory compounds.
JOURNAL OF ETHNOPHARMACOLOGY
(2023)
Article
Microbiology
Agata Anna Cisek, Iwona Bak, Ilona Stefanska, Marian Binek
Summary: This study focuses on optimizing the detection procedures of methanogenic archaea DNA, including the DNA isolation step. Through experiments on chicken droppings, it was found that a combination of a specific kit, ultrasonic probe sonication for 2 minutes, and enzymatic pretreatment can greatly improve the efficiency of methanogenic archaea DNA extraction. This optimized protocol is suitable for quantitative microbial analysis by real-time PCR, while also providing optimal protection for DNA extracted from bacteria susceptible to enzymatic lysis.
Article
Agronomy
Francisco Beluzan, Xavier Miarnau, Laura Torguet, Josep Armengol, Paloma Abad-Campos
Summary: Surveys conducted in Spain from 2018 to 2020 identified various oomycete species associated with root and crown rot of almond trees. Among them, Phytopythium vexans and Phytophthora niederhauserii were the most common. These species were found to be highly pathogenic to one-year-old almond seedlings, causing severe symptoms and even plant death.
Article
Chemistry, Medicinal
Henni-Karoliina Ropponen, Chantal D. Bader, Eleonora Diamanti, Boris Illarionov, Matthias Rottmann, Markus Fischer, Matthias Witschel, Rolf Mueller, Anna K. H. Hirsch
Summary: This study presents a case of chemical decomposition of 2-aminothiazole 1 in DMSO, leading to loss of reproducible biological activities. Through solvent- and temperature-dependent studies, oxygenated and dimerised compounds correlated with observed activities were successfully isolated. Due to the unstable nature of the isolates, further decomposition is likely contributing to the overall compound instability.
Article
Biochemical Research Methods
Kristina Kappel, Joanna Fafinska, Markus Fischer, Jan Fritsche
Summary: This study describes the development of a rapid and easy-to-use DNA microarray assay for authenticating giant tiger prawns and whiteleg shrimp. By analyzing the signal patterns of 47 crustacean specimens, the specificity of the DNA microarray for the target species was demonstrated.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2021)
Review
Biochemistry & Molecular Biology
Alissa Drees, Markus Fischer
Summary: The HiTS-FLIP technology improves the efficiency of aptamer selection, providing insights into the relationship between sequence, structure, and function, which supports the evolution of aptamers.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Multidisciplinary Sciences
Erik Schleicher, Stephan Rein, Boris Illarionov, Ariane Lehmann, Tarek Al Said, Sylwia Kacprzak, Robert Bittl, Adelbert Bacher, Markus Fischer, Stefan Weber
Summary: Flavocoenzymes are essential cofactors involved in a wide range of biological processes, with interactions with the protein environment playing a key role in their versatile biochemistry and biophysics. Studying the molecular orbital of flavins is crucial for understanding the diverse functions of the flavoprotein family, and advanced techniques such as electron paramagnetic resonance can help unravel the complex structure of flavins at a high level of resolution and accuracy.
SCIENTIFIC REPORTS
(2021)
Article
Food Science & Technology
David Schuetz, Elisabeth Achten, Marina Creydt, Janet Riedl, Markus Fischer
Summary: This study used metabolomics combined with the Random Forest algorithm to trace back the geographical origin of 151 maize samples from seven countries, successfully classifying 90.5% of samples using 20 selected markers. The research suggests a high potential of the non-polar metabolome in identifying the geographic origin of maize samples.
Article
Chemistry, Medicinal
Eleonora Diamanti, Mostafa M. Hamed, Antoine Lacour, Patricia Bravo, Boris Illarionov, Markus Fischer, Matthias Rottmann, Matthias Witschel, Anna K. H. Hirsch
Summary: The MEP pathway enzymes are crucial for synthesizing isoprenoids and are potential drug targets. A high-throughput screening approach led to the discovery of a novel fragment hit against PfIspD, and a systematic SAR investigation identified a new compound for structure-guided optimization. A putative binding mode for the inhibitors was proposed using a homology model of PfIspD.
Article
Food Science & Technology
Christina Lang, Nico Weber, Maya Moeller, Lisa Schramm, Stefanie Schelm, Oliver Kohlbacher, Markus Fischer
Summary: This study presents two targeted methods for differentiation and grouping different hazelnut cultivars based on polymorphic variations in the chloroplast genome, which show highly effective results for detecting blends of hazelnuts with a limit of detection of 5% and 10% admixture. Furthermore, Georgian hazelnut cultivars can be detected by restriction fragment length polymorphism analysis using one of the identified SNPs. Both methods can be used for differentiation and semi-quantitative estimation of mixtures of hazelnuts from different growing regions in the context of authenticity control and routine analysis.
Article
Biochemical Research Methods
Marina Creydt, Silke Lautner, Joerg Fromm, Markus Fischer
Summary: A non-targeted metabolomics-based approach using liquid chromatography high-resolution mass spectrometry was used to differentiate spruce wood from different geographic source areas. Despite the small distance (250 km) between the two sample sites in Germany, a distinction between the sample groups was achieved based on non-polar data sets using supervised multivariate methods. Major metabolites contributing to differentiation were identified through MS/MS experiments.
JOURNAL OF CHROMATOGRAPHY A
(2022)
Article
Chemistry, Analytical
Kristian von Wuthenau, Torben Segelke, Anita Kuschnereit, Markus Fischer
Summary: Counterfeiting is a widespread issue in industries like cosmetics and art, especially with expensive perfumes and valuable artworks. A study using laser ablation-inductively coupled plasma mass spectrometry successfully differentiated glass from different production sites, offering a new method for detecting counterfeits.
Article
Biochemistry & Molecular Biology
Soeren Wenck, Marina Creydt, Jule Hansen, Florian Gaerber, Markus Fischer, Stephan Seifert
Summary: This study demonstrates the importance of using random forest methods and surrogate minimal depth methods for analyzing metabolomics data. The selection of important features and evaluation of their impact on multi-level classification reveals meaningful biological relationships.
Article
Food Science & Technology
Kristian von Wuthenau, Torben Segelke, Marie-Sophie Mueller, Hardy Behlok, Markus Fischer
Summary: The study successfully used isotopolomic fingerprinting to distinguish the origin of almonds, preventing food fraud, and found that the respective harvest year and almond variety had no significant effect on origin discrimination.
Article
Food Science & Technology
David Schuetz, Janet Riedl, Elisabeth Achten, Markus Fischer
Summary: This study investigates the ability of Fourier-transform near-infrared spectroscopy to trace back the geographical origin of grain maize. Through the analysis of 101 samples from five different countries, specific spectral regions were identified as suitable for determining the origin of maize, achieving high accuracy rates.
Article
Food Science & Technology
Marina Creydt, Benjamin Wegner, Alina Gnauck, Roy Hoerner, Christian Hummert, Markus Fischer
Summary: Research efforts in the past decade have focused on developing non-targeted metabolomics strategies, especially for detecting various food authenticity parameters. This study describes the downstream process of converting a non-targeted metabolomics study into a simple targeted approach suitable for routine analysis.
Article
Chemistry, Analytical
Navid Shakiba, Annika Gerdes, Nathalie Holz, Soeren Wenck, Rene Bachmann, Tobias Schneider, Stephan Seifert, Markus Fischer, Thomas Hackl
Summary: FT-NIR spectroscopy was used to determine the geographical origin of hazelnut samples from different countries with a test accuracy of 90.6%. Data fusion of NIR and NMR data exhibited a better performance with a test accuracy of 96.6%. Comparison of outliers in all classification models revealed robust classification models were obtained.
MICROCHEMICAL JOURNAL
(2022)
Article
Biochemistry & Molecular Biology
Henni-Karoliina Ropponen, Eleonora Diamanti, Alexandra Siemens, Boris Illarionov, Joerg Haupenthal, Markus Fischer, Matthias Rottmann, Matthias Witschel, Anna K. H. Hirsch
Summary: By repositioning an antimalarial compound class and derivatising it based on the eNTRy rules, no substantial improvement was observed against E. coli wild-type K12, but distinct activity differences were seen in mutant strains. The study highlighted that the rules for enhanced activity against Gram-negative bacteria may not always be applicable, with glycine derivatives showing the highest antibacterial activity despite efflux issues.
RSC MEDICINAL CHEMISTRY
(2021)