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Omics-driven onboarding of the carotenoid producing red yeast Xanthophyllomyces dendrorhous CBS 6938.
Appl Microbiol Biotechnol
December 2024
Life Sciences and Bioengineering Center, Department of Chemical Engineering, Worcester Polytechnic Institute, Worcester, MA, USA.
Transcriptomics is a powerful approach for functional genomics and systems biology, yet it can also be used for genetic part discovery. Here, we derive constitutive and light-regulated promoters directly from transcriptomics data of the basidiomycete red yeast Xanthophyllomyces dendrorhous CBS 6938 (anamorph Phaffia rhodozyma) and use these promoters with other genetic elements to create a modular synthetic biology parts collection for this organism. X.
View Article and Find Full Text PDFComparison of Plant Genomic DNA Extraction Kits Using the Proofman-LMTIA Amplification Assay.
Phytochem Anal
December 2024
School of Food and Biological Engineering, Henan University of Science and Technology, Luoyang, Henan, China.
Introduction: The extraction of DNA is the basis of molecular biology research. The quality of the extracted DNA is one of the key factors for the success of molecular biology experiments.
Objective: To select a suitable DNA extraction method for Chinese medicinal herbs and seeds.
Agrobacterium-mediated transient transformation of Flaveria bidentis leaves: a novel method to examine the evolution of C photosynthesis.
Plant Methods
December 2024
School of Molecular Sciences, University of Western Australia, Crawley, WA, 6009, Australia.
The genus Flaveria has been studied extensively as a model for the evolution of C photosynthesis. Thus far, molecular analyses in this genus have been limited due to a dearth of genomic information and the lack of a rapid and efficient transformation protocol. Since their development, Agrobacterium-mediated transient transformation protocols have been instrumental in understanding many biological processes in a range of plant species.
View Article and Find Full Text PDFRapid and Robust Monitoring of Phytophthora Infectivity Through Detached Leaf Assays with Automated Image Analysis.
Methods Mol Biol
December 2024
School of Biological Sciences, Victoria University of Wellington, Wellington, New Zealand.
The detached leaf assay is a valuable method for studying plant-pathogen interactions, enabling the assessment of pathogenicity, plant resistance, and treatment effects. In this protocol, we outline how to set up a Phytophthora detached leaf assay and use non-expert machine learning tools to increase the reliability and throughput of the image analysis. Utilizing ilastik for pixel classification and Python scripts for segmentation, manual correction, and temporal linking, the pipeline provides objective and quantitative data over time.
View Article and Find Full Text PDFConcave Magnetic-Responsive Hydrogel Discs for Enhanced Bioassays.
Biosensors (Basel)
December 2024
School of Engineering, University of Guelph, Guelph, ON N1G 2W1, Canada.
Receptor-based biosensors often suffer from slow analyte diffusion, leading to extended assay times. Moreover, existing methods to enhance diffusion can be complex and costly. In response to this challenge, we presented a rapid and cost-effective technique for fabricating concave magnetic-responsive hydrogel discs (CMDs) by straightforward pipetting directly onto microscope glass slides.
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