Publications by authors named "Oscar N Whitney"

Recombinant adeno-associated viral vectors (rAAV) are a powerful tool for gene delivery but have a limited DNA carrying capacity. Efforts to expand this genetic payload have focused on engineering the vector components, such as dual trans-splicing vectors which double the delivery size by exploiting the natural concatenation of rAAV genomes in host nuclei. We hypothesized that inefficient dual vector transduction could be improved by modulating host factors which affect concatenation.

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RNA-binding proteins (RBPs), essential for skeletal muscle regeneration, cause muscle degeneration and neuromuscular disease when mutated. Why mutations in these ubiquitously expressed RBPs orchestrate complex tissue regeneration and direct cell fate decisions in skeletal muscle remains poorly understood. Single-cell RNA-sequencing of regenerating skeletal muscle reveals that RBP expression, including the expression of many neuromuscular disease-associated RBPs, is temporally regulated in skeletal muscle stem cells and correlates with specific stages of myogenic differentiation.

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Problem solving is a critical skill in many disciplines but is often a challenge for students to learn. To examine the processes both students and experts undertake to solve constructed-response problems in genetics, we collected the written step-by-step procedures individuals used to solve problems in four different content areas. We developed a set of codes to describe each cognitive and metacognitive process and then used these codes to describe more than 1800 student and 149 expert answers.

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Article Synopsis
  • Wastewater surveillance of SARS-CoV-2 RNA can enhance COVID-19 response by correlating viral loads in wastewater with clinical case data, but challenges remain in accurately interpreting the data due to various external factors.
  • *The study analyzed SARS-CoV-2 concentrations in wastewater from multiple locations and found a strong detection rate linked to local COVID-19 case counts, particularly when rates exceeded 2.4 cases per 100,000 people.
  • *Normalization using crAssphage showed less variability and maintained a significant correlation with clinical data, but ultimately no method improved overall interpretation; the timing of wastewater sampling was crucial for aligning trends with clinical reporting.*
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  • * The newly developed kit-free method called "4S" uses simple and inexpensive materials (sodium chloride, ethanol, and silica) and can recover six times more SARS-CoV-2 RNA than traditional methods.
  • * The 4S method also successfully captures other viral controls and maintains RNA stability during storage, allowing for efficient processing of samples and contributing to more effective monitoring of COVID-19 prevalence.
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  • Viral genome sequencing has enhanced our understanding of SARS-CoV-2's genetic diversity and spread during the COVID-19 pandemic, traditionally done through patient nasopharyngeal swabs.
  • Recent advancements include using RT-qPCR on municipal wastewater to measure SARS-CoV-2 levels and metatranscriptomic sequencing to analyze viral diversity in communities.
  • In the San Francisco Bay Area, sequencing sewage samples revealed SARS-CoV-2 genotypes matching local clinical samples, showing wastewater analysis can detect new viral variants earlier than traditional clinical methods.
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Article Synopsis
  • - Wastewater-based epidemiology is used to track COVID-19 by measuring SARS-CoV-2 RNA in wastewater, but current extraction methods need improvement to be faster and more cost-effective.
  • - The new "4S" method uses simple and inexpensive ingredients (sodium chloride, ethanol, silica) to extract six times more SARS-CoV-2 RNA compared to older methods, while also detecting other viruses for control.
  • - The 4S method is quick (about 3 hours), helps prevent RNA degradation, and aligns with COVID-19 infection data from clinical tests, making it a valuable tool in monitoring the pandemic efficiently and affordably.
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The current COVID-19 pandemic presents a serious public health crisis, and a better understanding of the scope and spread of the virus would be aided by more widespread testing. Nucleic-acid-based tests currently offer the most sensitive and early detection of COVID-19. However, the "gold standard" test pioneered by the U.

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A dominant histopathological feature in neuromuscular diseases, including amyotrophic lateral sclerosis and inclusion body myopathy, is cytoplasmic aggregation of the RNA-binding protein TDP-43. Although rare mutations in TARDBP-the gene that encodes TDP-43-that lead to protein misfolding often cause protein aggregation, most patients do not have any mutations in TARDBP. Therefore, aggregates of wild-type TDP-43 arise in most patients by an unknown mechanism.

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