A5073999422- Insect symbiosis and bacterial influences
- Mosquito-borne diseases and control
- Virology and Viral Diseases
- Plant Virus Research Studies
- Neuroinflammation and Neurodegeneration Mechanisms
- Genomics and Phylogenetic Studies
- Respiratory viral infections research
- COVID-19 Clinical Research Studies
- Viral Infections and Vectors
- Breast Cancer Treatment Studies
- Cell Image Analysis Techniques
- AI in cancer detection
- Animal Virus Infections Studies
- Infectious Encephalopathies and Encephalitis
- CRISPR and Genetic Engineering
- Entomopathogenic Microorganisms in Pest Control
- interferon and immune responses
- Insect Resistance and Genetics
- Vasculitis and related conditions
- Breast Lesions and Carcinomas
- Indigenous Studies and Ecology
- Complement system in diseases
- Global Cancer Incidence and Screening
- Legionella and Acanthamoeba research
- Plant and Fungal Interactions Research
University of California, San Francisco
2015-2025
University of Pennsylvania
2019-2025
Children's Hospital of Philadelphia
2025
Philadelphia University
2025
Connecticut Children's Medical Center
2019
Boston Children's Hospital
2019
Cleveland Clinic
2019
Kaiser Permanente San Francisco Medical Center
2019
Chan Zuckerberg Initiative (United States)
2019
Neurosciences Institute
2019
The rapid spread of Zika virus (ZIKV) and its association with abnormal brain development constitute a global health emergency. Congenital ZIKV infection produces range mild to severe pathologies, including microcephaly. To understand the pathophysiology infection, we used models developing that faithfully recapitulate tissue architecture in early midgestation. We identify cell populations are most susceptible primary human tissue, provide evidence for mechanism viral entry, show commonly...
Next-generation sequencing has generated a need for broadly applicable method to remove unwanted high-abundance species prior sequencing. We introduce DASH (Depletion of Abundant Sequences by Hybridization). Sequencing libraries are 'DASHed' with recombinant Cas9 protein complexed library guide RNAs targeting cleavage, thus preventing them from consuming space. demonstrate more than 99 % reduction mitochondrial rRNA in HeLa cells, and enrichment pathogen sequences patient samples. also an...
Mosquitoes are major infectious disease-carrying vectors. Assessment of current and future risks associated with the mosquito population requires knowledge full repertoire pathogens they carry, including novel viruses, as well their blood meal sources. Unbiased metatranscriptomic sequencing individual mosquitoes offers a straightforward, rapid, quantitative means to acquire this information. Here, we profile 148 diverse wild-caught collected in California detect sequences from eukaryotes,...
Balamuthia mandrillaris is a pathogenic free-living amoeba that causes rare but almost always fatal infection of the central nervous system called granulomatous amoebic encephalitis (GAE). Two distinct forms B. mandrillaris-a proliferative trophozoite form and nonproliferative cyst form, which highly resistant to harsh physical chemical conditions-have been isolated from environmental samples worldwide are both observed in infected tissue. Patients suffering GAE typically treated with...
Rapid-onset Obesity with Hypothalamic Dysfunction, Hypoventilation and Autonomic Dysregulation (ROHHAD), is a severe pediatric disorder of uncertain etiology resulting in hypothalamic dysfunction frequent sudden death. Frequent co-occurrence neuroblastic tumors have fueled suspicion an autoimmune paraneoplastic neurological syndrome (PNS); however, specific anti-neural autoantibodies, hallmark PNS, not been identified. Our objective to determine if underlies ROHHAD.Immunoglobulin G (IgG)...
Narnaviruses have been described as positive-sense RNA viruses with a remarkably simple genome of ~3 kb, encoding only highly conserved RNA-dependent polymerase (RdRp). Many narnaviruses, however, are 'ambigrammatic' and harbour an additional uninterrupted open reading frame (ORF) covering almost the entire length reverse complement strand. No function has for this ORF, yet absence stops is across diverse in every case codons ORF RdRp aligned. The >3 kb overlap on opposite strands,...
Rubella virus is an important human pathogen that can cause neurological deficits in a developing fetus when contracted during pregnancy. Despite successful vaccination programs the Americas and many developed countries, rubella remains endemic regions worldwide outbreaks occur wherever population immunity insufficient. Intense interest since was first isolated 1962 has advanced our understanding of clinical outcomes after infection disrupts key processes fetal neurodevelopment. Yet it still...
Fundamental to our understanding of RNA viruses is a description which strand(s) are transmitted as the viral genome relative encode proteins. Ambigrammatic narnaviruses break mold.
Circumpolar regions, and the nations within which they reside, have recently gained international attention because of shared pressing public policy issues such as climate change, resource development, endangered wildlife sovereignty disputes. In a call for national circumpolar action on areas concern, Arctic states health ministers met signed declaration that identified priorities cooperation. Among collaboration raised, highlighted importance enhancing intercultural understanding,...
Respiratory syncytial virus (RSV) is a globally prevalent pathogen, causes severe disease in older adults, and the leading cause of bronchiolitis pneumonia United States for children during their first year life [1]. Despite its prevalence worldwide, RSV-specific treatments remain unavailable most infected patients. Here, we leveraged combination genome-wide CRISPR knockout screening single-cell RNA sequencing to improve our understanding host determinants RSV infection response both cells,...
Here, we report the coding-complete genome sequence of an avian metapneumovirus from a monk parakeet ( Myiopsitta monachus ), identified by metagenomic next-generation sequencing during investigation into disease outbreak in captive parrot breeding facility. Based on divergence known strains, this represents new subgroup metapneumovirus.
During March to August of 2017, hundreds leopard sharks (Triakis semifasciata) stranded and died on the shores San Francisco Bay, California, US. Similar mass stranding events occurred in 1967 2011, but analysis those epizootics was incomplete, no etiology confirmed. Our investigation 2017 epizootic revealed severe meningoencephalitis sharks, raising suspicion for infection. We pursued a strategy unbiased pathogen detection using metagenomic next-generation sequencing followed by orthogonal...
Abstract Unlike other respiratory viruses, SARS-CoV-2 disproportionately causes severe disease in older adults whereas burden children is lower. To investigate whether differences the upper airway immune response may contribute to this disparity, we compare nasopharyngeal gene expression 83 (<19-years-old; 38 with SARS-CoV-2, 11 34 no virus) and 154 (>40-years-old; 45 28 81 virus). Expression of interferon-stimulated genes robustly activated both infection compared respective non-viral...
<h3>Objective</h3> To identify molecular correlates of primary angiitis the CNS (PACNS) through proteomic analysis CSF from a biopsy-proven patient cohort. <h3>Methods</h3> Using mass spectrometry, we quantitatively compared proteome patients with PACNS (n = 8) to individuals noninflammatory conditions 11). Significantly enriched pathways were identified gene ontology workflow, and high confidence hits within (fold change >1.5 concordant Benjamini-Hochberg–adjusted <i>p</i> < 0.05 on...
The rapid spread of Zika virus (ZIKV) and its association with abnormal brain development constitute a global health emergency. Congenital ZIKV infection produces range mild to severe pathologies, including placental damage microcephaly. However, the placenta’s role in viral transmission mechanisms microcephaly have not been addressed primary human tissues. Moreover, there is an urgent need for drugs that can prevent developmental defects following infection. Here, we identify cell...
Background: With widespread adoption of next-generation sequencing (NGS) technologies, the need has arisen for a broadly applicable method to remove unwanted high-abundance species prior sequencing. We introduce DASH (Depletion Abundant Sequences by Hybridization), facile technique targeted depletion undesired sequences. Results: Sequencing libraries are DASHed with recombinant Cas9 protein complexed library single guide RNAs (sgRNAs) programmed target cleavage, thus preventing them from...
Abstract Mosquitoes are major infectious disease-carrying vectors. Assessment of current and future risks associated with the mosquito population requires knowledge full repertoire pathogens they carry, including novel viruses, as well their blood meal sources. Unbiased metatranscriptomic sequencing individual mosquitoes offers a straightforward, rapid quantitative means to acquire this information. Here, we profile 148 diverse wild-caught collected in California detect sequences from...
Can Radiologists Predict the Presence of Ductal Carcinoma In Situ and Invasive Breast Cancer?Shadi Aminololama-Shakeri1, Chris I. Flowers2,3, Christine E. McLaren4, Dorota J. Wisner5,6, Jade de Guzman7, Joan Campbell8, Lawrence W. Bassett9, Haydee Ojeda-Fournier7, Karen Gerlach8,10, Jonathan Hargreaves1, Sarah L. Elson5,11, Hanna Retallack5, Bonnie N. Joe5, Stephen A. Feig8, Colin Wells9 for ATHENA Health InitiativeAudio Available | Share