A5029029389- Hepatitis B Virus Studies
- Hepatitis C virus research
- Viral Infections and Immunology Research
- RNA and protein synthesis mechanisms
- Viral gastroenteritis research and epidemiology
- RNA modifications and cancer
- RNA Research and Splicing
- Liver Disease Diagnosis and Treatment
- interferon and immune responses
- Animal Virus Infections Studies
- Bacteriophages and microbial interactions
- Genomics and Phylogenetic Studies
- Chromosomal and Genetic Variations
- MicroRNA in disease regulation
- RNA regulation and disease
- SARS-CoV-2 and COVID-19 Research
- Plant Disease Resistance and Genetics
- Epigenetics and DNA Methylation
- Virus-based gene therapy research
- Genetic and phenotypic traits in livestock
- Liver physiology and pathology
- CRISPR and Genetic Engineering
- Silkworms and Sericulture Research
- Immune Response and Inflammation
- Influenza Virus Research Studies
Rockefeller University
2015-2025
SUNY Downstate Health Sciences University
2007-2011
State University of New York
2007-2011
Boston University
2011
University of California, Berkeley
2009
Zhejiang University
2003-2005
BGI Group (China)
2004
Beijing Institute of Genomics
2004
University of Washington
2004
Clemson University
2003
We report a draft sequence for the genome of domesticated silkworm (Bombyx mori), covering 90.9% all known genes. Our estimated gene count is 18,510, which exceeds 13,379 genes reported Drosophila melanogaster. Comparative analyses to fruitfly, mosquito, spider, and butterfly reveal both similarities differences in content.
We report improved whole-genome shotgun sequences for the genomes of indica and japonica rice, both with multimegabase contiguity, or almost 1,000-fold improvement over drafts 2002. Tested against a nonredundant collection 19,079 full-length cDNAs, 97.7% genes are aligned, without fragmentation, to mapped super-scaffolds one other genome. introduce gene identification procedure plants that does not rely on similarity known remove erroneous predictions resulting from transposable elements....
Rice is the world's most important food crop and a model for cereal research. At 430 megabases in size, its genome compact of cereals. We report sequence chromosome 10, smallest 12rice chromosomes (22.4 megabases), which contains 3471 genes. Chromosome 10 considerable heterochromatin with an enrichment repetitive elements on 10S expressed genes 10L. Multiple insertions from organellar genomes were detected. Collinearity was apparent between rice sorghum maize. Comparison draft finished...
Interferon-stimulated genes (ISGs) act in concert to provide a tight barrier against viruses. Recent studies have shed light on the contribution of individual ISG effectors antiviral state, but most examined those acting early, intracellular stages viral life cycle. Here, we applied an image-based screen identify ISGs inhibiting late influenza A virus (IAV) infection. We unraveled directly function for gene SERPINE1, encoding plasminogen activator inhibitor 1 (PAI-1). By targeting...
Viral internal ribosomal entry sites (IRESs) mediate end-independent translation initiation. There are 4 major structurally-distinct IRES groups: type 1 (e.g., poliovirus) and 2 encephalomyocarditis virus), which dissimilar except for a Yn-Xm-AUG motif at their 3′ borders, 3 hepatitis C (dicistroviruses). Type 2–4 IRESs initiation by distinct mechanisms that nevertheless all based on specific noncanonical interactions with canonical components of the apparatus, such as eukaryotic factor...
Human adenosine deaminase acting on RNA 1 (ADAR1) catalyzes adenosine-to-inosine deamination reactions double-stranded molecules to regulate cellular responses endogenous and exogenous RNA. Defective ADAR1 editing leads disorders such as Aicardi-Goutières syndrome, an autoinflammatory disease that manifests in the brain skin, dyschromatosis symmetrica hereditaria, a skin pigmentation disorder. Two protein isoforms, p150 (150 kDa) p110 (110 kDa), are expressed can edit RNA, but contribution...
A tool to study SARS-CoV-2 Work with infectious severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) requires high-level biocontainment facilities, making it important develop safer molecular tools that can potentially be used under less stringent conditions. Self-replicating RNAs known as replicons have long been pathogenic RNA viruses; however, developing SARS-SoV-2 has challenging because of its large genome. Ricardo-Lax et al . a yeast-based system construct cannot assemble virus...
The universally conserved eukaryotic initiation factor (eIF), eIF1A, plays multiple roles throughout initiation: it stimulates eIF2/GTP/Met-tRNA iMet attachment to 40S ribosomal subunits, scanning, start codon selection and subunit joining. Its bacterial ortholog IF1 consists of an oligonucleotide/oligosaccharide-binding (OB) domain, whereas eIF1A additionally contains a helical subdomain, N-terminal tail (NTT) C-terminal (CTT). NTT CTT both enhance recruitment , but have opposite effects on...
Type 2 internal ribosomal entry sites (IRESs) of encephalomyocarditis virus (EMCV), foot-and-mouth disease (FMDV) and other picornaviruses comprise five major domains H-L. Initiation translation on these IRESs begins with specific binding the central domain initiation factor, eIF4G to J-K domains, which is stimulated by eIF4A. eIF4G/eIF4A then restructure region attachment IRES promote recruitment 43S pre-initiation complexes. In addition canonical factors, type also require trans-acting...
Nonprimate hepacivirus (NPHV) is the closest known relative of hepatitis C virus (HCV) and its study could enrich our understanding HCV evolution, immunity, pathogenesis. High seropositivity found in horses worldwide with ∼ 3% viremic. NPHV natural history molecular virology remain largely unexplored, however. Here, we show that NPHV, like HCV, can cause persistent infection for over a decade, high titers negative strand RNA liver. near-universal contaminant commercial horse sera cell...
The 5'-untranslated regions (5' UTRs) of picornavirus genomes contain an internal ribosomal entry site (IRES) that promotes the end-independent initiation translation. Picornavirus IRESs are classified into four structurally distinct groups, each with different factor requirements. Here, we identify a fifth IRES class in members Kobuvirus, Salivirus, and Paraturdivirus genera Picornaviridae: Aichi virus (AV), bovine kobuvirus (BKV), canine (CKoV), mouse (MKoV), sheep (SKV), salivirus A...
The Simian picornavirus type 9 (SPV9) 5′-untranslated region (5′ UTR) has been predicted to contain an internal ribosomal entry site (IRES) with structural elements that resemble domains of hepacivirus/pestivirus (HP) IRESs. In vitro reconstitution initiation confirmed this 5′ UTR contains IRES and revealed it both functional similarities differences compared HP Like IRESs, the SPV9 bound directly 40S subunits eukaryotic factor (eIF) 3, depended on conserved domain IIId for binding...
Hepatitis C virus (HCV) requires the liver specific micro-RNA (miRNA), miR-122, to replicate. This was considered unique among RNA viruses until recent discoveries of HCV-related hepaciviruses prompting question a more general miR-122 dependence. Among hepaciviruses, closest known HCV relative is equine non-primate hepacivirus (NPHV). Here, we used Argonaute cross-linking immunoprecipitation (AGO-CLIP) confirm AGO binding single predicted site in NPHV 5'UTR vivo. To study requirements...
Hepatitis B virus (HBV) chronically infects an estimated 300 million people, and standard treatments are rarely curative. Infection increases the risk of liver cirrhosis hepatocellular carcinoma, consequently, nearly 1 people die each year from chronic hepatitis B. Tools approaches that bring insights into HBV biology facilitate discovery evaluation antiviral drugs in demand. Here, we describe a method to initiate replication HBV, DNA virus, using synthetic RNA. This approach eliminates...
Article18 October 2022Open Access Source DataTransparent process DDX60 selectively reduces translation off viral type II internal ribosome entry sites Mohammad Sadic orcid.org/0000-0002-4728-8908 NYU Grossman School of Medicine, New York, NY, USA Contribution: Conceptualization, Data curation, Formal analysis, Validation, Investigation, Methodology, Writing - original draft Search for more papers by this author William M Schneider The Rockefeller University, review & editing Olga Katsara...