A5064675530- RNA Research and Splicing
- Genomics and Phylogenetic Studies
- CRISPR and Genetic Engineering
- RNA and protein synthesis mechanisms
- Genomics and Chromatin Dynamics
- Chromosomal and Genetic Variations
- Molecular Biology Techniques and Applications
- Soybean genetics and cultivation
- Legume Nitrogen Fixing Symbiosis
- Evolution and Genetic Dynamics
- MicroRNA in disease regulation
- Plant pathogens and resistance mechanisms
- Genomic variations and chromosomal abnormalities
- RNA regulation and disease
- Acute Myeloid Leukemia Research
- Skin and Cellular Biology Research
- Invertebrate Immune Response Mechanisms
- Vascular Tumors and Angiosarcomas
- Sarcoma Diagnosis and Treatment
- RNA modifications and cancer
- Prenatal Screening and Diagnostics
- Aquaculture disease management and microbiota
- Aquaculture Nutrition and Growth
- DNA Repair Mechanisms
- Power System Optimization and Stability
University of Southern California
2020-2024
Hokkaido University
2023-2024
Chinese University of Hong Kong
2017-2024
Hong Kong Polytechnic University
2021-2024
Chongqing University
2024
University of California, Davis
2022
Southern California University for Professional Studies
2022
Abstract Efficient crop improvement depends on the application of accurate genetic information contained in diverse germplasm resources. Here we report a reference-grade genome wild soybean accession W05, with final assembled size 1013.2 Mb and contig N50 3.3 Mb. The analytical power W05 is demonstrated by several examples. First, identify an inversion at locus determining seed coat color during domestication. Second, translocation event between chromosomes 11 13 some genotypes shown to...
Summary We report reference‐quality genome assemblies and annotations for two accessions of soybean ( Glycine max ) one accession soja , the closest wild relative G. . The provided are widely used US cultivars: northern line Williams 82 (Wm82) southern Lee. Wm82 assembly improves prior published assembly, Lee new these accessions. Comparisons among three show generally high structural conservation, but nucleotide difference 1.7 single‐nucleotide polymorphisms snp s) per kb between Lee, 4.7 s...
Abstract Large structural variants (SVs) in the human genome are difficult to detect and study by conventional sequencing technologies. With long-range analysis platforms, such as optical mapping, one can identify large SVs (>2 kb) across experiment. Analyzing maps of 154 individuals from 26 populations sequenced 1000 Genomes Project, we find that phylogenetic population patterns similar those single nucleotide variations 86% genome, while ~2% has high complexity. We able characterize...
Abstract Accurate transcription is required for the faithful expression of genetic information. However, relatively little known about molecular mechanisms that control fidelity transcription, or conservation these across tree life. To address issues, we measured error rate in five organisms increasing complexity and found RNA polymerase II ranges from 2.9 × 10 −6 ± 1.9 −7 /bp yeast to 4.0 5.2 worms, 5.69 8.2 flies, 4.9 3.6 mouse cells 4.7 9.9 −8 human cells. These rates were modified by...
Copy number variations (CNVs) play important roles in crop domestication. However, there is only very limited information on the involvement of CNVs soybean Trailing growth and long shoots are adaptations for natural habitats but cause lodging that hampers yield cultivation. Previous studies have focused Dt1/2 affecting indeterminate/determinate habit, whereas possible role gibberellin pathway remained unclear. In present study, quantitative trait locus (QTL) mapping a recombinant inbred...
Recessive dystrophic epidermolysis bullosa (RDEB) is an incurable widespread blistering skin disorder caused by mutations in the gene encoding for type VII collagen (C7), major component of anchoring fibrils.
Significance Accurate transcription is required for the faithful expression of genetic information. If fidelity compromised, protein homeostasis, cell fate, and various metabolic processes are disrupted. Here, we demonstrate that mutagens can lower in yeast, worms, flies, mice by promoting misincorporation nucleotides RNA polymerases. These observations establish a mechanism which environment, our lifestyle choices, work-related exposures may promote age onset, severity, progression diseases.
To determine the error rate of transcription in human cells, we analyzed transcriptome H1 embryonic stem cells with a circle-sequencing approach that allows for high-fidelity sequencing transcriptome. These experiments identified approximately 100,000 errors distributed over every major RNA species cells. Our results indicate different display rates, suggesting prioritize fidelity some RNAs others. Cross-referencing detected various genetic and epigenetic features genome revealed vivo...
Angiosarcoma is an aggressive soft-tissue sarcoma with a poor prognosis. Chemotherapy for this cancer typically employs paclitaxel, taxane (genotoxic drug), although it has limited effect owing to chemoresistance prolonged treatment. In study, we examine alternative angiosarcoma treatment approach that combines chemotherapeutic and senolytic agents. We find the drugs cisplatin paclitaxel efficiently induce senescence in cells. Subsequent agent ABT-263 eliminates senescent cells by activating...
<title>Abstract</title> Although vaccines and treatments have strengthened our ability to combat the COVID-19 pandemic, new variants of SARS-CoV-2 continue emerge in human populations. Because evolution is driven by mutation, a better understanding its mutation rate spectrum could improve forecast trajectory pandemic. Here, we used circular RNA consensus sequencing (CirSeq) determine six performed short-term experiment impact these mutations on viral fitness. Our analyses indicate that...
RNA transcripts circulating in peripheral blood represent an important source of non-invasive biomarkers. To accurately quantify the levels transcripts, one needs to normalize data with internal control reference genes, which are detected at relatively constant across samples. A few gene candidates have be selected from transcriptome before validation their stable expression by reverse-transcription quantitative polymerase chain reaction. However, there is a lack transcriptome, let alone...
Abstract OBJECTIVE To assess exposure to and infection with 3 pathogens ( Rickettsia rickettsii, Anaplasma platys , Ehrlichia canis ) vectored by brown dog ticks Rhipicephalus sanguineus in sheltered dogs at the western US–Mexico border. ANIMALS 239 shelters San Diego Imperial counties, US, Mexicali Tijuana, Mexico. PROCEDURES Each had blood drawn basic demographic data collected. PCR was performed determine active spp E canis, A . Serology Rickettsia, species. RESULTS 2 of 78 (2.6%) sampled...
Abstract Japanese eels (Anguilla japonica) are commercially important species, harvested extensively for food. Currently, this and related species (American European eels) challenging to breed on a commercial basis. As result, the wild stock is used aquaculture. Moreover, climate change, habitat loss, water pollution, altered ocean currents affect eel populations negatively. Accordingly, International Union Conservation of Nature lists as endangered its red list. Here we presented...
Accurate transcription is required for the faithful expression of genetic information. However, little known about fidelity RNA synthesis or biological consequences errors in living cells. Here, we review recent developments massively parallel sequencing technology that allow to be measured with unprecedented accuracy and summarize new observations provide insight into role aging disease. Taken together, these have potential change our understanding mutagenesis itself, significantly enhance...
Abstract Structural variations (SVs) are commonly found in cancer genomes. They can cause gene amplification, deletion and fusion, among other functional consequences. With an average read length of hundreds kilobases, nano-channel-based optical DNA mapping is powerful detecting large SVs. However, existing SV calling methods not tailored for samples, which have special properties such as mixed cell types sub-clones. Here we propose the Cancer Optical Mapping Variations (COMSV) method that...
Abstract The domestic cat ( Felis catus ) is one of the most popular companion animals in world. Comprehensive genomic resources will aid development and application veterinary medicine including to improve feline health, particular, enable precision which promising human application. However, currently available genome assemblies were mostly built based on Abyssinian breed highly inbred has limited power representing vast diversity population. Moreover, current reference assembly remains...
Energy consumption differences of two cycling garments during short-term were studied. Eleven amateur male cyclists participated in sessions over days while wearing a newly designed compression skinsuit (CCS) with stripes simulating kinesio tape, and conventional garment (CG) (control garment). In each session, the participants performed set 12 combinations three workloads four cadences either CCS or CG. Each combination lasted for 30 s. Garment pressure values at thigh, oxygen (VO 2 ) heart...
Abstract RNA transcripts circulating in peripheral blood represent an important source of non-invasive biomarkers. To accurately quantify the levels a transcript, one needs to normalize data with internal control reference genes, which are detected at relatively constant across different samples. A few stably-expressed gene candidates have be selected from transcriptome before validation their stable expression by reverse-transcription quantitative polymerase chain reaction. However, there...