A5015414601- Bacterial Genetics and Biotechnology
- Microbial Metabolic Engineering and Bioproduction
- RNA and protein synthesis mechanisms
- Gene Regulatory Network Analysis
- Mycobacterium research and diagnosis
- Bioinformatics and Genomic Networks
- Tuberculosis Research and Epidemiology
- Pharmaceutical studies and practices
- RNA modifications and cancer
- SARS-CoV-2 and COVID-19 Research
- Bacteriophages and microbial interactions
- Metalloenzymes and iron-sulfur proteins
- CRISPR and Genetic Engineering
- Protist diversity and phylogeny
- Computational Drug Discovery Methods
- Photoreceptor and optogenetics research
- SARS-CoV-2 detection and testing
- Evolution and Genetic Dynamics
- Photochromic and Fluorescence Chemistry
- Cell Image Analysis Techniques
- Diagnosis and treatment of tuberculosis
- Pneumonia and Respiratory Infections
- Biosensors and Analytical Detection
Shimizu (Japan)
2020
Nara Institute of Science and Technology
2008-2017
Polymerase chain reaction (PCR)-based antigen tests are technically difficult, time-consuming, and expensive, may produce false negative results requiring follow-up confirmation with computed tomography. The global coronavirus disease 2019 (COVID-19) pandemic has increased the demand for accurate, easy-to-use, rapid, cost-effective clinical application. We propose a de novo test diagnosing COVID-19 using combination of sandwich enzyme-linked immunosorbent assay thio-nicotinamide adenine...
Moonlighting proteins perform two or more cellular functions, which are selected based on various contexts including the cell type they expressed, their oligomerization status, and binding of different ligands at sites. To understand overall landscape functional diversity, it is important to establish methods that can identify moonlighting in a systematic fashion. Here, we have developed computational framework find genome scale identified multiple proteomic characteristics these proteins....
Precise quantitative growth measurements and detection of small changes in high-throughput manner is essential for fundamental studies bacterial cell. However, an inherent tradeoff measurement quality methods sacrifices some quality. A key challenge has been how to enhance without sacrificing throughput. We developed a new system, termed Colony-live. Here we show that Colony-live provides accurate three values (lag time (LTG), maximum rate (MGR), saturation point (SPG)) by visualizing colony...
Comprehensive experimental resources, such as ORFeome clone libraries and deletion mutant collections, are fundamental tools for elucidation of gene function. Data sets by omics analysis using these resources provide key information functional analysis, modeling simulation both in individual systematic approaches. With the long-term goal complete understanding a cell, we have over past decade created variety genomics studies Escherichia coli K-12. We made freely available to academic...
Nucleic acid amplification tests (NAATs) are widely used to diagnose tuberculosis (TB), but cannot discriminate live bacilli from dead bacilli. Live can be isolated by culture methods, this is time-consuming. We developed a de novo TB diagnostic method that detects only with high sensitivity within hours.
ObjectivesThis study examined Mycobacterium tuberculosis (MTB)-secreted MPT64 as a surrogate of bacterial viability for the diagnosis active pulmonary TB (PTB) and follow-up treatment.MethodsIn this proof-of-concept prospective study, 50 PTB patients in Tokyo metropolitan region, between 2017 2018, were consecutively included 30 healthy individuals also included. Each patient submitted sputum on days 0, 14 28 follow-up, each individual one sample. The following performed: smear microscopy,...
Escherichia coli glycogen metabolism involves the regulation of glgBXCAP operon expression and allosteric control GlgC [ADPG (ADP-glucose) pyrophosphorylase]-mediated catalysis ATP G1P (glucose-1-phosphate) to ADPG linked biosynthesis. E. is also affected by glgS. Though precise function protein it encodes unknown, its deficiency causes both reduced content enhanced levels GlgC-negative regulator AMP. The transcriptomic analyses carried out in present study revealed that, compared with their...
We have performed a screening of hydroxyurea (HU)-sensitive mutants using single-gene-deletion mutant collection in Escherichia coli K-12. HU inhibits ribonucleotide reductase (RNR), an enzyme that catalyzes the formation deoxyribonucleotides. Unexpectedly, seven lacked genes are required for incorporation sulfur into specific tRNA modification base, 5-methylaminomethyl-2-thiouridine (mnm(5)s(2)U), via persulfide relay. found expression RNR was reduced to about one-third both absence and...
Genetic interaction networks are especially useful for functional assignment of genes and gaining new insights into the systems-level organization cell. While studying interactions nonessential can be relatively straight-forward via use deletion mutants, different approaches must used to reveal essential due their indispensability. One method shown revealing requires tagging query protein. However, this approach complicated by mutational effects potential hypomorphic alleles. Here, we...
Moonlighting proteins perform two or more cellular functions, which are selected based on various contexts including the cell type they expressed, their oligomerization status, and binding of different ligands at sites. To understand overall landscape functional diversity, it is important to establish methods that can identify moonlighting in a systematic fashion. Here, we have developed computational framework find genome scale identified multiple proteomic characteristics these proteins....