A5039023090- Plant tissue culture and regeneration
- Plant Virus Research Studies
- Transgenic Plants and Applications
- Plant biochemistry and biosynthesis
- Genomics and Phylogenetic Studies
- Gut microbiota and health
- Chromosomal and Genetic Variations
- Plant Genetic and Mutation Studies
- Plant Molecular Biology Research
- Gene expression and cancer classification
- RNA modifications and cancer
- Epigenetics and DNA Methylation
- Bacteriophages and microbial interactions
- Plant-Microbe Interactions and Immunity
- biodegradable polymer synthesis and properties
- Plant Parasitism and Resistance
- Marine Ecology and Invasive Species
- Microbial Community Ecology and Physiology
- Species Distribution and Climate Change
- Cancer-related gene regulation
- Plant Gene Expression Analysis
- Metabolomics and Mass Spectrometry Studies
- Plant nutrient uptake and metabolism
- Smoking Behavior and Cessation
- Nutritional Studies and Diet
Philip Morris International (Switzerland)
2016-2025
Philip Morris International (United States)
2022-2023
IBM Research - Zurich
2022
The University of Tokyo
2005-2012
Tokyo University of Science
2005-2008
Japan Science and Technology Agency
2008
École Polytechnique Fédérale de Lausanne
2000-2005
ETH Zurich
1987-2000
Abstract The allotetraploid plant Nicotiana tabacum (common tobacco) is a major crop species and model organism, for which only very fragmented genomic sequences are currently available. Here we report high-quality draft genomes three main tobacco varieties. These show both the low divergence of from its ancestors microsynteny with other Solanaceae species. We identify over 90,000 gene models determine ancestral origin mosaic virus potyvirus disease resistance in tobacco. anticipate that...
DBTBS, first released in 1999, is a reference database on transcriptional regulation Bacillus subtilis, summarizing the experimentally characterized transcription factors, their recognition sequences and genes they regulate.Since previous release, original content was extended by addition of data contained 569 new publications, total which now reaches 947.The number B. subtilis promoters annotated more than doubled to 1475.In addition, 463 validated operons terminators have been...
Nicotiana sylvestris and tomentosiformis are members of the Solanaceae family that includes tomato, potato, eggplant pepper. These two species originate from South America exhibit different alkaloid diterpenoid production. N. is cultivated largely as an ornamental plant it has been used a diploid model system for studies terpenoid production, plastid engineering, resistance to biotic abiotic stress. considered be modern descendants maternal paternal donors formed tabacum about 200,000 years...
Prokaryotes evolved numerous systems that defend against predation by bacteriophages. In addition to well-known restriction-modification and CRISPR-Cas immunity systems, many poorly characterized exist. One class of such named BREX, consists a putative phosphatase, methyltransferase four other proteins. A Bacillus cereus BREX system provides resistance several unrelated phages leads modification specific motif in host DNA. Here, we study the action from natural Escherichia coli isolate. We...
In tobacco (Nicotiana tabacum), nicotine is the predominant alkaloid. It produced in roots and accumulated mainly leaves. Jasmonates play a central signaling role damage-induced formation. The genome sequence of provides us an almost complete inventory structural regulatory genes involved pathway. Phylogenetic expression analyses revealed series pathway, forming regulon, under control jasmonate-responsive ETHYLENE RESPONSE FACTOR (ERF) transcription factors. duplication NAD polyamine...
BREX (for BacteRiophage EXclusion) is a superfamily of common bacterial and archaeal defence systems active against diverse bacteriophages. While the mechanism currently unknown, self versus non-self differentiation requires methylation specific asymmetric sites in host DNA by BrxX (PglX) methyltransferase. Here, we report that T7 bacteriophage Ocr, mimic protein protects phage from defensive action type I restriction-modification systems, also BREX. In contrast to wild-type phage, which...
Abstract The Solanaceae species Nicotiana tabacum , an economically important crop plant cultivated worldwide, is allotetraploid that appeared about 200,000 years ago as the result of hybridization diploid ancestors sylvestris and tomentosiformis . previously published genome assemblies for these three relied primarily on short-reads, obtained pseudochromosomes only partially covered genomes. In this study, we generated annotated de novo chromosome-level genomes N. which contain 3.99 Gb,...
Several studies have highlighted the role of host-microbiome interactions in pathogenesis inflammatory bowel disease (IBD), resulting an increasing amount data mainly focusing on Western patients. Because prevalence IBD newly industrialized countries such as those Asia, Middle East, and South America, there is mounting interest elucidating gut microbiota these populations. We present a comprehensive analysis several IBD-related biomarkers profiles functions unique population patients with...
Bacteriophage T3 encodes a SAMase that, through cleavage of S-adenosyl methionine (SAM), circumvents the SAM-dependent type I restriction-modification (R-M) defense. We show that also allows to evade BREX Although SAM depletion weakly affects methylation, it completely inhibits defensive function BREX, suggesting could be co-factor for BREX-mediated exclusion phage DNA, similar its anti-defense role in R-M. The anti-BREX activity is mediated not just by enzymatic degradation but direct...
The analysis of human microbiome is an exciting and rapidly expanding field research. In the past decade, biological relevance for health has become evident. Microbiome comprises a complex collection microorganisms, with their genes metabolites, colonizing different body niches. It now well known that interacts its host, assisting in bioconversion nutrients detoxification, supporting immunity, protecting against pathogenic microbes, maintaining health. Remarkable new findings showed our not...
Smoking is one of the major modifiable risk factors in development and progression chronic obstructive pulmonary disease (COPD) cardiovascular (CVD). Modified-risk tobacco products (MRTP) are being developed to provide substitute for smokers who unable or unwilling quit, lessen smoking-related health risks. In this study, ApoE-/- mouse model was used investigate impact cigarette smoke (CS) from reference 3R4F, aerosol two potential MRTPs based on heat-not-burn principle, carbon heated...
Chemical modifications to DNA bases, including adducts arising from reactions with electrophilic chemicals, are well-known impact cell growth, miscode during replication, and influence disease etiology. However, knowledge of how genomic sequences structures the accumulation alkylated bases is not broadly characterized high resolution, nor have these patterns been linked overall quantities modified in genome. For benzo(a) pyrene (BaP), a ubiquitous environmental carcinogen, we developed...
ABSTRACT Escherichia coli hosts expressing fabG of Pseudomonas aeruginosa showed 3-ketoacyl coenzyme A (CoA) reductase activity toward R -3-hydroxyoctanoyl-CoA. Furthermore, E. recombinants carrying the poly-3-hydroxyalkanoate (PHA) polymerase-encoding gene phaC in addition to accumulated medium-chain-length PHAs (mcl-PHAs) from alkanoates. When fadB or fadA mutants, which are deficient steps downstream upstream 3-ketoacyl-CoA formation step during β-oxidation, respectively, were transformed...
Introduction Alpha-synuclein (α-Syn) aggregation, transmission, and contribution to neurotoxicity represent central mechanisms underlying Parkinson’s disease. The plant alkaloid “nicotine” was reported attenuate α-Syn aggregation in different models, but its precise mode of action remains unclear. Methods In this study, we investigated the effect 2-week chronic nicotine treatment on neuroinflammation, neurodegeneration, motor deficits D-line transgenic mice. We also established a novel...
Abstract Allopolyploidy, a phenomenon prevalent in angiosperms involving hybridization and whole-genome duplication, results species with multiple subgenomes, altering genome structure gene expression, leading to novel phenotypes. Allopolyploids often experience unbalanced homeolog expression bias, the preferential of homeologs from one two progenitor genomes. To explore consequences allopolyploidy we investigate global fate Nicotiana (Solanaceae). We focus on section Repandae, including...
Nicotiana rustica (Aztec tobacco), like common tobacco (Nicotiana tabacum), is an allotetraploid formed through a recent hybridization event; however, it originated from completely different progenitor species. Here, we report the comparative genome analysis of wild type N. (5 Gb; 2n = 4x 48) with its three putative diploid progenitors (2.3–3 2x =24), undulata, paniculata and knightiana. In total, 41% paternal donor (N. undulata), while 59% maternal paniculata/N. knightiana). Chloroplast...
The clove (Syzygium aromaticum) is an important tropical spice crop in global trade. Evolving environmental pressures necessitate modern characterization and selection techniques that are currently inaccessible to growers owing the scarcity of genomic genetic information. Here, we present a 370-Mb high-quality chromosome-scale genome assembly for clove. Comparative analysis between S. aromaticum Eucalyptus grandis-both species Myrtaceae family-reveals good structure conservation...
Nicotiana section Suaveolentes is an almost all-Australian clade of allopolyploid tobacco species that emerged through hybridization between diploid relatives the genus. In this study, we aimed to assess phylogenetic relationship with several based on both plastidial and nuclear genes.The plastome-based analysis representing 47 newly re-built plastid genomes suggested ancestor N. Noctiflorae most likely maternal donor clade. Nevertheless, found clear evidence recombination from Sylvestres We...
Genomics-based breeding of economically important crops such as banana, coffee, cotton, potato, tobacco and wheat is often hampered by genome size, polyploidy high repeat content. We adapted sequence-based whole-genome profiling (WGP™) technology to obtain insight into the model plant Nicotiana tabacum (tobacco). N. assumed originate from a hybridization event between ancestors sylvestris tomentosiformis approximately 200,000 years ago. This resulted in having haploid size 4500 million base...
Tobacco smoke delivers a complex mixture of hazardous and potentially chemicals. Some these may induce the formation DNA mutations, which increases risk various cancers that display characteristic patterns accumulated mutations arising from causative exposures. Tracking contributions individual mutagens to mutational signatures present in human can help understand cancer etiology advance disease prevention strategies. To characterize potential constituents tobacco exposure-associated...
ABSTRACT To prepare medium-chain-length poly-3-hydroxyalkanoates (PHAs) with altered physical properties, we generated recombinant Escherichia coli strains that synthesized PHAs monomer compositions. Experiments different substrates (fatty acids chain lengths) or E. hosts failed to produce properties. Therefore, engineered a new potential PHA synthetic pathway, in which ketoacyl-coenzyme A (CoA) intermediates derived from the β-oxidation cycle are accumulated and led polymerase precursor R...
In this study, we determined the pyridine alkaloid content (nicotine, nornicotine, anabasine, anatabine, cotinine, and myosmine) of 58 species 2 subspecies Nicotiana genus by ultra-high-performance liquid chromatography coupled with mass spectrometry. We observed clear correlation between Noctiflorae Suaveolentes sections their above average accumulation anabasine in genus. addition, results demonstrated presence not only trace amounts but quantifiable levels myosmine, an previously detected...