A5101416057- DNA and Biological Computing
- Advanced biosensing and bioanalysis techniques
- Cellular Automata and Applications
- Genomics and Phylogenetic Studies
- Enzyme Production and Characterization
- Microbial Natural Products and Biosynthesis
- Microbial Community Ecology and Physiology
- Modular Robots and Swarm Intelligence
- Microbial Metabolites in Food Biotechnology
- Biofuel production and bioconversion
- Plant-Microbe Interactions and Immunity
- Bacterial Genetics and Biotechnology
- Protist diversity and phylogeny
- Gene expression and cancer classification
- Algorithms and Data Compression
- Enzyme Catalysis and Immobilization
- DNA and Nucleic Acid Chemistry
- Biochemical Acid Research Studies
- Probiotics and Fermented Foods
- Amino Acid Enzymes and Metabolism
- Aquaculture disease management and microbiota
- Environmental DNA in Biodiversity Studies
- Plant Molecular Biology Research
- Mycobacterium research and diagnosis
- Essential Oils and Antimicrobial Activity
Shenzhen Institutes of Advanced Technology
2021-2025
State Key Laboratory of Synthetic Chemistry
2024-2025
Chinese Academy of Sciences
2021-2024
China National GeneBank
2024
University of Chinese Academy of Sciences
2024
BGI Group (China)
2019-2022
John Innes Centre
2019
Ludwig-Maximilians-Universität München
2012-2019
Norwich Research Park
2019
Huazhong Agricultural University
2008-2012
Abstract DNA is a promising data storage medium due to its remarkable durability and space-efficient storage. Early bit-to-base transcoding schemes have primarily pursued information density, at the expense of introducing biocompatibility challenges or decoding failure. Here we propose robust algorithm named yin–yang codec, using two rules encode binary bits into one nucleotide, generate sequences that are highly compatible with synthesis sequencing technologies. We encoded representative...
ABSTRACT Members of the Planctomycetes clade share many unusual features for bacteria. Their cytoplasm contains membrane-bound compartments, they lack peptidoglycan and FtsZ, divide by polar budding, are capable endocytosis. Planctomycete genomes have remained enigmatic, generally being quite large (up to 9 Mb), on average, 55% their predicted proteins unknown function. Importantly, related traits remain largely unknown. Thus, we embarked bioinformatic analyses these in an effort predict...
The acquisition of resistance to one antibiotic sometimes leads collateral sensitivity a second antibiotic. Here, we show that vancomycin in Enterococcus faecium is associated with remarkable increase susceptibility pleuromutilin antibiotics (such as lefamulin), which target the bacterial ribosome. trade-off between and pleuromutilins mediated by epistasis van gene cluster msrC, encoding an ABC-F protein protects ribosomes from targeting. In mouse models vancomycin-resistant E. colonization...
Abstract DNA‐based data storage is a new technology in computational and synthetic biology, that offers solution for long‐term, high‐density archiving. Given the critical importance of medical advancing human health, there growing interest developing an effective system based on DNA. Data integrity, accuracy, reliability, efficient retrieval are all significant concerns. Therefore, this study proposes Effective DNA Storage (EDS) approach archiving MRI data. The EDS incorporates three key...
Abstract Deoxyribonucleic acid (DNA) has been suggested as a very promising medium for data storage in recent years. Although numerous studies have advocated DNA storage, its practical application remains obscure and there is lack of user‐oriented platform. Here, we developed platform, named Storage‐D, which allows users to convert their into sequences any length vice versa by selecting algorithms, error‐correction, random‐access, codec pin strategies terms own choice. It incorporates newly...
DNA has emerged as an appealing material for information storage due to its great density and durability. Random reading rewriting are essential tasks practical large-scale data storage. However, they currently difficult implement simultaneously in a single DNA-based system, strongly limiting their practicability. Here, "Cell Disk" system is presented, achieving high-density vivo that enables both random rewriting. In this each yeast cell used chamber store information, similar "disk block"...
The aim of the current study is to develop encapsulation essential oils for oral delivery small intestine pigs in order retain their antimicrobial activity.Carvacrol was used as a model oil and successfully encapsulated microcapsules made from Ca-alginate hydrogel using an emulsion-extrusion technology with high efficiency. This method did not compromise activity when tested against Escherichia coli K88 culture medium, well simulated gastrointestinal model. In model, <20% carvacrol released...
Signal transduction is an essential process that allows bacteria to sense their complex and ever-changing environment adapt accordingly. Three distinct major types of signal-transducing proteins (STPs) can be distinguished: one-component systems (1CSs), two-component (2CSs), extracytoplasmic-function σ factors (ECFs). Since Actinobacteria are particularly rich in STPs, we comprehensively investigated the abundance diversity STPs encoded 119 actinobacterial genomes, based on data stored...
Summary The extracytoplasmic function (ECF) σ factor, E , is a key regulator of the cell envelope stress response in Streptomyces coelicolor . Although its role maintaining wall integrity has been known for over decade, comprehensive analysis genes under control not undertaken. Here, using combination chromatin immunoprecipitation‐sequencing (ChIP‐seq), microarray transcriptional profiling and bioinformatic analysis, we attempt to define regulon. Approximately half identified encode proteins...
DNA is a practical storage medium with high density, durability, and capacity to accommodate exponentially growing data volumes. A sequence structure biocomputing problem that requires satisfying bioconstraints design robust sequences. Existing evolutionary approaches sequences result in errors during the encoding process reduces lower bounds of coding sets used for molecular hybridization. Additionally, disordered strand forms secondary structure, which susceptible decoding. This paper...
The exponential increasement and the attributes of medical data drive requirement for secure archiving. DNA storage shows promise storing sensitive important like records due to its high density endurance. Nevertheless, current working scheme generally does not fully consider encryption, posing a risk corruption by routine sequencing. Here, we designed "multi-layer" encryption pipeline Initially, digital information was encrypted using Blowfish algorithm at technology (IT) layer, followed...
End capping of oligonucleotides by modified nucleotides is essential for boosting resistance to 3’ exonuclease degradation, thereby enhancing their stability and therapeutic efficacy in vivo. However, the rationale behind these modifications remains unclear. In this study, we designed a novel nucleic acid analog, eTNA, replacing deoxyribose with α-D-erythrofuranosyl moiety. As an epimer TNA (threose acid), it combines structural features from inverted-dT TNA, both known against...
ABSTRACT Information encryption based on DNA data archiving, referred to as encryption, has been advocated for decades and become highly appealing owing its remarkable advantages, e.g. high storage capacity, complexity programmability. Early schemes primarily leveraged the natural four-letter genetic alphabet storage, with message-storing sequences easily decrypted by routine sequencing, which is consequently vulnerable attack faces severe security challenges. Here, an unnatural base pair...
Abstract Current research on DNA storage usually focuses the improvement of density by developing effective encoding and decoding schemes while lacking consideration uncertainty in ultra-long-term data retention. Consequently, current systems are often not self-contained, implying that they have to resort external tools for restoration stored data. This may result high risks loss since required might be available due far future. To address this issue, we propose paper a self-contained system...
Fluorescent nucleobase analogs (FBAs) have proven valuable for studying nucleic acid structure and dynamics. Regrettably, most FBAs exhibit reduced quantum yields when incorporated into DNA, particularly neighboring residues are present. In this study, we introduce a turn-on nucleoside (thieno cyclopenta -dU, 3b) that increases the brightness of single-stranded oligonucleotides by approximately 10-fold compared to free nucleoside, regardless bases. Furthermore, an up 50-fold increase in is...