Field Of Biology Research Articles

Direct reconstruction of tissue temperature fields during thermal therapy by dynamic response matching and steady-state correction

In the field of oncology thermotherapy technology, online and real-time reconstruction of biological tissue temperature field is a fundamental work with important practical needs. In this paper, we proposed a new method for direct reconstruction of biological tissue temperature field by dynamic response feature matching and steady-state correction. Based on the bioheat transfer equation, the step response model of tissue temperature field during thermal therapy is established, and the dynamic response eigenvectors of biological tissue temperature and the steady-state gain of temperature response are determined offline. According to the optimal matching principle between the temperature dynamic response of the observation point and the internal space point of tissue, the optimal matching matrix of the dynamic response features between the observation point temperature and the internal temperature field of tissue is determined with the use of the dynamic response eigenvectors. Further, through the weighted synthesis of observation point temperature response by using the optimal matching matrix of dynamic response features, the tissue transient temperature field pre-estimation model is established. Finally, by correcting the tissue temperature field pre-estimation model with steady-state gain correction factor, the direct reconstruction scheme of temperature field based on dynamic response feature matching and steady-state gain correction is established. In this work, the non-destructive reconstruction of the internal temperature field of biological tissues during laser-induced thermal therapy is achieved based on the above direct reconstruction scheme. Numerical simulation experiments are performed to investigated the effects of pre-estimation time domain, the number of measurement points, laser irradiation form and measurement error on the temperature field reconstruction results.

Research on the application of the terahertz technique

Terahertz is a new radiation source with many unique advantages and terahertz technology is a very important cross-cutting frontier field, providing a very attractive opportunity for technological innovation, national economic development and national security that may lead to revolutionary developments in science and technology. This article introduces the advantages and disadvantages of electromagnetic waves in the terahertz frequency band, the origin and development history of terahertz technology, and the composition of common terahertz systems, and outlines the technologies of secure communication, detection, imaging, etc., according to their principles. The analysis shows that under the premise of ensuring the size of its key devices to be miniaturized in application, and solving the technical difficulties such as its complicated use, high overall cost and reliance on low-temperature operation, the terahertz technology will have a broad market prospect in the fields of biology, medical treatment, communication, military security and so on.

CHALLENGES AND OPPORTUNITIES TO DESIGN FUTURE CROPS: GATEWAY TO SUSTAINABLE AGRICULTURE IN 21ST CENTURY

The global food production system is facing numerous challenges due to factors such as population growth, climate change, limited resources, and environmental preservation. To address these challenges, various strategies can be employed to develop future crops that are more productive, nutritious, and resilient. One strategy is to improve the yield potential of existing crops by developing new high-yielding cultivars. This can be achieved through the development of new varieties that can produce more grain under optimal conditions. Additionally, improving the nutritional quality of crops is important to address nutrient deficiencies. Synthetic biology and metabolic engineering methods can be used to develop crops with enhanced nutritional value. Efficient utilization of agricultural resources is another important aspect of crop improvement. This includes developing crops that use water and nutrients more efficiently, reducing the need for irrigation and fertilizers, and minimizing environmental impacts. Increasing the resistance of crops to pests, diseases, and extreme weather events can also help reduce the use of pesticides and minimize crop losses. The domestication of wild or semi-wild plants through genetic manipulation offers new opportunities for crop design. These plants may have high nutritional value, stress tolerance, and specialized metabolites that can be incorporated into cultivated crops. Similarly, the domestication of orphan or neglected plants can contribute to crop improvement by incorporating unique traits. Genetic improvement through the transfer of genes from wild relatives or other species can also enhance crop productivity. Advancements in genomics and genetic technologies can aid in the identification and transfer of beneficial alleles. Agronomic improvements, such as maximizing the effectiveness of crop protection agents and fertilizers while minimizing their environmental impact, can also contribute to crop performance. The emerging field of synthetic biology offers opportunities for developing novel biological devices and systems that can further enhance crop productivity and resilience. Overall, these strategies can help address the challenges faced by the global food production system.

Linking Aging to Cancer: The Role of Chromatin Biology.

Epigenetic changes have been established to be a hallmark of aging, which implies that aging science requires collaborating with the field of chromatin biology. DNA methylation patterns, changes in relative abundance of histone post-translational modifications (PTMs), and chromatin remodeling are the central players in modifying chromatin structure. Aging is commonly associated with an overall increase in chromatin instability, loss of homeostasis and decondensation. However, numerous publications have highlighted that the link between aging and chromatin changes is not nearly as linear as previously expected. This complex interplay of these epigenetics elements during the lifetime of an organism likely contribute to cellular senescence, genomic instability, and disease susceptibility. Yet, the causal links between these phenomena still need to be fully unraveled. In this perspective article, we discuss potential future directions of aging chromatin biology.

Recent Advances in Magnesium–Magnesium Oxide Nanoparticle Composites for Biomedical Applications

Magnesium (Mg) is considered an attractive option for orthopedic applications due to its density and elastic modulus close to the natural bone of the body, as well as biodegradability and good tensile strength. However, it faces serious challenges, including a high degradation rate and, as a result, a loss of mechanical properties during long periods of exposure to the biological environment. Also, among its other weaknesses, it can be mentioned that it does not deal with bacterial biofilms. It has been found that making composites by synergizing its various components can be an efficient way to improve its properties. Among metal oxide nanoparticles, magnesium oxide nanoparticles (MgO NPs) have distinct physicochemical and biological properties, including biocompatibility, biodegradability, high bioactivity, significant antibacterial properties, and good mechanical properties, which make it a good choice as a reinforcement in composites. However, the lack of comprehensive understanding of the effectiveness of Mg NPs as Mg matrix reinforcements in mechanical, corrosion, and biological fields is considered a challenge in their application. While introducing the role of MgO NPs in medical fields, this article summarizes the most important results of recent research on the mechanical, corrosion, and biological performance of Mg/MgO composites.

A Comprehensive Exploration of Caspase Detection Methods: From Classical Approaches to Cutting-Edge Innovations

The activation of caspases is a crucial event and an indicator of programmed cell death, also known as apoptosis. These enzymes play a central role in cancer biology and are considered one promising target for current and future advancements in therapeutic interventions. Traditional methods of measuring caspase activity such as antibody-based methods provide fundamental insights into their biological functions, and are considered essential tools in the fields of cell and cancer biology, pharmacology and toxicology, and drug discovery. However, traditional methods, though extensively used, are now recognized as having various shortcomings. In addition, these methods fall short of providing solutions to and matching the needs of the rapid and expansive progress achieved in studying caspases. For these reasons, there has been a continuous improvement in detection methods for caspases and the network of pathways involved in their activation and downstream signaling. Over the past decade, newer methods based on cutting-edge state-of-the-art technologies have been introduced to the biomedical community. These methods enable both the temporal and spatial monitoring of the activity of caspases and their downstream substrates, and with enhanced accuracy and precision. These include fluorescent-labeled inhibitors (FLIs) for live imaging, single-cell live imaging, fluorescence resonance energy transfer (FRET) sensors, and activatable multifunctional probes for in vivo imaging. Recently, the recruitment of mass spectrometry (MS) techniques in the investigation of these enzymes expanded the repertoire of tools available for the identification and quantification of caspase substrates, cleavage products, and post-translational modifications in addition to unveiling the complex regulatory networks implicated. Collectively, these methods are enabling researchers to unravel much of the complex cellular processes involved in apoptosis, and are helping generate a clearer and comprehensive understanding of caspase-mediated proteolysis during apoptosis. Herein, we provide a comprehensive review of various assays and detection methods as they have evolved over the years, so to encourage further exploration of these enzymes, which should have direct implications for the advancement of therapeutics for cancer and other diseases.

Single-Atom Iron Doped Carbon Dots with Highly Efficient Electrochemiluminescence for Ultrasensitive Detection of MicroRNAs.

Herein, single-atom iron doped carbon dots (SA Fe-CDs) were successfully prepared as novel electrochemiluminescence (ECL) emitters with high ECL efficiency, and a biosensor was constructed to ultrasensitively detect microRNA-222 (miRNA-222). Importantly, compared with the conventional without single-atom doped CDs with low ECL efficiency, SA Fe-CDs exhibited strong ECL efficiency, in which single-atom iron as an advanced coreactant accelerator could significantly enhance the generation of reactive oxygen species (ROS) from the coreactant S2O82- for improving the ECL efficiency. Moreover, a neoteric amplification strategy combining the improved strand displacement amplification with Nt.BbvCI enzyme-induced target amplification (ISDA-EITA) could produce 4 output DNAs in every cycle, which greatly improved the amplification efficiency. Thus, a useful ECL biosensor was built with a detection limit of 16.60 aM in the range of 100 aM to 1 nM for detecting traces of miRNA-222. In addition, miRNA-222 in cancer cell lysate (MHCC-97L) was successfully detected by using the ECL biosensor. Therefore, this strategy provides highly efficient single-atom doped ECL emitters for the construction of sensitive ECL biosensing platforms in the biological field and clinical diagnosis.

Simultaneous Detection of Adenosine-to-Inosine Editing and N6-Methyladenosine at Identical RNA Sites through Deamination-Assisted Reverse Transcription Stalling.

Adenosine-to-inosine (A-to-I) editing and N6-methyladenosine (m6A) modifications are pivotal RNA modifications with widespread functional significance in physiological and pathological processes. Although significant effort has been dedicated to developing methodologies for identifying and quantifying these modifications, traditional approaches have often focused on each modification independently, neglecting the potential co-occurrence of A-to-I editing and m6A modifications at the same adenosine residues. This limitation has constrained our understanding of the intricate regulatory mechanisms governing RNA function and the interplay between different types of RNA modifications. To address this gap, we introduced an innovative technique called deamination-assisted reverse transcription stalling (DARTS), specifically designed for the simultaneous quantification of A-to-I editing and m6A at the same RNA sites. DARTS leverages the selective deamination activity of the engineered TadA-TadA8e protein, which converts adenosine residues to inosine, in combination with the unique property of Bst 2.0 DNA polymerase, which stalls when encountering inosine during reverse transcription. This approach enables the accurate quantification of A-to-I editing, m6A, and unmodified adenosine at identical RNA sites. The DARTS method is remarkable for its ability to directly quantify two distinct types of RNA modifications simultaneously, a capability that has remained largely unexplored in the field of RNA biology. By facilitating a comprehensive analysis of the co-occurrence and interaction between A-to-I editing and m6A modifications, DARTS opens new avenues for exploring the complex regulatory networks modulated by different RNA modifications.

Early stress exposure on zebrafish development: effects on survival, malformations and molecular alterations.

The effects of stress during early vertebrate development can be especially harmful. Avoiding stressors in fish larvae is essential to ensure the health of adult fish and their reproductive performance and overall production. We examined the consequences of direct exposure to successive acute stressors during early development, including their effects on miR-29a and its targets, survival, hatching and malformation rates, larval behaviour and cartilage and eye development. Our aim was to shed light on the pleiotropic effects of early-induced stress in this vertebrate model species. Our results showed that direct exposure to successive acute stressors during early development significantly upregulated miR-29a and downregulated essential collagen transcripts col2a1a, col6a2 and col11a1a, decreased survival and increased malformation rates (swim bladder, otoliths, cardiac oedema and ocular malformations), promoting higher rates of immobility in larvae. Our results revealed that stress in early stages can induce different eye tissular architecture and cranioencephalic cartilage development alterations. Our research contributes to the understanding of the impact of stressful conditions during the early stages of zebrafish development, serving as a valuable model for vertebrate research. This holds paramount significance in the fields of developmental biology and aquaculture and also highlights miR-29a as a potential molecular marker for assessing novel larval rearing programmes in teleost species.

Fluorescent small molecule donors.

Small molecule donors (SMDs) play subtle roles in the signaling mechanism and disease treatments. While many excellent SMDs have been developed, dosage control, targeted delivery, spatiotemporal feedback, as well as the efficiency evaluation of small molecules are still key challenges. Accordingly, fluorescent small molecule donors (FSMDs) have emerged to meet these challenges. FSMDs enable controllable release and non-invasive real-time monitoring, providing significant advantages for drug development and clinical diagnosis. Integration of FSMDs with chemotherapeutic, photodynamic or photothermal properties can take full advantage of each mode to enhance therapeutic efficacy. Given the remarkable properties and the thriving development of FSMDs, we believe a review is needed to summarize the design, triggering strategies and tracking mechanisms of FSMDs. With this review, we compiled FSMDs for most small molecules (nitric oxide, carbon monoxide, hydrogen sulfide, sulfur dioxide, reactive oxygen species and formaldehyde), and discuss recent progress concerning their molecular design, structural classification, mechanisms of generation, triggered release, structure-activity relationships, and the fluorescence response mechanism. Firstly, from the large number of fluorescent small molecular donors available, we have organized the common structures for producing different types of small molecules, providing a general strategy for the development of FSMDs. Secondly, we have classified FSMDs in terms of the respective donor types and fluorophore structures. Thirdly, we discuss the mechanisms and factors associated with the controlled release of small molecules and the regulation of the fluorescence responses, from which universal guidelines for optical properties and structure rearrangement were established, mainly involving light-controlled, enzyme-activated, reactive oxygen species-triggered, biothiol-triggered, single-electron reduction, click chemistry, and other triggering mechanisms. Fourthly, representative applications of FSMDs for trackable release, and evaluation monitoring, as well as for visible in vivo treatment are outlined, to illustrate the potential of FSMDs in drug screening and precision medicine. Finally, we discuss the opportunities and remaining challenges for the development of FSMDs for practical and clinical applications, which we anticipate will stimulate the attention of researchers in the diverse fields of chemistry, pharmacology, chemical biology and clinical chemistry. With this review, we hope to impart new understanding thereby enabling the rapid development of the next generation of FSMDs.

Equivariant Hopf Bifurcation in a Class of Partial Functional Differential Equations on a Circular Domain

Circular domains frequently appear in mathematical modeling in the fields of ecology, biology and chemistry. In this paper, we investigate the equivariant Hopf bifurcation of partial functional differential equations with Neumann boundary condition on a two-dimensional disk. The properties of these bifurcations at equilibriums are analyzed rigorously by studying the equivariant normal forms. Two reaction–diffusion systems with discrete time delays are selected as numerical examples to verify the theoretical results, in which spatially inhomogeneous periodic solutions including standing waves and rotating waves, and spatially homogeneous periodic solutions are found near the bifurcation points.

Leveraging DNA‐encoded Cell‐mimics for Environment‐adaptive Transmembrane Channel Release‐induced Cell Death

The advancement of cell‐mimic materials, which can forge sophisticated physicochemical dialogues with living cells, has unlocked a realm of intriguing prospects within the fields of synthetic biology and biomedical engineering. Inspired by the evolutionarily acquired ability of T lymphocytes to release perforin and generate transmembrane channels on targeted cells for killing, herein we present a pioneering DNA‐encoded artificial T cell mimic model (ARTC) that accurately mimics T‐cell‐like behavior. ARTC responds to acidic conditions similar to those found in the tumor microenvironment and then selectively releases a G‐rich DNA strand (LG4) embedded with C12 lipid and cholesterol molecules. Once released, LG4 effectively integrates into the membranes of neighboring live cells, behaving as an artificial transmembrane channel that selectively transports K+ ions and disrupts cellular homeostasis, ultimately inducing apoptosis. We hope that the emergence of ARTC will usher in new perspectives for revolutionizing future disease treatment and catalyzing the development of advanced biomedical technologies

The biophysics of water in cell biology: perspectives on a keystone for both marine sciences and cancer research

The biophysics of water, has been debated over more than a century. Although its importance is still underestimated, significant breakthroughs occurred in recent years. The influence of protein condensation on water availability control was documented, new findings on water-transport proteins emerged, and the way water molecules rearrange to minimize free energy at interfaces was deciphered, influencing membrane thermodynamics. The state of knowledge continued to progress in the field of deep-sea marine biology, highlighting unknown effects of high hydrostatic pressure and/or temperature on interactions between proteins and ligands in extreme environments, and membrane structure adaptations. The role of osmolytes in protein stability control under stress is also discussed here in relation to fish egg hydration/buoyancy. The complexity of water movements within the cell is updated, all these findings leading to a better view of their impact on many cellular processes. The way water flow and osmotic gradients generated by ion transport work together to produce the driving force behind cell migration is also relevant to both marine biology and cancer research. Additional common points concern water dynamic changes during the neoplastic transformation of cells and tissues, or embryo development. This could improve imaging techniques, early cancer diagnosis, and understanding of the molecular and physiological basis of buoyancy for many marine species.

Leveraging DNA-encoded Cell-mimics for Environment-adaptive Transmembrane Channel Release-induced Cell Death.

The advancement of cell-mimic materials, which can forge sophisticated physicochemical dialogues with living cells, has unlocked a realm of intriguing prospects within the fields of synthetic biology and biomedical engineering. Inspired by the evolutionarily acquired ability of T lymphocytes to release perforin and generate transmembrane channels on targeted cells for killing, herein we present a pioneering DNA-encoded artificial T cell mimic model (ARTC) that accurately mimics T-cell-like behavior. ARTC responds to acidic conditions similar to those found in the tumor microenvironment and then selectively releases a G-rich DNA strand (LG4) embedded with C12 lipid and cholesterol molecules. Once released, LG4 effectively integrates into the membranes of neighboring live cells, behaving as an artificial transmembrane channel that selectively transports K+ ions and disrupts cellular homeostasis, ultimately inducing apoptosis. We hope that the emergence of ARTC will usher in new perspectives for revolutionizing future disease treatment and catalyzing the development of advanced biomedical technologies.

Molecular Engineering of Functional SiRNA Agents.

Synthetic biology constitutes a scientific domain focused on intentional redesign of organisms to confer novel functionalities or create new products through strategic engineering of their genetic makeup. Leveraging the inherent capabilities of nature, one may address challenges across diverse sectors including medicine. Inspired by this concept, we have developed an innovative bioengineering platform, enabling high-yield and large-scale production of biological small interfering RNA (BioRNA/siRNA) agents via bacterial fermentation. Herein, we show that with the use of a new tRNA fused pre-miRNA carrier, we can produce various forms of BioRNA/siRNA agents within living host cells. We report a high-level overexpression of nine target BioRNA/siRNA molecules at 100% success rate, yielding 3-10 mg of BioRNA/siRNA per 0.25 L of bacterial culture with high purity (>98%) and low endotoxin (<5 EU/μg RNA). Furthermore, we demonstrate that three representative BioRNA/siRNAs against GFP, BCL2, and PD-L1 are biologically active and can specifically and efficiently silence their respective targets with the potential to effectively produce downstream antiproliferation effects by PD-L1-siRNA. With these promising results, we aim to advance the field of synthetic biology by offering a novel platform to bioengineer functional siRNA agents for research and drug development.

Acoustofluidic scanning fluorescence nanoscopy with a large field of view

Large-field nanoscale fluorescence imaging is invaluable for many applications, such as imaging subcellular structures, visualizing protein interactions, and high-resolution tissue imaging. Unfortunately, conventional fluorescence microscopy requires a trade-off between resolution and field of view due to the nature of the optics used to form the image. To overcome this barrier, we developed an acoustofluidic scanning fluorescence nanoscope that simultaneously achieves superior resolution, a large field of view, and strong fluorescent signals. The acoustofluidic scanning fluorescence nanoscope utilizes the superresolution capabilities of microspheres that are controlled by a programmable acoustofluidic device for rapid fluorescence enhancement and imaging. The acoustofluidic scanning fluorescence nanoscope resolves structures that cannot be resolved with conventional fluorescence microscopes with the same objective lens and enhances the fluorescent signal by a factor of ~5 without altering the field of view of the image. The improved resolution realized with enhanced fluorescent signals and the large field of view achieved via acoustofluidic scanning fluorescence nanoscopy provides a powerful tool for versatile nanoscale fluorescence imaging for researchers in the fields of medicine, biology, biophysics, and biomedical engineering.

Predicting the age of field Anopheles mosquitoes using mass spectrometry and deep learning.

Mosquito-borne diseases like malaria are rising globally, and improved mosquito vector surveillance is needed. Survival of Anopheles mosquitoes is key for epidemiological monitoring of malaria transmission and evaluation of vector control strategies targeting mosquito longevity, as the risk of pathogen transmission increases with mosquito age. However, the available tools to estimate field mosquito age are often approximate and time-consuming. Here, we show a rapid method that combines matrix-assisted laser desorption/ionization-time-of-flight mass spectrometry with deep learning for mosquito age prediction. Using 2763 mass spectra from the head, legs, and thorax of 251 field-collected Anopheles arabiensis mosquitoes, we developed deep learning models that achieved a best mean absolute error of 1.74 days. We also demonstrate consistent performance at two ecological sites in Senegal, supported by age-related protein changes. Our approach is promising for malaria control and the field of vector biology, benefiting other disease vectors like Aedes mosquitoes.

The influence of spheroid maturity on fusion dynamics and micro-tissue assembly in 3D tumor models

Three-dimensional (3D) cell culture has been used in many fields of biology because of its unique advantages. As a representative of the 3D systems, 3D spheroids are used as building blocks for tissue construction. Larger tumor aggregates can be assembled by manipulating or stacking the tumor spheroids. The motivation of this study is to investigate the behavior of the cells distributed at different locations of the spheroids in the fusion process and the mechanism behind it. To this aim, spheroids with varying grades of maturity or age were generated for fusion to assemble micro-tumor tissues. The dynamics of the fusion process, the motility of the cells distributed in different heterogeneous architecture sites, and their reactive oxygen species profiles were studied. We found that the larger the spheroid necrotic core, the slower the fusion rate of the spheroid. The cells that move were mainly distributed on the spheroid’s surface during fusion. In addition to dense microfilament distribution and low microtubule content, the reactive oxygen content was high in the fusion site, while the non-fusion site was the opposite. Last, multi-spheroids with different maturities were fused to complex micro-tissues to mimic solid tumors and evaluate Doxorubicin’s anti-tumor efficacy.

Genomic Advancement in Wheat (Triticum aestivum L.): Harnessing Technological Breakthroughs for Future Strategies

Wheat can be greatly improved by identifying genes that are significant to agronomy. Although progress in wheat genetics and genomics has been limited by the genome’s vast size and complexity. Wheat has a high-quality genome sequence in light of recent developments in genome sequencing and sequence assembly. Here, we propose that wheat biology can benefit from the same approaches that have been used to define biological systems in model species, such as the generation and characterization of mutants, methods for gene cloning, and enhanced transgenic technology. These tactics will encourage the establishment of wheat breeding programs and hasten the field of wheat biology. We also summarize current developments in functional genomics of wheat. In order to contribute to global food security, we conclude by talking about the future of wheat functional genomics and the sensible design-based molecular breeding of new wheat varieties. We suggest that researchers studying wheat should embrace the methods utilized for functional genomic analysis in other model species. One method for doing this is using gene cloning to find the gene causing an intriguing phenotype, deciphering the biological role of genes through the analysis of their corresponding mutants, and creating a related wheat mutant from the proposed wild-type gene to confirm the target gene’s functionality.

Self-similarity and synthetic biology: a possible fractal anticipation

ABSTRACT In the field of synthetic biology, a promissory technoscience, researchers use risk-based and speculative scenarios to anticipate synthetic biology futures. Yet, there is a sense in the field of history repeating as synthetic biologists repeatedly deal with similar challenges. Perhaps a focus on contemplating the unexpected and attempts to deal with complex futures comes with a failure, paradoxically, to prepare sufficiently for the expected. This study develops a conceptual framework derived from fractals and analyses data from ethnographic involvement in the field synthetic biology to reimagine how patterns in synthetic biology practices repeat at different orders of scale. This study begins with the ‘pressure testing’ of a biofoundry and shows how synthetic biology repeats at different scales of organisation, interaction and time. The case is made for a possible fractal anticipation which would have the capacity to identify patterns and support innovators, social scientists and researchers to be better prepared for encountering similar developments at different orders of magnitude.