Unpolarized laser method for infrared spectrum calculation of amide I CO bonds in proteins using molecular dynamics simulation

The investigation of the strong infrared (IR)-active amide I modes of peptides and proteins has received considerable attention because a wealth of detailed information on hydrogen bonding, dipole-dipole interactions, and the conformations of the peptide backbone can be derived from the amide I bands. The interpretation of experimental spectra typically requires substantial theoretical support, such as direct ab-initio molecular dynamics simulation or mixed quantum-classical description. However, considering the difficulties associated with these theoretical methods and their applications are limited in small peptides, it is highly desirable to develop a simple yet efficient approach for simulating the amide I modes of any large proteins in solution. In this work, we proposed a comprehensive computational method that extends the well-established molecular dynamics (MD) simulation method to include an unpolarized IR laser for exciting the CO bonds of proteins. We showed the amide I frequency corresponding to the frequency of the laser pulse which resonated with the CO bond vibration. At this frequency, the protein energy and the CO bond length fluctuation were maximized. Overall, the amide I bands of various single proteins and amyloids agreed well with experimental data. The method has been implemented into the AMBER simulation package, making it widely available to the scientific community. Additionally, the application of the method to simulate the transient amide I bands of amyloid fibrils during the IR laser-induced disassembly process was discussed in details.

Dosimetry

The dosimeters used to measure radiation dose produce a value which has to be calibrated to be in keeping with the values in an approved laboratory, which will be one of an international network of such laboratories at the center of which is the Bureau International des Poids et Mesures in France (BIPM). Dosimeters work by producing a quantitatively proportional change in status to the intensity of the radiation being measure. Amongst the techniques in use are thermoluminescent devices, radiographic film, radiochromic film, semiconductors, ionization chambers, silicon diodes and gel dosimeters. The Gamma Knife radiation has been difficult to measure directly because the beams have been to fine for accurate measurement by commonly available dosimeters. For more modern dosimeters this is less of a problem. During the treatment of a patient, a variety of indices are recorded to assist in the standardization and accuracy of treatment. Having determined the dose in the beams, it is necessary to calculate how much energy is lost during the passage of radiation from the source to the target. There has been a steady evolution of these calculations to make them more accurate.

Design and performance evaluation of a photocatalytic reactor for indoor air disinfection

Since COVID-19 pandemic, indoor air quality control has become a priority, and the development of air purification devices effective for disinfecting airborne viruses and bacteria is of outmost relevance. In this work, a photocatalytic device for the removal of airborne microorganisms is presented. It is an annular reactor filled with TiO₂-coated glass rings and irradiated internally and externally by UV-A lamps. B. subtilis spores and vegetative cells have been employed as model biological pollutants. Three types of assays with aerosolized bacterial suspensions were performed to evaluate distinct purification processes: filtration, photocatalytic inactivation in the air phase, and photocatalytic inactivation over the TiO₂-coated rings. The radiation distribution inside the reactor was analysed by performing Monte Carlo simulations of photon absorption in the photocatalytic bed. Complete removal of a high load of microorganisms in the air stream could be achieved in 1 h. Nevertheless, inactivation of retained bacteria in the reactor bed required longer irradiation periods: after 8 h under internal and external irradiation, the initial concentration of retained spores and vegetative cells was reduced by 68% and 99%, respectively. Efficiency parameters were also calculated to evaluate the influence of the irradiation conditions on the photocatalytic inactivation of bacteria attached at the coated rings.

Inter-relationship between intercepted radiation and rice yield influenced by transplanting time, method, and variety

Photosynthetically active radiation (PAR) is one of the most important environmental factors that determine the productivity and grain quality of the crops. Continuous rainy days or cloudy weather throughout crop growth especially at critical stages often resulted in great loss of grain quality and yield in rice. Low light stress has rigorously constrained the rice production in various rice-growing regions, especially in Southeast Asia. Method and time of planting are the major management factors contributing to the higher yield potential of rice by influencing light harvesting and use efficiency. Present study was executed consecutively for 5 years (kharif seasons of 2012-2016) to determine whether planting time improves the radiation absorption and use efficiency in different duration rice cultivars. We evaluated the difference in plant growth and development leading to yield formation under different planting time which related to radiation incidence and interception. The results of the study revealed that PAR interception depends on morphological characters of cultivars and also with agronomic management such as transplanting time and method. Long duration cultivar intercepted more PAR but interception decreased due to late planting (3rd week of July), whereas short duration cultivars (Naveen) when planted earlier (1st week of June) could not effectively utilize intercepted PAR constraining the biomass accumulation and yield formation. Effect of planting density and crop architecture on PAR absorption was apparent among establishment methods as light interception at crop canopy was highest in the system of rice intensification and lowest in that of wet direct seeding. In general, Pooja as a long duration cultivar intercepted more PAR per day but when compared on same date of planting, the comparative absorption of radiation was 30.6% higher in Naveen. The lower yields in the wet season are attributed mostly to reduction in grain number per panicle or per unit land area, which is a consequence of high spikelet sterility. Grain yield of rice planted in July third week was reduced by 3.8, 12.3, and 6.9% over June first and third week and July first week, respectively, mainly due to spikelet sterility (26%) and lower grains per panicle (18%). Our results indicated that agronomic management like optimum time of sowing, cultivar duration, and establishment methods should be followed for yield improvement in tropical lowlands where light intensity is limiting due to prevailing weather situations.