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"Mohammad, Anwar"
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Salinity Stress in Wheat (Triticum aestivum L.) in the Changing Climate: Adaptation and Management Strategies
Wheat constitutes pivotal position for ensuring food and nutritional security; however, rapidly rising soil and water salinity pose a serious threat to its production globally. Salinity stress negatively affects the growth and development of wheat leading to diminished grain yield and quality. Wheat plants utilize a range of physiological biochemical and molecular mechanisms to adapt under salinity stress at the cell, tissue as well as whole plant levels to optimize the growth, and yield by off-setting the adverse effects of saline environment. Recently, various adaptation and management strategies have been developed to reduce the deleterious effects of salinity stress to maximize the production and nutritional quality of wheat. This review emphasizes and synthesizes the deleterious effects of salinity stress on wheat yield and quality along with highlighting the adaptation and mitigation strategies for sustainable wheat production to ensure food security of skyrocketing population under changing climate.
Journal Article
Structure-guided engineering and molecular simulations to design a potent monoclonal antibody to target aP2 antigen for adaptive immune response instigation against type 2 diabetes
Diabetes mellitus (DM) is recognized as one of the oldest chronic diseases and has become a significant public health issue, necessitating innovative therapeutic strategies to enhance patient outcomes. Traditional treatments have provided limited success, highlighting the need for novel approaches in managing this complex disease.
In our study, we employed graph signature-based methodologies in conjunction with molecular simulation and free energy calculations. The objective was to engineer the CA33 monoclonal antibody for effective targeting of the aP2 antigen, aiming to elicit a potent immune response. This approach involved screening a mutational landscape comprising 57 mutants to identify modifications that yield significant enhancements in binding efficacy and stability.
Analysis of the mutational landscape revealed that only five substitutions resulted in noteworthy improvements. Among these, mutations T94M, A96E, A96Q, and T94W were identified through molecular docking experiments to exhibit higher docking scores compared to the wild-type. Further validation was provided by calculating the dissociation constant (K
), which showed a similar trend in favor of these mutations. Molecular simulation analyses highlighted T94M as the most stable complex, with reduced internal fluctuations upon binding. Principal components analysis (PCA) indicated that both the wild-type and T94M mutant displayed similar patterns of constrained and restricted motion across principal components. The free energy landscape analysis underscored a single metastable state for all complexes, indicating limited structural variability and potential for high therapeutic efficacy against aP2. Total binding free energy (TBE) calculations further supported the superior performance of the T94M mutation, with TBE values demonstrating the enhanced binding affinity of selected mutants over the wild-type.
Our findings suggest that the T94M substitution, along with other identified mutations, significantly enhances the therapeutic potential of the CA33 antibody against DM by improving its binding affinity and stability. These results not only contribute to a deeper understanding of antibody-antigen interactions in the context of DM but also provide a valuable framework for the rational design of antibodies aimed at targeting this disease more effectively.
Journal Article
SARS-CoV-2: Possible recombination and emergence of potentially more virulent strains
COVID-19 is challenging healthcare preparedness, world economies, and livelihoods. The infection and death rates associated with this pandemic are strikingly variable in different countries. To elucidate this discrepancy, we analyzed 2431 early spread SARS-CoV-2 sequences from GISAID. We estimated continental-wise admixture proportions, assessed haplotype block estimation, and tested for the presence or absence of strains’ recombination. Herein, we identified 1010 unique missense mutations and seven different SARS-CoV-2 clusters. In samples from Asia, a small haplotype block was identified, whereas samples from Europe and North America harbored large and different haplotype blocks with nonsynonymous variants. Variant frequency and linkage disequilibrium varied among continents, especially in North America. Recombination between different strains was only observed in North American and European sequences. In addition, we structurally modelled the two most common mutations, Spike_D614G and Nsp12_P314L, which suggested that these linked mutations may enhance viral entry and replication, respectively. Overall, we propose that genomic recombination between different strains may contribute to SARS-CoV-2 virulence and COVID-19 severity and may present additional challenges for current treatment regimens and countermeasures. Furthermore, our study provides a possible explanation for the substantial second wave of COVID-19 presented with higher infection and death rates in many countries.
Journal Article
Proboscis lateralis with trans-ethmoidal meningocele and congenital nostril hypoplasia: a case report and literature review
Proboscis lateralis is an uncommon craniofacial malformation characterized by the presence of a rudimentary tubular nasal appendage originating from the medial canthal region. The degree of severity varies according to the extent of associated structural involvement, which may include ocular and nasal abnormalities, cleft lip and/or palate, and concurrent intracranial anomalies. Multidisciplinary approach is the mainstay of definite management. We report the case of a 4-month-old infant who presented with a 3-cm tubular lesion arising from the right medial canthus. The lesion contained a central opening with intermittent cerebrospinal fluid leakage, particularly during episodes of crying or straining. The patient was initially misdiagnosed with an ophthalmic disorder and underwent multiple referrals before definitive evaluation at our unit. Computed tomography revealed herniation of a portion of the right frontal lobe through a 2 × 1 cm bony defect into the preseptal region. The lesion was excised, and the fascial defect was repaired following plastic and reconstructive surgical principles. Postoperative recovery was uneventful, and the patient was discharged in stable condition 48 h later. Corrective management of the right hypoplastic nostril was deferred until late adolescence to address potential functional or cosmetic concerns.
Journal Article
Salt stress proteins in plants: An overview
Salinity stress is considered the most devastating abiotic stress for crop productivity. Accumulating different types of soluble proteins has evolved as a vital strategy that plays a central regulatory role in the growth and development of plants subjected to salt stress. In the last two decades, efforts have been undertaken to critically examine the genome structure and functions of the transcriptome in plants subjected to salinity stress. Although genomics and transcriptomics studies indicate physiological and biochemical alterations in plants, it do not reflect changes in the amount and type of proteins corresponding to gene expression at the transcriptome level. In addition, proteins are a more reliable determinant of salt tolerance than simple gene expression as they play major roles in shaping physiological traits in salt-tolerant phenotypes. However, little information is available on salt stress-responsive proteins and their possible modes of action in conferring salinity stress tolerance. In addition, a complete proteome profile under normal or stress conditions has not been established yet for any model plant species. Similarly, a complete set of low abundant and key stress regulatory proteins in plants has not been identified. Furthermore, insufficient information on post-translational modifications in salt stress regulatory proteins is available. Therefore, in recent past, studies focused on exploring changes in protein expression under salt stress, which will complement genomic, transcriptomic, and physiological studies in understanding mechanism of salt tolerance in plants. This review focused on recent studies on proteome profiling in plants subjected to salinity stress, and provide synthesis of updated literature about how salinity regulates various salt stress proteins involved in the plant salt tolerance mechanism. This review also highlights the recent reports on regulation of salt stress proteins using transgenic approaches with enhanced salt stress tolerance in crops.
Journal Article
Time series analysis of malaria in Afghanistan: using ARIMA models to predict future trends in incidence
Background
Malaria remains endemic in Afghanistan. National control and prevention strategies would be greatly enhanced through a better ability to forecast future trends in disease incidence. It is, therefore, of interest to develop a predictive tool for malaria patterns based on the current passive and affordable surveillance system in this resource-limited region.
Methods
This study employs data from Ministry of Public Health monthly reports from January 2005 to September 2015. Malaria incidence in Afghanistan was forecasted using autoregressive integrated moving average (ARIMA) models in order to build a predictive tool for malaria surveillance. Environmental and climate data were incorporated to assess whether they improve predictive power of models.
Results
Two models were identified, each appropriate for different time horizons. For near-term forecasts, malaria incidence can be predicted based on the number of cases in the four previous months and 12 months prior (Model 1); for longer-term prediction, malaria incidence can be predicted using the rates 1 and 12 months prior (Model 2). Next, climate and environmental variables were incorporated to assess whether the predictive power of proposed models could be improved. Enhanced vegetation index was found to have increased the predictive accuracy of longer-term forecasts.
Conclusion
Results indicate ARIMA models can be applied to forecast malaria patterns in Afghanistan, complementing current surveillance systems. The models provide a means to better understand malaria dynamics in a resource-limited context with minimal data input, yielding forecasts that can be used for public health planning at the national level.
Journal Article
Optimisation of Second-Generation Biodiesel Production from Australian Native Stone Fruit Oil Using Response Surface Method
In this study, the production process of second-generation biodiesel from Australian native stone fruit have been optimised using response surface methodology via an alkali catalysed transesterification process. This process optimisation was performed varying three factors, each at three different levels. Methanol: oil molar ratio, catalyst concentration (wt %) and reaction temperature were the input factors in the optimisation process, while biodiesel yield was the key model output. Both 3D surface plots and 2D contour plots were developed using MINITAB 18 to predict optimum biodiesel yield. Gas chromatography (GC) and Fourier transform infrared (FTIR) analysis of the resulting biodiesel was also done for biodiesel characterisation. To predict biodiesel yield a quadratic model was created and it showed an R2 of 0.98 indicating the satisfactory performance of the model. Maximum biodiesel yield of 95.8% was obtained at a methanol: oil molar ratio of 6:1, KOH catalyst concentration of 0.5 wt % and a reaction temperature of 55 °C. At these reaction conditions, the predicted biodiesel yield was 95.9%. These results demonstrate reliable prediction of the transesterification process by Response surface methodology (RSM). The results also show that the properties of the synthesised Australian native stone fruit biodiesel satisfactorily meet the ASTM D6751 and EN14214 standards. In addition, the fuel properties of Australian native stone fruit biodiesel were found to be similar to those of conventional diesel fuel. Thus, it can be said that Australian native stone fruit seed oil could be used as a potential second-generation biodiesel source as well as an alternative fuel in diesel engines.
Journal Article