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"Gul, S."
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Current concepts in the pathogenesis of periodontitis: from symbiosis to dysbiosis
2023
The primary etiological agent for the initiation and progression of periodontal disease is the dental plaque biofilm which is an organized aggregation of microorganisms residing within a complex intercellular matrix. The non-specific plaque hypothesis was the first attempt to explain the role of the dental biofilm in the pathogenesis of periodontal diseases. However, the introduction of sophisticated diagnostic and laboratory assays has led to the realisation that the development of periodontitis requires more than a mere increase in the biomass of dental plaque. Indeed, multispecies biofilms exhibit complex interactions between the bacteria and the host. In addition, not all resident microorganisms within the biofilm are pathogenic, since beneficial bacteria exist that serve to maintain a symbiotic relationship between the plaque microbiome and the host's immune-inflammatory response, preventing the emergence of pathogenic microorganisms and the development of dysbiosis. This review aims to highlight the development and structure of the dental plaque biofilm and to explore current literature on the transition from a healthy (symbiotic) to a diseased (dysbiotic) biofilm in periodontitis and the associated immune-inflammatory responses that drive periodontal tissue destruction and form mechanistic pathways that impact other systemic non-communicable diseases.
Journal Article
Coping with Stresses: Roles of Calcium- and Calcium/Calmodulin-Regulated Gene Expression
by
Celesnik, Helena
,
Ali, Gul S.
,
Reddy, Anireddy S.N.
in
abiotic stress
,
Adaptation, Physiological
,
Adaptation, Physiological - genetics
2011
Abiotic and biotic stresses are major limiting factors of crop yields and cause billions of dollars of losses annually around the world. It is hoped that understanding at the molecular level how plants respond to adverse conditions and adapt to a changing environment will help in developing plants that can better cope with stresses. Acquisition of stress tolerance requires orchestration of a multitude of biochemical and physiological changes, and most of these depend on changes in gene expression. Research during the last two decades has established that different stresses cause signal-specific changes in cellular Ca²⁺ level, which functions as a messenger in modulating diverse physiological processes that are important for stress adaptation. In recent years, many Ca²⁺ and Ca²⁺/calmodulin (CaM) binding transcription factors (TFs) have been identified in plants. Functional analyses of some of these TFs indicate that they play key roles in stress signaling pathways. Here, we review recent progress in this area with emphasis on the roles of Ca²⁺-and Ca²⁺ /CaMregulated transcription in stress responses. We will discuss emerging paradigms in the field, highlight the areas that need further investigation, and present some promising novel high-throughput tools to address Ca²⁺-regulated transcriptional networks.
Journal Article
CONFORMAL IMAGE REGISTRATION USING THE DISCRETIZED CAUCHY–RIEMANN EQUATIONS
2025
Conformal image registration has always been an area of interest among modern researchers, particularly in the field of medical imaging. The idea of image registration is not new. In fact, it was coined nearly 100 years ago by the pioneer D’Arcy Wentworth Thompson, who conjectured the idea of image registration among the biological forms. According to him, several images of different species are related by a conformal transformations. Thompson’s examples motivated us to explore his claim using image registration. In this paper, we present a conformal image registration (for the two-dimensional grey scaled images) along with a penalty term. This penalty term, which is based on the Cauchy–Riemann equations, aims to enforce the conformality.
Journal Article
Comprehensive comparison between artificial intelligence and multiple regression: prediction of Palmerston North’s temperature
2025
New Zealand is a country of islands consisting of two prominent landmasses: the North Island and the South Island. It is the sixth-largest island country in the eastern part of Australia. The South Island is generally cooler than the North Island, resulting in a temperature range in the South that lags behind that of the northern region. Palmerston North is located in the lower part of the North Island, along with the capital city, Wellington. In this study, we predict the temperature data for Palmerston North using initial temperature data from four neighboring cities: Napier, New Plymouth, Taupo, and Wellington. We then reduce the analysis to three cities by excluding Taupo. The temperature data spans from 1971 to 2019 for our investigation. Three alternative algorithms have been developed and applied to the dataset: an artificial neural network (ANN) with a single hidden layer, multiple regression, and supervised machine learning. We found that all three algorithms performed well, successfully predicting the desired temperature data. To evaluate the performance of these models, we analysed the errors between the true values and the predicted values for the study dataset, which included the mean squared error (0.00016, 0.00016, & 0.00012, respectively) and the modeling efficiency (0.9883, 0.9988, & 0.9991, respectively), among others. We found that multiple linear regression and supervised machine learning slightly outperformed the ANN. All algorithms were executed in Python 3.9.16 under the Anaconda platform.
Journal Article
An Evidence-Based Update on the Molecular Mechanisms Underlying Periodontal Diseases
2020
Several investigators have reported about the intricate molecular mechanism underlying periodontal diseases (PD). Nevertheless, the role of specific genes, cells, or cellular mechanisms involved in the pathogenesis of periodontitis are still unclear. Although periodontitis is one of the most prevalent oral diseases globally, there are no pre-diagnostic markers or therapeutic targets available for such inflammatory lesions. A pivotal role is played by pro- and anti-inflammatory markers in modulating pathophysiological and physiological processes in repairing damaged tissues. In addition, effects on osteoimmunology is ever evolving due to the ongoing research in understanding the molecular mechanism lying beneath periodontal diseases. The aim of the current review is to deliver an evidence-based update on the molecular mechanism of periodontitis with a particular focus on recent developments. Reports regarding the molecular mechanism of these diseases have revealed unforeseen results indicative of the fact that significant advances have been made to the periodontal medicine over the past decade. There is integrated hypothesis-driven research going on. Although a wide picture of association of periodontal diseases with immune response has been further clarified with present ongoing research, small parts of the puzzle remain a mystery and require further investigations.
Journal Article
Ca(2+)/calmodulin regulates salicylic-acid-mediated plant immunity
by
Yang, Tianbao
,
Ali, Gul S
,
Simons, Kayla A
in
Arabidopsis - genetics
,
Arabidopsis - immunology
,
Arabidopsis - metabolism
2009
Intracellular calcium transients during plant-pathogen interactions are necessary early events leading to local and systemic acquired resistance. Salicylic acid, a critical messenger, is also required for both of these responses, but whether and how salicylic acid level is regulated by Ca(2+) signalling during plant-pathogen interaction is unclear. Here we report a mechanism connecting Ca(2+) signal to salicylic-acid-mediated immune response through calmodulin, AtSR1 (also known as CAMTA3), a Ca(2+)/calmodulin-binding transcription factor, and EDS1, an established regulator of salicylic acid level. Constitutive disease resistance and elevated levels of salicylic acid in loss-of-function alleles of Arabidopsis AtSR1 suggest that AtSR1 is a negative regulator of plant immunity. This was confirmed by epistasis analysis with mutants of compromised salicylic acid accumulation and disease resistance. We show that AtSR1 interacts with the promoter of EDS1 and represses its expression. Furthermore, Ca(2+)/calmodulin-binding to AtSR1 is required for suppression of plant defence, indicating a direct role for Ca(2+)/calmodulin in regulating the function of AtSR1. These results reveal a previously unknown regulatory mechanism linking Ca(2+) signalling to salicylic acid level.
Journal Article
Diagnostic Accuracy of Oral Fluids Biomarker Profile to Determine the Current and Future Status of Periodontal and Peri-Implant Diseases
by
Sha, Aram M.
,
Gul, Sarhang S.
,
Abdulkareem, Ali A.
in
Alzheimer's disease
,
Biomarkers
,
Classification
2020
Severe periodontitis is ranked as the sixth most prevalent disease affecting humankind, with an estimated 740 million people affected worldwide. The diagnosis of periodontal diseases mainly relies upon assessment of conventional clinical parameters. However, these parameters reflect past, rather than current, clinical status or future disease progression and, likely, outcome of periodontal treatment. Specific and sensitive biomarkers for periodontal diseases have been examined widely to address these issues and some biomarkers have been translated as point-of-care (PoC) tests. The aim of this review was to provide an update on PoC tests for use in the diagnosis and management of periodontal diseases. Among the PoC tests developed so far, active matrix metalloproteinase-8 has shown promising results in terms of diagnostic and prognostic values. However, further studies are required to increase the sensitivity and specificity via combining more than one biomarker and merging these test kits with periodontal risk assessment tools. Furthermore, the validity of these test kits needs to be investigated by applying the results in further independent studies and the impact on these test kits’, together with the results of risk factors for periodontal diseases, such as diabetes and smoking, also needs to be examined.
Journal Article
Reclaimed wastewater as an ally to global freshwater sources: a PESTEL evaluation of the barriers
2021
Together with climate change, rising living standards throughout the world have put pressure on existing freshwater sources and increased global water scarcity. The reclaimed wastewater projects face obstacles in sustainable implementation. This paper reviews Political, Economic, Social, Technological, Environmental and Legal (PESTEL) factors that act as barriers to the successful implementation of the reclaimed wastewater. Owing to COVID-19, pandemic and presence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in wastewater, future consequences on operations and public acceptance of reclaimed wastewater systems are discussed. This review will be useful for water experts, researchers and project planners for appropriate measures in future wastewater reuse projects.
Journal Article
Diversity, distribution and relative abundance of the mosquito fauna (Diptera: Culicidae) of Malakand and Dir Lower, Pakistan
2023
Abstract The present study was conducted to evaluate the diversity, distribution (C) and relative abundance (RA) of the mosquito fauna (Diptera: Culicidae) of Malakand and Dir Lower, Pakistan. Collection of specimens (n = 1087) was made during September 2018 to July 2019 at six different habitats including freshwater bodies, rice fields, animal sheds, indoors, drains and sewage waters. Specimens were collected through light traps, pyrethrum spray, aspirators and nets and subsequently killed, preserved and then arranged in entomological boxes for identification. Three genera were identified namely Culex, Anopheles and Aedes. A total of fourteen species were identified namely: Cx. quinquefasciatus (Say, 1823), An. stephensi (Liston, 1901), Cx. tritaeniorhynchus (Giles, 1901), Ae. vittatus (Bigot, 1861), An. maculatus (Theobald, 1901), An. fluviatilis (James, 1902), Cx. vishnui (Theobald, 1901), Ae. aegypti (Linnaeus, 1762) An. subpictus (Grassi, 1899), An. dthali (Patton, 1905), An. culicifascies (Giles, 1901), An. pallidus (Theobald, 1901), Ae. albopictus (Skuse, 1894) and An. annularis (van der Wulp, 1884). Cx. quinquefasciatus was found constantly distributed in the study area with RA = 16.5% and C = 100%. An. annularis was found as a satellite species, sporadically distributed in the study area having RA = 0.9% and C = 17%. Diversity indices of mosquitoes in the studied habitats were found as, Shannon-Wiener Index (2.415), Simpson Index (9.919), Fisher’s Index (2.269) and Margalef’s Index (1.859). A statistically significant difference was recorded in mosquito diversity in the six habitats (Kruskal-Wallis, chi-squared, H = 17.5, df = 5, P = 0.003 at α = 0.05). The present study encompasses mosquito fauna of Malakand, Pakistan with respect to diversity, relative abundance and distribution in diverse habitats and all seasons of the year. This will assist scientists working in various fields related with epidemiology, medical and veterinary entomology, ecology and allied areas of biological sciences. Resumo O presente estudo foi conduzido para avaliar a diversidade, distribuição (C) e abundância relativa (RA) da fauna de mosquitos (Diptera: Culicidae) de Malakand e Dir Lower, Paquistão. A coleta de espécimes (n = 1087) foi feita durante o período de setembro de 2018 a julho de 2019 em seis habitats diferentes, incluindo corpos d’água, campos de arroz, galpões de animais, ambientes internos, ralos e águas residuais. Os espécimes foram coletados por meio de armadilhas luminosas, spray de piretro, aspiradores e redes e posteriormente mortos, preservados e depois dispostos em caixas entomológicas para identificação. Três gêneros foram identificados, nomeadamente Culex, Anopheles e Aedes. Um total de 14 espécies foi identificado, a saber: Cx. quinquefasciatus (Say, 1823), An. stephensi (Liston, 1901), Cx. tritaeniorhynchus (Giles, 1901), Ae. vittatus (Bigot, 1861), An. maculatus (Theobald, 1901), An. fluviatilis (James, 1902), Cx. vishnui (Theobald, 1901), Ae. aegypti (Linnaeus, 1762), An. subpictus (Grassi, 1899), An. dthali (Patton, 1905), An. culicifascies (Giles, 1901), An. pallidus (Theobald, 1901), Ae. albopictus (Skuse, 1894) e An. annularis (Van der Wulp, 1884). Cx. quinquefasciatus foi encontrado constantemente distribuído na área de estudo com AR = 16,5% e C = 100%. A. annularis foi encontrada como espécie satélite, distribuída esporadicamente na área de estudo com RA = 0,9% e C = 17%. Os índices de diversidade de mosquitos nos habitats estudados foram encontrados como índice de Shannon-Wiener (2,415), índice de Simpson (9,919), índice de Fisher (2,269) e índice de Margalef (1,859). Uma diferença estatisticamente significativa foi registrada na diversidade de mosquitos nos seis habitats (Kruskal-Wallis, qui-quadrado, H = 17,5, df = 5, P = 0,003 em α = 0,05). O presente estudo abrange a fauna de mosquitos de Malakand, Paquistão, com respeito à diversidade, abundância relativa e distribuição em diversos habitats e em todas as estações do ano. Isso ajudará os cientistas que trabalham em vários campos relacionados com a epidemiologia, entomologia médica e veterinária, ecologia e áreas afins das ciências biológicas.
Journal Article
Ca2+/calmodulin regulates salicylic-acid-mediated plant immunity
by
Yang, Tianbao
,
Ali, Gul S
,
Simons, Kayla A
in
Arabidopsis thaliana
,
bacterial diseases of plants
,
Bacterial plant pathogens
2009
Intracellular calcium transients during plant-pathogen interactions are necessary early events leading to local and systemic acquired resistance. Salicylic acid, a critical messenger, is also required for both of these responses, but whether and how salicylic acid level is regulated by Ca2+ signalling during plant-pathogen interaction is unclear. Here we report a mechanism connecting Ca2+ signal to salicylic-acid-mediated immune response through calmodulin, AtSR1 (also known as CAMTA3), a Ca2+/calmodulin-binding transcription factor, and EDS1, an established regulator of salicylic acid level. Constitutive disease resistance and elevated levels of salicylic acid in loss-of-function alleles of Arabidopsis AtSR1 suggest that AtSR1 is a negative regulator of plant immunity. This was confirmed by epistasis analysis with mutants of compromised salicylic acid accumulation and disease resistance. We show that AtSR1 interacts with the promoter of EDS1 and represses its expression. Furthermore, Ca2+/calmodulin-binding to AtSR1 is required for suppression of plant defence, indicating a direct role for Ca2+/calmodulin in regulating the function of AtSR1. These results reveal a previously unknown regulatory mechanism linking Ca2+ signalling to salicylic acid level.
Journal Article