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Autism spectrum disorder (ASD) is a heterogeneous neurodevelopmental disorder characterized by paradoxical phenotypes of deficits as well as gain in brain function. To address this a genomic tradeoff hypothesis was tested and followed up with the biological interaction and evolutionary significance of positively selected ASD risk genes. SFARI database was used to retrieve the ASD risk genes while for population datasets 1000 genome data was used. Common risk SNPs were subjected to machine learning as well as independent tests for selection, followed by Bayesian analysis to identify the cumulative effect of selection on risk SNPs. Functional implication of these positively selected risk SNPs was assessed and subjected to ontology analysis, pertaining to their interaction and enrichment of biological and cellular functions. This was followed by comparative analysis with the ancient genomes to identify their evolutionary patterns. Our results identified significant positive selection signals in 18 ASD risk SNPs. Functional and ontology analysis indicate the role of biological and cellular processes associated with various brain functions. The core of the biological interaction network constitutes genes for cognition and learning while genes in the periphery of the network had direct or indirect impact on brain function. Ancient genome analysis identified de novo and conserved evolutionary selection clusters. The de-novo evolutionary cluster represented genes involved in cognitive function. Relative enrichment of the ASD risk SNPs from the respective evolutionary cluster or biological interaction networks may help in addressing the phenotypic diversity in ASD. This cognitive genomic tradeoff signatures impacting the biological networks can explain the paradoxical phenotypes in ASD.

Rhizoctonia solani , the causal agent of banded leaf and sheath blight (BL&SB), poses a significant threat to maize and various crops globally. The increasing concerns surrounding the environmental and health impacts of chemical fungicides have encouraged intensified concern in the development of biological control agents (BCAs) as eco-friendly alternatives. In this study, we explored the potential of 22 rhizobacteria strains (AS1–AS22) isolates, recovered from the grasslands of the Pithoragarh region in the Central Himalayas, as effective BCAs against BL&SB disease. Among these strains, two Pseudomonas isolates, AS19 and AS21, exhibited pronounced inhibition of fungal mycelium growth in vitro, with respective inhibition rates of 57.04% and 54.15% in cell cultures and 66.56% and 65.60% in cell-free culture filtrates. Additionally, both strains demonstrated effective suppression of sclerotium growth. The strains AS19 and AS21 were identified as Pseudomonas sp. by 16S rDNA phylogeny and deposited under accession numbers NAIMCC-B-02303 and NAIMCC-B-02304, respectively. Further investigations revealed the mechanisms of action of AS19 and AS21, demonstrating their ability to induce systemic resistance (ISR) and exhibit broad-spectrum antifungal activity against Alternaria triticina , Bipolaris sorokiniana , Rhizoctonia maydis , and Fusarium oxysporum f. sp. lentis . Pot trials demonstrated significant reductions in BL&SB disease incidence (DI) following foliar applications of AS19 and AS21, with reductions ranging from 25 to 38.33% compared to control treatments. Scanning electron microscopy revealed substantial degradation of fungal mycelium by the strains, accompanied by the production of hydrolytic enzymes. These findings suggest the potential of Pseudomonas strains AS19 and AS21 as promising BCAs against BL&SB and other fungal pathogens. However, further field trials are warranted to validate their efficacy under natural conditions and elucidate the specific bacterial metabolites responsible for inducing systemic resistance. This study contributes to the advancement of sustainable disease management strategies and emphasizes the potential of Pseudomonas strains AS19 and AS21 in combating BL&SB and other fungal diseases affecting agricultural crops.

In recent decades, dengue has been expanding rapidly in the tropical cities. Even though environmental factors and landscape features profoundly impact dengue vector abundance and disease epidemiology, significant gaps exist in understanding the role of local environmental heterogeneity on dengue epidemiology in India. In this study, we assessed the role of remotely sensed climatic factors (rainfall, temperature and humidity) and landscape variables (land use pattern, vegetation and built up density) on dengue incidence (2012–2019) in Bhopal city, Central India. Dengue hotspots in the city were assessed through geographical information system based spatial statistics. Dengue incidence increased from 0.59 cases in 2012 to 9.11 cases in 2019 per 10,000 inhabitants, and wards located in Southern Bhopal were found to be dengue hotspots. Distributed lag non-linear model combined with quasi Poisson regression was used to assess the exposure-response association, relative risk (RR), and delayed effects of environmental factors on dengue incidence. The analysis revealed a non-linear relationship between meteorological variables and dengue cases. The model shows that the risk of dengue cases increases with increasing mean temperature, rainfall and absolute humidity. The highest RR of dengue cases (~2.0) was observed for absolute humidity ≥60 g/m 3 with a 5–15 week lag. Rapid urbanization assessed by an increase in the built-up area (a 9.1% increase in 2020 compared to 2014) could also be a key factor driving dengue incidence in Bhopal city. The study sheds important insight into the synergistic effects of both the landscape and climatic factors on the transmission dynamics of dengue. Furthermore, the study provides key baseline information on the climatic variables that can be used in the micro-level dengue prediction models in Bhopal and other cities with similar climatic conditions.

Fusarium oxysporum is one of the most damaging plant pathogens causing Fusarium wilt in many plants leading to serious economic loss. The fungus colonizes the xylem, which leads to resistance in water flow in the plant thereby affecting the rate of photosynthesis. The present study focuses on the selection of bacterial endophytes isolated from tomato plants and evaluating their potential to antagonize Fusarium oxysporum in tomato in vivo . The results obtained indicated that two endophytic isolates, namely Pseudomonas fluorescens BUMD5 and Bacillus velezensis BUMD9, could act as efficient biocontrol agents (BCAs) as they inhibited the growth of pathogen by 67.2 and 69.1%, respectively, in vitro . Both the isolates were found to produce hydrolytic enzymes chitinase and protease. They also produced siderophore and hydrogen cyanide (HCN). The consortia of both the isolates significantly reduced the infection percentage by about 67% and a 3-fold decrease in disease severity was observed as compared to pathogen control. The treatment of infected plants with these potent isolates was also beneficial in improving the overall photosynthetic performance index (PI). Thus, plants treated with consortia of these isolates exhibited better overall plant growth despite being infected by the pathogen.

North-east India, being a corridor to South-east Asia, is believed to play an important role in transmitting drug resistant Plasmodium falciparum malaria to India and South Asia. North-east India was the first place in India to record the emergence of drug resistance to chloroquine as well as sulphadoxine/pyrimethamine. Presently chloroquine resistance is widespread all over the North-east India and resistance to other anti-malarials is increasing. In this study both in vivo therapeutic efficacy and molecular assays were used to screen the spectrum of drug resistance to chloroquine and sulphadoxine/pyrimethamine in the circulating P. falciparum strains. A total of 220 P. falciparum positives subjects were enrolled in the study for therapeutic assessment of chloroquine and sulphadoxine/pyrimethamine and assessment of point mutations conferring resistances to these drugs were carried out by genotyping the isolates following standard methods. Overall clinical failures in sulphadoxine/pyrimethamine and chloroquine were found 12.6 and 69.5% respectively, while overall treatment failures recorded were 13.7 and 81.5% in the two arms. Nearly all (99.0%) the isolates had mutant pfcrt genotype (76 T), while 68% had mutant pfmdr-1 genotype (86 Y). Mutation in dhps 437 codon was the most prevalent one while dhfr codon 108 showed 100% mutation. A total of 23 unique haplotypes at the dhps locus and 7 at dhfr locus were found while dhps-dhfr combined loci revealed 49 unique haplotypes. Prevalence of double, triple and quadruple mutations were common while 1 haplotype was found with all five mutated codons (F/AGEGS/T) at dhps locus. Detection of quadruple mutants (51 I/59 R/108 N/164 L) in the present study, earlier recorded from Car Nicobar Island, India only, indicates the presence of high levels of resistance to sulphadoxine/pyrimethamine in north-east India. Associations between resistant haplotypes and the clinical outcomes and emerging resistance in sulphadoxine/pyrimethamine in relation to the efficacy of the currently used artemisinin combination therapy are discussed.

Lipids are important structural components of cell membranes and have profound effect on membrane fluidity. Lipid profiling and lipidomics have captured increased attention due to the well-recognized roles of lipids in numerous human diseases. Investigating lipid profiles not only provides insights into the specific roles of lipid molecular species in health and diseases, but can also help in identifying potential preventive or therapeutic biomarkers. Cataract, the loss of transparency of eye lens, is a disease of protein aggregation. There are several factors contributing to the stability in protein conformation. Age-related changes in lipid composition could be a contributing factor for altered protein–lipid interaction leading to protein aggregation and cataract. Keeping this in view, in the present study, fatty acid profiling from different age groups of lenses was carried out, using a freshwater catfish as the model. Total lipids were extracted from lenses of three different age groups of fishes (young, adult, and aged) and fatty acid methyl esters (FAME) were prepared and FAME analysis was carried out using gas chromatography–mass spectrometry. The results showed that three fatty acids viz. heneicosylic acid (C21), docosahexaenoic acid (C22:6), nervonic acid (C24:1) which were not present in the adult lens, appeared in the aged lens. On the other hand, eicosenoic acid (C20:1) present in the adult lens was found to be absent in the aged lens. The appearance or disappearance of these fatty acids can possibly serve as biomarkers of aging lens which is the most vulnerable stage for cataract development.

Abstract Large-scale quantitative studies have identified significant genetic associations for various neurological disorders. Expression quantitative trait locus (eQTL) studies have shown the effect of single-nucleotide polymorphisms (SNPs) on the differential expression of genes in brain tissues. However, a large majority of the associations are contributed by SNPs in the noncoding regions that can have significant regulatory function but are often ignored. Besides, mutations that are in high linkage disequilibrium with actual regulatory SNPs will also show significant associations. Therefore, it is important to differentiate a regulatory noncoding SNP with a nonregulatory one. To resolve this, we developed a deep learning model named Neur-Ally, which was trained on epigenomic datasets from nervous tissue and cell line samples. The model predicts differential occurrence of regulatory features like chromatin accessibility, histone modifications, and transcription factor binding on genomic regions using DNA sequence as input. The model was used to predict the regulatory effect of neurological condition-specific noncoding SNPs using in silico mutagenesis. The effect of associated SNPs reported in genome-wide association studies of neurological condition, brain eQTLs, autism spectrum disorder, and reported probable regulatory SNPs in neurological conditions were predicted by Neur-Ally.

Agriculture demands environmentally friendly, economic and stable agro-practices for achievement of global food security challenges. Exploration of beneficial plant–microbe interactions and input of microbial inoculants has been getting great attention for improvement of traditional agriculture system. Endophytes are beneficial partners of plants; they live inside the host with mutual association. The advantageous role of endophytes is gaining great importance from last century in agricultural research due to their valuable role in enhancement of crop yield and disease management. Endophytes exhibit various plant growth-promoting attributes by production of many bioactive metabolites and by different mechanisms. Development of modern biotechnological approaches to explore the hidden interaction of plants and microbes can be useful tools for establishment of novel bioinoculants for particular crop. In this review, we provide the knowledge about the endophytes, mode of action and their role in the development of sustainable agriculture system for human welfare.

Background Anopheles baimaii is a primary vector of human malaria in the forest settings of Southeast Asia including the north-eastern region of India. Here, the genetic population structure and the basic population genetic parameters of An. baimaii in north-east India were estimated using DNA sequences of the mitochondrial cytochrome oxidase sub unit II (COII) gene. Methods Anopheles baimaii were collected from 26 geo-referenced locations across the seven north-east Indian states and the COII gene was sequenced from 176 individuals across these sites. Fifty-seven COII sequences of An. baimaii from six locations in Bangladesh, Myanmar and Thailand from a previous study were added to this dataset. Altogether, 233 sequences were grouped into eight population groups, to facilitate analyses of genetic diversity, population structure and population history. Results A star-shaped median joining haplotype network, unimodal mismatch distribution and significantly negative neutrality tests indicated population expansion in An. baimaii with the start of expansion estimated to be ~0.243 million years before present (MYBP) in north-east India. The populations of An. baimaii from north-east India had the highest haplotype and nucleotide diversity with all other populations having a subset of this diversity, likely as the result of range expansion from north-east India. The north-east Indian populations were genetically distinct from those in Bangladesh, Myanmar and Thailand, indicating that mountains, such as the Arakan mountain range between north-east India and Myanmar, are a significant barrier to gene flow. Within north-east India, there was no genetic differentiation among populations with the exception of the Central 2 population in the Barail hills area that was significantly differentiated from other populations. Conclusions The high genetic distinctiveness of the Central 2 population in the Barail hills area of the north-east India should be confirmed and its epidemiological significance further investigated. The lack of genetic population structure in the other north-east Indian populations likely reflects large population sizes of An. baimaii that, historically, were able to disperse through continuous forest habitats in the north-east India. Additional markers and analytical approaches are required to determine if recent deforestation is now preventing ongoing gene flow. Until such information is acquired, An. baimaii in north-east India should be treated as a single unit for the implementation of vector control measures.

The present study was conducted to assess the biocontrol activity of biosurfactants obtained from Bacillus species A5F. The variables significantly influencing the production of biosurfactants under in vitro conditions were further optimized using response surface methodology. Optimal values of selected culture variables, i.e., glucose, soybean oil, and incubation time were 3.5 g l−1, 3.5 ml l−1, and 78 h, respectively, resulting in 2.14-fold enhancement in biosurfactant levels in 5 l fermentor. Identified biosurfactants had a significant effect on chlorophyll content, shoot biomass, number of pods, and seed weight. Biosurfactants also reduced the disease incidence in S. sclerotiorum infected soybean plants and showed antagonistic action against major phytopathogens by disrupting the hyphal cell wall. 16% reduction in ITS gene copy number was observed as compared to control with less non-target effect upon biosurfactant spray on foliar parts of soybean. Thus, the study confirms that biosurfactants from strain A5F can be used as a potent biocontrol agent to control sclerotium wilt on soybean plants.