Groundwater quality assessment in upper Kabul basin and Paghman aquifer.

In Afghanistan, groundwater is widely used for drinking water, but its quality poses a health threat. This study investigates the physical, chemical, and bacteriological characteristics of groundwater in the Upper Kabul Sub-basin. Fifteen samples were collected and analyzed from different parts of the study area. The qualitative determination of parameters such as pH, Electrical conductivity (EC), Total dissolved solids (TDS), Salinity, Total hardness, Calcium, Magnesium, Sodium, Chloride, Fluoride, Sulfate, Phosphate, Potassium, Nitrite, Nitrate, Ammonia, Iron, Manganese, Copper, Aluminum, Arsenic, Total coliform, and Fecal coliform bacteria was carried out. The results were compared with WHO and ANSA standards to assess their suitability for drinking purposes. The analyzed samples indicate that physical parameters generally fall within permissible limits according to WHO and ANSA standards. However, certain wells exhibited elevated levels of chemical and bacteriological contaminants. Specifically, Magnesium concentrations exceeded the WHO guideline of 30 mg/L in all of the samples, and Calcium levels surpassed the recommended limit of 75 mg/L in 53% of the samples. Total coliform bacteria were detected in 33.33% of the samples, while fecal coliform bacteria were within the WHO and ANSA permissible limit for drinking water. The Pearson's correlation coefficient (R) suggested significant correlations between EC, TDS, and total hardness with other physical and chemical parameters. For instance, EC showed a strong positive correlation (R = 1.00) with TDS, EC and Salinity (R = 0.981), EC and Fluoride (R = 0.838) EC and Sulfate (R = 0.853), TDS and Salinity (R = 0. 981), TDS and Fluoride (R = 0.838), TDS and Sulfate (R = 0.853). The findings demonstrate that correlation coefficient analyses of water quality parameters provide a valuable means for monitoring water quality. These results offer critical insights for ensuring a safe water supply in the region.

Fishes of Afghanistan; a revised and updated annotated checklist.

The current status of the ichthyofauna of Afghanistan is revised, and an updated checklist is presented. The confirmed fishes of Afghanistan comprise 121 species belonging to 11 orders, 22 families, and 68 genera. Among these, 18 species (14.9%) are alien, and 7 species (5.8%) are considered endemic to Afghanistan. The orders with the largest numbers of species in the ichthyofauna of Afghanistan are Cypriniformes (88 species), followed by Siluriformes (14 species), Anabantiformes (4 species), Acipenseriformes, Salmoniformes, and Cyprinodontiformes (3 species in each). At the family level, Cyprinidae have the greatest number of species (36 species; 29.8% of the total species), followed by Nemacheilidae (22 species), Leuciscidae (12 species), Danionidae (8 species), and Sisoridae (6 species). A total of 48 species previously reported from Afghanistan have been excluded from the checklist, either in the present study or in previous studies. According to the IUCN Red List criteria, among 121 listed fish species, 19 (15.7%) are in the threatened categories, with 4 (3.3%) CR, 6 (5.0%) EN, and 9 (7.4%) VU. Of the total number of taxa assessed, 5.0% (6 species) are NT and 51.2% (62 species) are LC. A total of 29 species are (24.0%) Not Evaluated (NE) and 5 species (4.1%) are classified as DD.

Deciphering SARS CoV-2-associated pathways from RNA sequencing data of COVID-19-infected A549 cells and potential therapeutics using in silico methods.

BACKGROUND: Coronavirus (CoV) disease (COVID-19) identified in Wuhan, China, in 2019, is mainly characterized by atypical pneumonia and severe acute respiratory syndrome (SARS) and is caused by SARS CoV-2, which belongs to the Coronaviridae family. Determining the underlying disease mechanisms is central to the identification and development of COVID-19-specific drugs for effective treatment and prevention of human-to-human transmission, disease complications, and deaths. METHODS: Here, next-generation RNA sequencing (RNA Seq) data were obtained using Illumina Next Seq 500 from SARS CoV-infected A549 cells and mock-treated A549 cells from the Gene Expression Omnibus (GEO) (GSE147507), and quality control (QC) was assessed before RNA Seq analysis using CLC Genomics Workbench 20.0. Differentially expressed genes (DEGs) were imported into BioJupies to decipher COVID-19 induced signaling pathways and small molecules derived from chemical synthesis or natural sources to mimic or reverse COVID -19 specific gene signatures. In addition, iPathwayGuide was used to identify COVID-19-specific signaling pathways, as well as drugs and natural products with anti-COVID-19 potential. RESULTS: Here, we identified the potential activation of upstream regulators such as signal transducer and activator of transcription 2 (STAT2), interferon regulatory factor 9 (IRF9), and interferon beta (IFNß), interleukin-1 beta (IL-1ß), and interferon regulatory factor 3 (IRF3). COVID-19 infection activated key infectious disease-specific immune-related signaling pathways such as influenza A, viral protein interaction with cytokine and cytokine receptors, measles, Epstein-Barr virus infection, and IL-17 signaling pathway. Besides, we identified drugs such as prednisolone, methylprednisolone, diclofenac, compound JQ1, and natural products such as Withaferin-A and JinFuKang as candidates for further experimental validation of COVID-19 therapy. CONCLUSIONS: In conclusion, we have used the in silico next-generation knowledge discovery (NGKD) methods to discover COVID-19-associated pathways and specific therapeutics that have the potential to ameliorate the disease pathologies associated with COVID-19.

Antiplatelet response to clopidogrel is associated with a haplotype in CYP2C19 gene in Pakistani patients.

Clopidogrel, an antiplatelet drug, is frequently prescribed to patients diagnosed with ischemic diseases such as those suffering from acute coronary syndromes or ischemic stroke. Despite the drug being effective in majority of the patients, some still experience ischemic events early in the treatment which might be due to poor platelet inhibition. This study aims to investigate the association of cytochrome P450 2C19 (CYP2C19) loss-of-function polymorphisms, haplotypes as well as a wide range of clinical and demographic variables with platelet aggregation phenotypes to clopidogrel in a Pakistani cohort. The study comprised of a total of 120 patients diagnosed with cardiovascular diseases and were treated with clopidogrel. Antiplatelet response to clopidogrel was monitored by Helena AggRAM (HL-2-1785P) and patients with maximal platelet aggregation more than 50% were categorized as low responders and those with less than 50% as high responders. Our results show that 56.6% of patients were homozygous for the CYP2C19 wild-type allele, 38.3% of patients possessed one copy of the CYP2C19*2 allele and 5% of patients possessed both CYP2C19*2 alleles. No CYP2C19*3 allele was found in our patient cohort. There was no statistically significant difference between the high and low responder groups to clopidogrel in terms of extensive, intermediate and poor metabolizer genotypes. However, haplotype (H1), leukocyte count, random blood glucose, and history of diabetes mellitus was associated with the antiplatelet response to clopidogrel. The prevalence of clopidogrel resistance in our population was in line with that reported for other regional and global populations.

Inter-ethnic genetic variations and novel variant identification in the partial sequences of CYP2B6 gene in Pakistani population.

BACKGROUND: Some single nucleotide polymorphisms (SNPs) in the cytochrome P450 (CYP)2B6 gene lead to decreased enzyme activity and have an impact on drug metabolism. The present study was designed to investigate the patterns of genetic distinction across a hypervariable region of the CYP2B6 gene, known to contain important SNPs, i.e. rs4803419 and rs3745274, among five major ethnic groups of the Pakistani population. METHODS: Arlequin v3.5.DnaSPv6.12. and network 5 resources were used to analyze population genetic variance in the partial CYP2B6 gene sequences obtained from 104 human samples belonging to Punjabi, Pathan, Sindhi, Seraiki and Baloch ethnicities of Pakistan. The partial CYP2B6 gene region analyzed in the current study is previously known to possess important SNPs. RESULTS: The data analyses revealed that genetic variance among samples mainly came from differentiation within the ethnic groups. However, significant genetic variation was also found among the various ethnic groups. The high pairwise Fst genetic distinction was observed between Seraiki and Sindhi ethnic groups (Fst = 0.13392, P-value = 0.026) as well as between Seraiki and Balochi groups (Fst = 0.04303, P-value = -0.0030). However, the degree of genetic distinction was low between Pathan and Punjabi ethnic groups. Some SNPs, including rs3745274 and rs4803419, which are previously shown in strong association with increased plasma Efavirenz level, were found in high frequency. Besides, a novel SNP, which was not found in dbSNP and Ensemble databases, was identified in the Balochi ethnicity. This novel SNP is predicted to affect the CYP2B6 splicing pattern. CONCLUSION: These results may have significant implications in Pakistani ethnicities in the context of drugs metabolized by CYP2B6, especially in Seraiki and Balochi ethnicity. The novel heterogeneous SNP, found in the present study, might lead to altered drug-metabolizing potential of CYP2B6 and, therefore, may be implicated in non-responder phenomenon.