Volume 10, Issue 1

Methods: The microarray dataset of 58 cases and 62 controls was used to identify Differentially Expressed Genes (DEGs).After constructing protein-protein interaction networks , Cytoscape analysis was done to identify the hub proteins. Based on sub graph centrality, between-ness and degree (≥10), hub proteins were selected for further literature search and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis.

Results: A total of 85 up-regulated genes and 95 down-regulated genes of CRC patients were selected based on criteria of P>0.05 and fold change>2.0. The PPI analysis revealed STAT3, HNRNPA2B1, RBM8A, RBM25, ATM, HIST1H2BK, SRSF5 and HNRNPDLas hub proteins. On the basis of criteria set for cytoscape analysis, STAT3 and HNRNPA2B1 were identified as key hub proteins. KEGG pathway analysis revealed vital role of STAT3 in carcinogenesis.

Conclusion: In addition of HNRNPA2B1 activation by STAT3, cross talk of STAT3 with other oncogenic signaling pathways signifies its role in colorectal carcinogenesis. Our study highlights thatSTAT3may be a possible therapeutic target which may help in overcoming the dilemma of resistance to drug treatment in advanced cases.  

Methods: The current study was focus on variation analysis, phenotypic and genetic variation in A. latus fish found in different region of coastal belt of Baluchistan. A total of forty-five fish  A. latus from three different areas of Baluchistan (Gaddani, Dam, and Kund Malir) were collected aseptically. The Phenotypic study was done on the bases of their body shape, body color and color of the fins. Four different kinds of A. latus  were observed and named  as type  A, B, C and D. The genetic characteristics were studied by observing the mitochondrial DNA D-loop region.

Results: For Mitochondrial DNA analysis, the blood samples were collected from the selected samples and processed for DNA extraction. Primer was designed and PCR was performed. PCR products were sequenced and analyzed for observing genetic variation in mitochondrial DNA of A. latus.

Conclusion: The analysis revealed three genetic variations; two heterozygous variations at 32 and 172 nucleotide positions (Adenine substituted by Thymine and Thymine substituted by Guanine) and one homozygous variation at 72 nucleotide position (an insertion of a Thymine).  

Methods: The coding sequences (CDs) and protein sequences of newly reported dengue strains (DENV 1, DENV 2, DENV 3, and DENV 4) were obtained from the National center for Biotechnology Information (NCBI) nucleotide and protein databases. We compare the genetic and functional compatibility of selected gene sequences from four dengue strains by using various bioinformatics tools and software such as BLAST, MEGA 11.0, ProtParam, GOR4 and SWISS Model.

Results: The total number of amino acids in dengue strains DENV1, 2, 3, and 4 is 3392, 3391, 3390, and 3387, according to physiochemical analysis. The phylogenetic analysis reveals that DENV-1 and DENV-2 have more genetic similarity than DENV-2 and DENV-3, with bootstrap values greater than 90%. While different percentages of alpha helices were predicted in secondary structure, such as 33.23 %, 36.51 %, 31.21%, and 32.27% of DENV1, 2, 3, and 4 show little variation. The non-structural proteins NS1 and NS5 of all four DENV strains show more than 65 percent similarity index in 3D structure analysis.

Conclusion: This study first presented a bioinformatics comparison of all four DENV strains. The 3D and 2D structures of DENV strains (1-4) show some similarity and dissimilarity index, however the four DENV strains differ in their 2D structure's alpha helix (H), random coil, and number of amino acids.  

Methods: The experiment was conducted in Randomized Complete Block Design with three replications. Plant × plant and row × row distance was maintained as 4 inch and 1ft respectively. At maturity data for plant height, days to 50% flowering, no. of branches, no. of pods, grains per pod and grain yield per hectare were recorded.  Furthermore, oil percentage, protein percentage, omega-3, omega-6, omega-9, palmitic acid and stearic acids were also measured.

Results: All genotypes showed highly significant difference from each other for selected traits. Grain yield per hectare was significant in genotypes such as CN-5, FS-10, E-402 and SH-1274 as compared to Faisal soybean (check). Protein and oil percentage were significantly more in CN-5, HS-17 and FS-10. Branches per plant significantly correlated with the yield but protein and oil percentage negatively correlated with each other. PCA indicated that only four out of 13 PCAs exhibited more than 1 Eigen value and showed 76.53 % variation. All traits for yield and quality were presented in PCA1, PCA2 and PCA3. Biplot indicated that genotype CN-5, SH-1274 and HB-17 falls in the positive portion that perform good.

Conclusion: Soybean genotypes CN-5 and FS-10 showed the more yield with high protein and oil percentage as compared to check variety and could be used in semi-arid environments. 

Methods: The main purpose of this study was to report easily and practical method to prepare 100 base pair DNA ladder by simple PCR using pCAMBIA 1301 plasmid as a template which is an effective cost reduction strategy for laboratories. pCAMBIA 1301 was transformed into Escherichia coli (Top 10) bacteria by using heat shock method for high the yield of the plasmid. Bacteria containing our desire plasmid were cultured and plasmid was extracted from bacteria by using kit method. About 10 pairs of primers were designed from the backbone of the plasmid which amplifies 100 to 1000 base pair of PCR product with an interval of 100 base pair fragments. These fragments were optimized by using gradient thermo cycler and PCR products were purified using kit methods. For the stability of 100 base pair DNA ladder, it was placed in seven different buffers.

Results: The outcome of this study shown that polymerase chain reaction was able to amplify 10 different types of DNA fragments which ranges from 100 to 1000 base pair with high qualification and size accuracy. PCR products were purified and sequenced. DNA ladder was pooled in seven different buffers and stored at -20°C. These buffers were used to optimize and evaluate the stability of the prototype DNA ladder.

Conclusion: Our laboratory made 100base pair DNA ladder is very cost effective, it only cost 11 USD to prepare DNA ladder. This 100 base pair DNA ladder provides an independent quantitative unit that can be used with any biological application or technology, enabling genomes to be measured using a common metric. 

Methods: A cross-sectional study was performed on 120 patients, out of whom 60 were diabetic and 60 non-diabetics with clinically suspected carotid artery disease.  The study was conducted at the university ultrasound clinic in Green Town by Doppler ultrasonography using the Toshiba XARIO XG, which features a linear probe of 5-7.5 MHz frequency. The data was analyzed with the help of SPSS version 25.0. Variables like age, gender, diabetes, and Intima-media thickness (IMT) were reported and the mean ± standard deviation of Pulsatility Index, Resistive Index, Peak Systolic Velocity, and End Diastolic Velocity were calculated with a significant p-value, which is less than 0.05. An independent t-test was applied to compare Doppler indices in diabetic and non-diabetic subjects.

Results: Data was collected from 120 patients. IMT of right and left carotid artery, PI and RI of right carotid were observed to be statistically significant in diabetic and non-diabetic.

Conclusions: This study concluded that there is a significant correlation found between carotid artery disease and diabetes. Through ultrasonography, the presence of plaque and stenosis was found in more diabetic patients than in non-diabetic patients. 

Methods: In this study, thirty-two adult albino male rats were adopted. The animals were set in a random manner into four groups of eight rats each. The animals of the control group were dosed orally with 5ml distilled water. The second were injected intraperitoneally with 150 mg/kg of Alloxan one time to induce diabetes. The third group were administered a daily oral dose of 5 mg/kg of Glimepiride. The fourth group were injected with alloxan in the same manner as the second group and then dosed orally with 5mg/kg of glimepiride. The above-mentioned experimental protocol has extended for one month and thereafter the planned tests were done.

Results: The results showed that diabetes induced by alloxan led to significant decline in the packed cells volume (PCV), hemoglobin concentration (Hb), platelets (PLT), red blood cell counts (RBC), glutathione (GSH), alanine aminotransferase (ALT) and alkaline phosphatase (ALP)at (p≤0.05) with significant elevation in the total white blood cells count (WBC), malondialdehyde (MDA), erythrocytes sedimentation rate (ESR) and aspartate aminotransferase (AST) comparing with those of the control group. The use of glimepiride alone to the healthy rats led to significant decline in RBC,PLT, GSH and AST with significant elevation in ESR and WBC without an effect on the PCV, Hb, MDA, ALT and ALPat (p≤0.05) comparing with those of the control group. Treatment of alloxan-induced diabetic rats with glimepiride led to significant decline in RBC, HB and PCV with significant elevation in WBC, PLT, GSH, MDA and ALT at (p≤0.05) compared with the control group.

Conclusion: We conclude that glimepiride does affect the blood parameters and the antioxidant enzymes. 

Methods: Genetic analysis of 105 AML patients was done to investigate AML1-ETOand CBFB-MYH11 fusion oncogenes and mutations in NPM1 and NRAS genes. The genomic DNA and cDNA were subjected to amplification, electrophoresis, and Sanger sequencing.

Results: The frequency of AML1-ETO was 26% in AML patients and 34.2% in AML-M2 patients. CBFB-MYH11 was present in 11.4% AML patients. A total of six mutations in 4 regions of NPM1 gene and 2 regions of NRAS gene were detected. 3’UTR of NPMI gene had three variants; g.1128C>T (57.1%), g.1185-/T insertion (80.95%), and g.1163A>T (57.14%) while c.867_871subGTGGA >CAAGTTTGC (2.86%) was present in exon 12. NRAS gene had two mutations c.12C>T (51.4%) and c.33A>T (11.43%) in exon 2. c.867_871subGTGGA >CAAGTTTGC , and g.1163A>T in NPM1 gene and c.33A>T in NRAS gene were the novel findings in this ethnic population.

Conclusion: This genetic analysis may help to modulate the treatment strategies and improve survival of patients. 

Methods: The cup plate agar diffusion methods and Microdilution assays were adopted with minor modifications to assess the antibacterial activity. The Qualitative and quantitative tests were employed to assess the Kehail antioxidant activities by determining its phytochemicals, 2, 2-diphenyl-1-picrylhydrazyl (DPPH), ABTS(2,2'-azino-bis(3-ethylbenzothiazoline-6-sulfonic acid), and β-carotene in vitro assays.

Results: The results indicated that methanolic Kehail extract (M.K.E.) exhibited antibacterial activity against pathogenic bacteria, including Staphylococcus epidermidis (M13), Enterobacter cloacae, Pseudomonas aeruginosa, Escherichia coli ATCC 10536 and Klebsiella pneumoniae, while the mean inhibition zone was 10.66 ± 0.57 mm, 10.77 ± 0.57735 mm, 10.33 ± 0.57 mm, and 9.55 ± 0.57 mm, respectively. Furthermore, the antimicrobial activity increased in a concentration-dependent manner. Indeed, E. cloacae were the plant extract most inhibited bacteria. The plant extract has vigorous antifungal activity against Candida albicans ATCC 10231 and C. tropicalis ATCC 9362, whereas the mean inhibition zone was 12.77 ± 0.57 and 13.11 ± 1.52 mm, respectively. The extract of A. decumbens plant was also proven to be efficient as a source of antioxidants saponins, terpenes, polyphenols, and flavonoids.

Conclusion: The acquired outcomes uncover promising antioxidant activities of the tested Kehail methanolic extract. The study encourages the separation of active components and the development of new medications from the Kehail plant. 

Methods: In this study, all male Wistar rats were divided into five groups. Group M1: 0.1 mL sterile saline 0.9% solution was added to the wounds with no infection. Group M2: the wounds were infected with methicillin-resistant Staphylococcus aureus (MRSA) and only treated with 0.1 mL the sterile saline 0.9% solution. Group M3: animals with infected wounds were treated with zinc nanoparticle. Group M4: animals with infected wounds were treated with chitosan. Group M5: animals with infected wounds were treated with 0.1 mL solution of zinc nanoparticles with chitosan. Skin biopsy samples were removed for the histological studies and quantitative assessment of IL-6, VEGF, TNF and TGF genes using real-time PCR in each groups.

Results: Quantitative histological and neovascularization studies showed that there was significant difference between rats in groupM5 compared to other groups. The infected groupM5 exhibited a significant increase in the expression levels of VEGF: 8.02, TNF: 5.34, TGF: 7.98, and decrease of IL-6:-3.34 folds as compared to the other groups on the 21^st day (P<0.05). Also, on the same day was seen the minimum surface area of wound in group 5. The surface area between each study group and other groups was statistically significant(P<0.05).

Conclusion: Our studies also show that the type of zinc nanoparticles with chitosan scaffolds have more effects than other types of compounds in wound healing. 

Methods: The following study has assessed the comparative nutritional values of Acacia tortilis and Acacia ehrenbergiana. The analyses have been determined by international standard procedures using Gravimetry, Soxhlet extraction, HPLC, and ICP-OES(AOAC 962.09, AOAC 941.12). The vegetation mapping for the blooming period has been done by NVDI using data from Sentinel-2 satellite. The statistics of agricultural and non-agriculture areas in kilometer square (km²) have been found to confirm the findings of the NDVI using the satellite images.

Results: The study has highlighted the importance of these native plants as a fodder plant for Arabian tahr as potential source of potassium, calcium, and magnesium and phosphorus. Furthermore, the native plant's mapping showed Emirates of Fujairah's vegetation during March to May 2022.

Conclusion: Results shows that the A. ehrenbergiana is comparatively healthier diet for Arabian Tahr than Acacia tortilis. Tahr can get on average 400 mg/100g of four important minerals including K, Ca, P and Mg while Acacia tortilis could provide 174 mg/100g. Moreover, the native plant’s vegetation mapping can work as blueprint and will help identify plant dispersion and expansion planning. 

Methods: The current study was designed to investigate the protective role of T. arjuna leaf extract at three dose levels (100, 250, 500 mg/kg body weight) against acetaminophen (250 mg/kg body weight) induced liver damage.

Results: The administration of hepatotoxin (Acetaminophen) resulted in disturbance of hematological and serological profile including alkaline phosphatase (ALP) and aspartate aminotransferase (AST) which was assayed in control and drug treated experimental models. Treatment with T.  arjuna leaf extract for 7 days restored the normal levels of markers and response was dose dependent.

Conclusion: This study adds to the very limited existing literature regarding hepatoprotective effect of T. arjuna against acetaminophen toxicity. It is also important to get a step closer to development of accessible, authoritative, and independent information resources about herbal medicines and wide-ranging health disorders, which are currently lacking in Pakistan. 

Methods: The present study was conducted  with 111 patients of ITP and similar number of controls as case control study with 1:1 ratio of from January 2017 to July 2019. The patients were grouped according to the guideline of ASH as  newly diagnosed/persistent ITP(ND-ITP/P-ITP) and chronic/refractory ITP(C-ITP/R-ITP).The blood samples were obtained, and CBC parameters were observed using advanced hematology analyzer XN-1000.The T cells subset analysis was evaluated by BD FACS Calibur flow cytometer. The Fisher exact test was done to evaluated the difference among the groups with (p=<0.05) by using SPSS version 19.

Results: Significantly reduced levels of hemoglobin, platelet counts with elevated IPF were observed in ND-ITP/P-ITP and C-ITP/R-ITP patients (p=<0.001).The significantly low Th:Tc ratio (p=<0.001) predicts imbalance of T cells in ND-ITP/P-ITP (0.86±0.47) as compared to control group (1.73±0.46).The mean of 0.84±0.34 Th:Tc ratio was observed in C-ITP/R-ITP children with ≤16 years. An insignificant difference (p= 0.89) was linked between children with non-severe chronic (0.84±0.42), severe chronic (0.82±0.49) and refractory ITP (0.85±0.51).

Conclusion: In ITP patients’ low levels of Th:Tc ratio was observed suggesting dysregulation of immune system. The chronicity of the disease may be linked to elevated production of Tc in children (≤16 years) with C-ITP/R-ITP. 

Methods: A total of twenty-five samples (rocks, soil, water, and salt drippings), collected from Khewra salt mine and its vicinity, were checked for growth. Isolates were purified and characterized by Biochemical and Molecular Tests. The isolates were also screened for biotechnological potential.

Results: Samples (n=12) did not show growth, while samples (n=13) showed growth on high salt media. Isolates showed growth on 1-29% NaCl concentration, 15^oC-40^oC temperature and pH 6.5-9.0. Molecular analysis showed that isolate AJS-21y was closely related (98% similarity) to Salinicoccus roseus while isolate AJS-22 belonged to Bacillaceae family and was closely related (99% similarity) to Piscibacillus sp. Both isolates gave extracellular production of amylase.

Conclusion: Current study showed the presence of Salinicoccus sp. and Piscibacillus sp. in Khewra salt mine, Pakistan. The ability of isolates AJS-21y and AJS-22 to survive at high salt concentrations and production of extracellular amylase made them highly attractive for industrial applications and synthesizing transgenic crops tolerating high salinity. 

Method: In this study we have used a customized medium to automatically induce the expression of the IL-29 in E. coli expression system from the T7 promoter, allowing for higher yields as compared to the traditional technique of IPTG induction. Similarly, one-step purification method is employed to make the fermentation process cost-effective, along with enhancing its efficiency.

Results: From 1 L batches of IPTG-induced and autoinduced media, the harvested biomass was 11.8 g and 13.4 g, respectively and their corresponding IBs were 3.8 g and 4.8 g. Total protein purified from 1 L batch was 132  mg, at a concentration of 13 mg/mL, with an indicated high purity of 97%. IL-29 significantly decrease the metabolic activity of HepG2 cells. Specifically, 50% of the cells died at a concentration of 0.156 μg/mL, while 80% of the cells died at a concentration of 5 μg/mL.

Conclusion: This study presents an economical solution for producing and purifying IL-29 in E. coli, resulting in higher yields of biomass and IBs than expensive traditional method. The purified protein was highly pure and had immunomodulatory effects on HepG2 cells. These findings have important implications for developing simplified and scalable technologies for cytokine production with therapeutic potential. 

Methods: We employed a variety of computational methods, including SIFT, PolyPhen2, PROVEAN, SNAP2 to determine the functional impact of nsSNPs. Also, In order to investigate the potential association of nsSNPs in the IL12B gene with disease, a computational analysis was conducted using PhD-SNP, SNP&GO, and Pmut. Additionally, I-mutant and MuPro were employed to predict protein stability, while ConSurf was used to identify functional domains and conserved amino acid residues within the protein. Furthermore, SOPMA was used in combination with Project Hope and MutPred2 to predict the impact of mutations on both the structure and function of proteins. Finally, we used GeneMania to analyze the gene-gene interactions of the IL12B gene with other genes.

Results: Our results indicate that nine nsSNPs (G72C, G86C, C90R, C131S, Y136D, P235L, V254G, Y258H and P259S) were found to be potentially deleterious in the IL12B gene.

Conclusion: Our study emphasizes the significance of identifying functional and structural polymorphisms in the IL12B gene, as they may reveal potential therapeutic targets and provide insight into the underlying mechanisms of related diseases. Further experimental investigation is necessary to fully explore the role of these nsSNPs in disease pathogenesis. 

Methods: The study was conducted on 70 white mongrel rats, divided into two groups and treated for 2 weeks twice a day. Statistical analysis was carried out by the Mann-Whitney-Wilcoxon method using MS EXCEL and S-PLUS software.

Results: Against the background of the statin hepatitis model, the combined use of the phyto-complex and ursodeoxycholic acid showed the best results. The atherogenicity index decreased from 16.03 to 2.29, the De Ritis ratio decreased from up to 1.49±0.05, and the severity of lipid peroxidation, the content of c-reactive protein, and medium molecular weight peptides decreased. All of these results indicate the restoration of the functional state of the liver.

Conclusion: The use of α-tocopherol acetate, ursodeoxycholic acid, and AZHEPOFIT phyto-complex can be an effective treatment option for drug-induced hepatitis caused by statin medication. The combination of phyto-complex and ursodeoxycholic acid showed the best results in reducing.