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Khan JM, Tahir M, Qamar MF, Naz S, Rauf M, Noreen R, Ayaz MM, Khan M, Ahmad M, Khurshid U, Saeed S, Iqbal MJ, Younas QUA, Hameed Y. Mutations in the bone morphogenetic protein 15 gene causing defective protein secretion in Cholistani infertile sheep. BRAZ J BIOL 2024; 84:e256923. [DOI: 10.1590/1519-6984.256923] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2021] [Accepted: 11/12/2021] [Indexed: 11/22/2022] Open
Abstract
Abstract Naturally occurring mutations in morphogenetic protein 15 (BMP15) are associated with decreased ovulation rate (OR), litter size (LS), and sterility. It is of a great interest to elucidate BMP15 gene in Cholistani sheep breed to uplift socio-economic status and the knowledge of Cholistani sheep breeding in Southern Punjab, Pakistan. In our study, a total of 50 infertile Cholistani sheep aged between 2-6 years and having no blood relation were screened for BMP15 mutations. For this purpose, a high-quality DNA was extracted from the blood of sheep followed by primer designing, Polymerase Chain Reaction (PCR) amplification, DNA sequencing, and in silico analyses. Out of total 50 samples, 9 samples including case 1 (T3), case 2 (T8), case 3 (T17), case 4 (T22), case 5 (T25), case 6 (T33), case 7 (T40), case 8 (T44), and case 9 (T47) were found positive for a variety of already reported and novel BMP15 mutations. Further in silico analyses of the observed mutations have shown the functional impact of these mutations on different characteristics (molecular weight, theoretical PI, estimated half-life, instability index, sub-cellular localization, and 3D confirmation) of the encoded proteins, possibly altering the normal functionality. In a nutshell, findings of this study have confirmed the possible essential role of the BMP15 mutations in the infertility of the Cholistani sheep.
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Affiliation(s)
- J. M. Khan
- Cholistan University of Veterinary and Animal Sciences, Pakistan
| | | | - M. F. Qamar
- College of Veterinary and Animal Sciences, Pakistan
| | - S. Naz
- The Government Sadiq College Women University Bahawalpur, Pakistan
| | - M. Rauf
- Cholistan University of Veterinary and Animal Sciences, Pakistan
| | - R. Noreen
- Government College University Faisalabad, Pakistan
| | - M. M. Ayaz
- Cholistan University of Veterinary and Animal Sciences, Pakistan
| | - M. Khan
- The Islamia University of Bahawalpur, Pakistan
| | - M. Ahmad
- The Islamia University of Bahawalpur, Pakistan
| | - U. Khurshid
- The Islamia University of Bahawalpur, Pakistan
| | - S. Saeed
- The Government Sadiq College Women University, Pakistan
| | | | - Q. U. A. Younas
- Cholistan University of Veterinary and Animal Sciences, Pakistan
| | - Y. Hameed
- The Islamia University of Bahawalpur, Pakistan
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Zhang L, Sahar AM, Li C, Chaudhary A, Yousaf I, Saeedah MA, Mubarak A, Haris M, Nawaz M, Reem MA, Ramadan FA, Mostafa AAM, Feng W, Hameed Y. A detailed multi-omics analysis of GNB2 gene in human cancers. BRAZ J BIOL 2024; 84:e260169. [DOI: 10.1590/1519-6984.260169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Accepted: 05/07/2022] [Indexed: 11/22/2022] Open
Abstract
Abstract The Guanine-nucleotide binding protein 2 (GNB2) encodes for β2 subunit (Gβ2) of the G-protein complex. Keeping in view the increased demand of reliable biomarkers in cancer, the current study was planned to extensively explored GNB2 expression variation and its roles in different cancers using online available databases and diverse methodology. In view of our results, the GNB2 was notably up-regulated relative to corresponding controls in twenty three cancer types. As well, the elevated expression of GNB2 was found to be associated with the reduced overall survival (OS) of the Liver Hepatocellular Carcinoma (LIHC) and Rectum Adenocarcinoma (READ) only out of all analyzed cancer types. This implies GNB2 plays vital role in the tumorigenesis of LIHC and READ. Several additional analysis also explored six critical pathways and few important correlations related to GNB2 expression and different other parameters such as promoter methylation, tumor purity, CD8+ T immune cells infiltration, and genetic alteration, and chemotherapeutic drugs. In conclusion, GNB2 gene has been identified in this study as a shared potential biomarker (diagnostic and prognostic) of LIHC and READ.
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Affiliation(s)
| | | | - C. Li
- Sichuan University, PR China
| | | | - I. Yousaf
- Government College University Faisalabad, Pakistan
| | | | | | - M. Haris
- Nowshera Medical College, Pakistan
| | | | | | | | | | - W. Feng
- Sichuan University, PR China
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Khalil T, Okla MK, Al-Qahtani WH, Ali F, Zahra M, Shakeela Q, Ahmed S, Akhtar N, AbdElgawad H, Asif R, Hameed Y, Adetunji CO, Farid A, Ghazanfar S. Tracing probiotic producing bacterial species from gut of buffalo (Bubalus bubalis), South-East-Asia. BRAZ J BIOL 2024; 84:e259094. [DOI: 10.1590/1519-6984.259094] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2021] [Accepted: 02/01/2022] [Indexed: 12/15/2022] Open
Abstract
Abstract Due to extensive application of antibiotics as growth promoters in animal feed, antimicrobial resistance has been increased. To overcome this challenge, rumen microbiologists search for new probiotics to improve the rate of livestock production. The present study was aimed to isolate and evaluate breed-specific lactic acid bacteria (LAB) as potential animal probiotics. The current study was conducted during 10 months from July 2020 to April 2021, in which a total of n=12 strains were isolated from different samples including milk, rumen, and feces of Nilli Ravi Buffaloes. These isolates were evaluated for their antimicrobial potential against common animal pathogens (Bacillus spp., E. coli, Staphylococcus aureus, Salmonella spp., Listeria spp.). All the isolates were identified using 16S rRNA gene sequencing and the phylogenetic analyses inferred that these strains showed close relations to the species of various genera; Enterococcus lactis, Pediococcus pentosaceus, Bacillus subtilis Weissella cibaria, Weissella soli, Bacillus tequilensis, Weissella bombi, Bacillus licheniformis, Lactococcus lactis, Bacillus megaterium, Lactobacillus ruminis, and Lactococcus lactis. NMCC-Ru2 has exhibited the enormous potential of antimicrobial activity, 28 mm, for Salmonella typhimurium;23 mm for Listeria monocytogenes 21 mm for E.coil. Highest resistance was seen in NMCC-Ru2 agasint test antbiotic, like 25.5 mm for Tetracycline. Overall results revesl that the probiotic profile of isolates was achieved using standard criteria, particularly with animal probiotic properties
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Affiliation(s)
- T. Khalil
- Hazara University Mansehra, Pakistan
| | | | | | - F. Ali
- Hazara University Mansehra, Pakistan
| | - M. Zahra
- University of Peshawar, Pakistan
| | - Q. Shakeela
- Faculty of Biological Science Quaid-i-Azam University, Pakistan
| | - S. Ahmed
- Hazara University Mansehra, Pakistan
| | - N. Akhtar
- National University of Medical Science, Pakistan
| | | | - Rizwan Asif
- Government College University Faisalabad, Pakistan
| | - Y. Hameed
- The Islamia University of Bahawalpur, Pakistan
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Yasir M, Nawaz A, Ghazanfar S, Okla MK, Chaudhary A, Al WH, Ajmal MN, AbdElgawad H, Ahmad Z, Abbas F, Wadood A, Manzoor Z, Akhtar N, Din M, Hameed Y, Imran M. Anti-bacterial activity of essential oils against multidrug-resistant foodborne pathogens isolated from raw milk. BRAZ J BIOL 2022; 84:e259449. [PMID: 35544793 DOI: 10.1590/1519-6984.259449] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2021] [Accepted: 03/16/2022] [Indexed: 11/22/2022] Open
Abstract
The presence of pathogenic bacteria in food is considered as a primary cause of food-borne illness and food quality deterioration worldwide. The present study aimed to determine the effectiveness of five essential oils (EOs) against multidrug-resistant foodborne pathogens. In the current study Gram-negative bacteria (Escherichia, Enterobacter, Citrobacter, Proteus, Pseudomonas, and Klebsiella) and the Gram-positive bacteria Staphylococcus were isolated from raw milk and biochemically characterized. The anti-bacterial effect of different antibiotics and EOs (thyme, oregano, lemongrass, mint, and rosemary) was determined using the standard disc diffusion method. The antibiogram study revealed that Gram-negative bacteria were highly resistant to penicillin while Staphylococcus was resistant to streptomycin, amoxicillin, and lincomycin. Moderate resistance was observed to doxycycline, amikacin, enrofloxacin, kanamycin and cefixime. Isolates were found less resistant to gentamycin, chloramphenicol, and ciprofloxacin. EOs showed a broad range of antimicrobial activity against all bacteria except P. aeruginosa. Of these, thyme was more effective against most of the multi-drug resistant bacterial strains and formed the largest zone of inhibition (26 mm) against Escherichia followed by oregano oil (18 mm) against Staphylococcus (p<0.05). Klebsiella spp and Citrobacter spp showed resistance to mint and lemongrass oil respectively. The EOs such as lemongrass, mint and rosemary were less active against all the bacteria. The findings of the recent study suggest the use of EOs as natural antibacterial agents for food preservation.
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Affiliation(s)
- M Yasir
- University of Baluchistan, Department of Microbiology, Quetta, Pakistan
| | - A Nawaz
- Government College University Faisalabad, Department of Zoology, Faisalabad, Pakistan
| | - S Ghazanfar
- National Agricultural Research Centre, Functional Genomics and Bioinformatics, Islamabad, Pakistan
| | - M K Okla
- King Saud University, College of Science, Botany and Microbiology Department, Riyadh, Saudi Arabia
| | - A Chaudhary
- University of Central Punjab, Department of Biochemistry, Lahore, Pakistan
| | - Wahidah H Al
- King Saud University, College of Food & Agriculture Sciences, Department of Food Sciences & Nutrition, Riyadh, Saudi Arabia
| | - M N Ajmal
- University of Jhang, Department of Microbiology, Jhang, Pakistan
| | - H AbdElgawad
- University of Antwerp, Department of Biology, Integrated Molecular Plant Physiology Research, Antwerpen, Belgium
| | - Z Ahmad
- University of Balochistan, Center for Advanced Studies in Vaccinology and Biotechnology, Quetta, Pakistan
| | - F Abbas
- University of Balochistan, Center for Advanced Studies in Vaccinology and Biotechnology, Quetta, Pakistan
| | - A Wadood
- University of Baluchistan, Department of Microbiology, Quetta, Pakistan
| | - Z Manzoor
- Pir Mehr Ali Shah Arid Agriculture University, Department of Parasitology and Microbiology, Rawalpindi, Pakistan
| | - N Akhtar
- Department of Biological Sciences, National University of Medical Science, Rawalpindi, Pakistan
| | - M Din
- Bolan Medical College, Department of Pathology, Quetta, Pakistan
| | - Y Hameed
- The Islamia University of Bahawalpur, Department of Biochemistry and Biotechnology, Bahawalpur, Pakistan
| | - M Imran
- Quaid-i-Azam University, Faculty of Biological Sciences, Department of Microbiology, Islamabad, Pakistan
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Ahmad M, Hameed Y, Khan M, Usman M, Rehman A, Abid U, Asif R, Ahmed H, Hussain MS, Rehman JU, Asif HM, Arshad R, Atif M, Hadi A, Sarfraz U, Khurshid U. Up-regulation of GINS1 highlighted a good diagnostic and prognostic potential of survival in three different subtypes of human cancer. BRAZ J BIOL 2021; 84:e250575. [PMID: 34852135 DOI: 10.1590/1519-6984.250575] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2021] [Accepted: 07/30/2021] [Indexed: 12/13/2022] Open
Abstract
Cancer is a fatal malignancy and its increasing worldwide prevalence demands the discovery of more sensitive and reliable molecular biomarkers. To investigate the GINS1 expression level and its prognostic value in distinct human cancers using a series of multi-layered in silico approach may help to establish it as a potential shared diagnostic and prognostic biomarker of different cancer subtypes. The GINS1 mRNA, protein expression, and promoter methylation were analyzed using UALCAN and Human Protein Atlas (HPA), while mRNA expression was further validated via GENT2. The potential prognostic values of GINS1 were evaluated through KM plotter. Then, cBioPortal was utilized to examine the GINS1-related genetic mutations and copy number variations (CNVs), while pathway enrichment analysis was performed using DAVID. Moreover, a correlational analysis between GINS1 expression and CD8+ T immune cells and a the construction of gene-drug interaction network was performed using TIMER, CDT, and Cytoscape. The GINS1 was found down-regulated in a single subtypes of human cancer while commonly up-regulated in 23 different other subtypes. The up-regulation of GINS1 was significantly correlated with the poor overall survival (OS) of Liver Hepatocellular Carcinoma (LIHC), Lung Adenocarcinoma (LUAD), and Kidney renal clear cell carcinoma (KIRC). The GINS1 was also found up-regulated in LIHC, LUAD, and KIRC patients of different clinicopathological features. Pathways enrichment analysis revealed the involvement of GINS1 in two diverse pathways, while few interesting correlations were also documented between GINS1 expression and its promoter methylation level, CD8+ T immune cells level, and CNVs. Moreover, we also predicted few drugs that could be used in the treatment of LIHC, LUAD, and KIRC by regulating the GINS1 expression. The expression profiling of GINS1 in the current study has suggested it a novel shared diagnostic and prognostic biomarker of LIHC, LUAD, and KIRC.
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Affiliation(s)
- M Ahmad
- The Islamia University of Bahawalpur, Department of Biochemistry and Biotechnology, Bahawalpur, Pakistan
| | - Y Hameed
- The Islamia University of Bahawalpur, Department of Biochemistry and Biotechnology, Bahawalpur, Pakistan
| | - M Khan
- The Islamia University of Bahawalpur, Department of Pharmacy, Bahawalpur, Pakistan
| | - M Usman
- The Islamia University of Bahawalpur, Department of Biochemistry and Biotechnology, Bahawalpur, Pakistan
| | - A Rehman
- Qarshi University, Department of Eastern Medicine, Lahore, Pakistan
| | - U Abid
- Bahauddin Zakariya University, Department of Pharmaceutics, Multan, Pakistan
| | - R Asif
- Government College University Faisalabad, Department of Microbiology, Faisalabad, Pakistan
| | - H Ahmed
- Government College University Faisalabad, Department of Eastern Medicine, Faisalabad, Pakistan
| | - M S Hussain
- The Islamia University of Bahawalpur, Department of Biochemistry and Biotechnology, Bahawalpur, Pakistan
| | - J U Rehman
- The Islamia University of Bahawalpur, College of Conventional Medicine, Faculty of Pharmacy and Alternative Medicine, Bahawalpur, Pakistan
| | - H M Asif
- The Islamia University of Bahawalpur, College of Conventional Medicine, Faculty of Pharmacy and Alternative Medicine, Bahawalpur, Pakistan
| | - R Arshad
- The Islamia University of Bahawalpur, College of Conventional Medicine, Faculty of Pharmacy and Alternative Medicine, Bahawalpur, Pakistan
| | - M Atif
- The Islamia University of Bahawalpur, College of Conventional Medicine, Faculty of Pharmacy and Alternative Medicine, Bahawalpur, Pakistan
| | - A Hadi
- The Islamia University of Bahawalpur, Department of Biochemistry and Biotechnology, Bahawalpur, Pakistan
| | - U Sarfraz
- COMSATS University Islamabad, Department of Biosciences, Islamabad, Pakistan
| | - U Khurshid
- The Islamia University of Bahawalpur, Department of Pharmacy, Bahawalpur, Pakistan
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Khaleeq U, Rashid A, Abbas T, Rasheed S, Raza A, Khan M, Mahmood H, Hameed Y, Hussain R, Jamshed A. Function preservation with trimodality therapy in locally advanced oral tongue squamous cell carcinoma. Ann Oncol 2018. [DOI: 10.1093/annonc/mdy438.023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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Alsafi Z, Hameed Y, Amin P, Shamsad S, Raja U, Alsafi A, Hamady MS. Assessing the effects of manual dexterity and playing computer games on catheter-wire manipulation for inexperienced operators. Clin Radiol 2017; 72:795.e1-795.e5. [PMID: 28522259 DOI: 10.1016/j.crad.2017.03.019] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2016] [Revised: 03/12/2017] [Accepted: 03/21/2017] [Indexed: 11/15/2022]
Abstract
AIM To investigate the effect of playing computer games and manual dexterity on catheter-wire manipulation in a mechanical aortic model. MATERIAL AND METHODS Medical student volunteers filled in a preprocedure questionnaire assessing their exposure to computer games. Their manual dexterity was measured using a smartphone game. They were then shown a video clip demonstrating renal artery cannulation and were asked to reproduce this. All attempts were timed. Two-tailed Student's t-test was used to compare continuous data, while Fisher's exact test was used for categorical data. RESULTS Fifty students aged 18-22 years took part in the study. Forty-six completed the task at an average of 168 seconds (range 103-301 seconds). There was no significant difference in the dexterity score or time to cannulate the renal artery between male and female students. Students who played computer games for >10 hours per week had better dexterity scores than those who did not play computer games: 9.1 versus 10.2 seconds (p=0.0237). Four of 19 students who did not play computer games failed to complete the task, while all of those who played computer games regularly completed the task (p=0.0168). CONCLUSION Playing computer games is associated with better manual dexterity and ability to complete a basic interventional radiology task for novices.
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Affiliation(s)
- Z Alsafi
- University College London Medical School, University College London, Gower St, Kings Cross, London WC1E 6BT, UK
| | - Y Hameed
- University College London Medical School, University College London, Gower St, Kings Cross, London WC1E 6BT, UK
| | - P Amin
- University College London Medical School, University College London, Gower St, Kings Cross, London WC1E 6BT, UK
| | - S Shamsad
- University College London Medical School, University College London, Gower St, Kings Cross, London WC1E 6BT, UK
| | - U Raja
- Imperial College Healthcare NHS, St Mary's Hospital, Praed St, London W2 1NY, UK
| | - A Alsafi
- Imperial College Healthcare NHS, St Mary's Hospital, Praed St, London W2 1NY, UK.
| | - M S Hamady
- Imperial College Healthcare NHS, St Mary's Hospital, Praed St, London W2 1NY, UK
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Kidd AC, Musonda P, Soiza RL, Butchart C, Lunt CJ, Pai Y, Hameed Y, Fox GC, Potter JF, Myint PK. 119 * TOTAL ANTICHOLINERGIC BURDEN (ACB) AND IN-PATIENT HOSPITAL MORTALITY AND LENGTH OF STAY IN PATIENTS AGED>= 90 YEARS ADMITTED WITH AN ACUTE ILLNESS. Age Ageing 2014. [DOI: 10.1093/ageing/afu046.2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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