Genetic variations among three major ethnic groups in Nigeria using RAPD
Olukanni A.
Titilayo
Department of Cell Biology and Genetics, University of Lagos. P.M.B. 56, Akoka, Lagos State, Nigeria Nigeria
author
Amoo O.
Samuel
Human Virology Laboratory, Nigerian Institute of Medical Research, P.M.B 2013, Yaba, Lagos, Nigeria
author
Olukanni O.
David
Department of Chemical Sciences (Biochemistry), Redeemer’s University. P.M.B. 230, Ede, Osun State, Nigeria
author
Taiwo I.
Adewunmi
Department of Cell Biology and Genetics, University of Lagos. P.M.B. 56, Akoka, Lagos State, Nigeria Nigeria
author
text
article
2018
eng
Genetically, every individual is unique; this may stem from inheritance, geographical locations, and/or environmental interactions. This study examined the possibility of developing a cheap and easy-to-use marker that can distinguish among the three ethnic groups in Nigeria using RAPD-PCR. Five RAPD primers, OPA1-3 and OPC1-2, were randomly selected and used to amplify DNA samples isolated from blood of eighteen human subjects representing the three major ethnic groups in Nigeria (six subjects each). Genomic DNAs were extracted using DNA isolation kit, RAPD-PCR amplification was performed and gel electrophoresis was done. Genetic similarity between the band polymorphism was evaluated as frequencies of occurrence and the phylogenetic tree constructed. Three of the five primers show various polymorphisms; the highest frequency band for primer OPA1 is 50% while that of primer OPA2 is 100% and for OPC2 is 83.33%. Although OPA2 has common bands in majority of the samples few of the bands are ethnic group specific. Bands 471 and 435 bp are specific for the Hausa ethnic group at 66.67% frequency. Similarly, in primer OPC2, band 320 can be used to distinguish the Hausas from the other two ethnic groups. Analysis of variance (ANOVA) and test for homogeneity showed that there is no significant difference in the polymorphism between and among the groups. In conclusion this research has given an insight into the possibility of developing RAPD primers that could be used to distinguish people of different ethnic groups.
Molecular Biology Research Communications
Shiraz University Press
2322-181X
7
v.
2
no.
2018
51
58
https://mbrc.shirazu.ac.ir/article_4800_00017b9f74104398fa6b6f75254ee98b.pdf
dx.doi.org/10.22099/mbrc.2018.26098.1280
A preliminary study of the association between the ABCA1 gene promoter DNA methylation and coronary artery disease risk
Habib
Ghaznavi
Health Promotion Research Centre, School of Medicine, Zahedan University of Medical Sciences, Zahedan, Iran
author
Khalil
Mahmoodi
Department of Cardiology, School of Medicine, Zanjan University of Medical Sciences, Zanjan, Iran
author
Mohammad Soleiman
Soltanpour
Department of Medical Laboratory Sciences, School of Paramedical Sciences, Zanjan University of Medical Sciences, Zanjan, Iran
author
text
article
2018
eng
Coronary artery disease (CAD) is a common health problem in Iranian population. ATP binding cassette transporter A1 (ABCA1) plays central role in the efflux of the cholesterol from peripheral tissues back to liver. Inactivation of ABCA1 by epigenetic change such as DNA methylation may contribute to the development of CAD. The present study investigated the association between promoter DNA methylation status of ABCA1 with the development and severity of CAD. Our study population consisted of 110 angiographically documented CAD patients and 110 controls. The severity of CAD was determined based on the number of stenotic vessels showing more than 50% stenosis. Promoter DNA methylation status of ABCA1 was determined by methylation specific PCR. Lipid profile was determined by routine colorimetric methods. Results showed that the frequency of ABCA1 DNA methylation was significantly higher in CAD group as compared with control group (16.36% vs 5.45%; P=0.015). Also, the methylation frequency of ABCA1 gene was significantly higher in older CAD patients as compared with younger CAD patients (P=0.038). No association was seen between plasma lipid concentration and the promoter DNA methylation status of ABCA1 (P>0.05). Also, the association between the severity of CAD and methylation of ABCA1 gene was not significant (P>0.05). In conclusion the current study indicated ABCA1 DNA methylation as a significant risk factor for development but not severity of CAD. Also, predisposition to the development of CAD by ABCA1 gene DNA methylation was independent of plasma lipid concentration.
Molecular Biology Research Communications
Shiraz University Press
2322-181X
7
v.
2
no.
2018
59
65
https://mbrc.shirazu.ac.ir/article_4814_5bb34ffb1808287c6526785244686a90.pdf
dx.doi.org/10.22099/mbrc.2018.28910.1312
In silico mutational analysis and identification of stability centers in human interleukin-4
Sandeep
Saini
Department of Bioinformatics, G.G.D.S.D. College, Chandigarh, India
author
Chander Jyoti-
Thakur
Department of Bioinformatics, G.G.D.S.D. College, Chandigarh, India
author
Varinder
Kumar
Department of Bioinformatics, G.G.D.S.D. College, Chandigarh, India
author
Akshay
Suhag
Department of Bioinformatics, G.G.D.S.D. College, Chandigarh, India
author
Niharika
Jakhar
Department of Bioinformatics, G.G.D.S.D. College, Chandigarh, India
author
text
article
2018
eng
Interleukin-4 (IL-4) is a multifunctional cytokine that plays a critical role in apoptosis, differentiation and proliferation. The intensity of IL4 response depends upon binding to its receptor, IL-4R. The therapeutic efficiency of interleukins can be increased by generating structural mutants having greater stability. In the present work, attempts were made to increase the stability of human IL-4 using in-silico site directed mutagenesis. Different orthologous sequences of IL4 from Pan troglodytes, Aotusnigriceps, Macacamulatta, Papiohamadryas, Chlorocebusaethiops, Vicugnapacos, Susscrofa and Homo sapiens were aligned using Clustal Omega that revealed the conserved and non-conserved positions. For each non-conserved position, possible favorable and stabilizing mutations were found using CUPSAT with predicted ΔΔG (kcal/mol). The one with highest ΔΔG (kcal/mol) among all possible mutations, for each non-conserved position was selected and introduced manually in human IL-4 sequence resulting in multiple mutants of IL-4. Mutant proteins were modeled using structure of IL4 (PDB ID: 2B8U) as a template by SWISS MODEL. The mutants A49L and Q106T were identified to have stability centre using SCide. Molecular dynamics and docking analysis also confirmed the mutants stability and binding respectively. Mutants A49L and Q106T had -7.580079 kcal/mol and -39.418124 kcal/mol respectively lesser energy value than the wild type IL4. The result suggested that, the stability of human IL-4 has been increased by mutation.
Molecular Biology Research Communications
Shiraz University Press
2322-181X
7
v.
2
no.
2018
67
76
https://mbrc.shirazu.ac.ir/article_4831_a7586fe998a9ff8101e0e29d05e3cd72.pdf
dx.doi.org/10.22099/mbrc.2018.28855.1310
Characterization of dengue virus in Aedes aegypti and Aedes albopictus spp. of mosquitoes: A study in Khyber Pakhtunkhwa, Pakistan
Mubbashir
Hussain
Vector Borne Diseases Lab, Department of Microbiology, Kohat University of Science and Technology, Kohat, Khyber Pakhtunkhwa, 26000 Pakistan
author
Shahzad
Munir
Faculty of Plant Protection, Yunnan Agricultural University, Kunming 650201, Yunnan, China
author
Kashif
Rahim
Beijing Key Laboratory of Genetic Engineering Drug and Biotechnology, Institute of Biochemistry and Biotechnology, College of Life Sciences, Beijing Normal University, Beijing 100875, China
author
Nawaz Haider
Bashir
Faculty of Plant Protection, Yunnan Agricultural University, Kunming 650201, Yunnan, China
author
Abdul
Basit
Vector Borne Diseases Lab, Department of Microbiology, Kohat University of Science and Technology, Kohat, Khyber Pakhtunkhwa, 26000 Pakistan
author
Baharullah
Khattak
Vector Borne Diseases Lab, Department of Microbiology, Kohat University of Science and Technology, Kohat, Khyber Pakhtunkhwa, 26000 Pakistan
author
text
article
2018
eng
Dengue is a vector-borne disease caused by dengue virus. According to the recent report of CDC that one-third population of the world are at high risk with Dengue fever. The prevalence of the dengue hemorrhagic fever was found more in tropical and sub-tropical regions of the world. Aedes mosquitoes was reported as the main cause of transmission of dengue virus. So the current study was planned to characterize the virus in Aedes mosquitoes collected from different area of Pakistan. In current investigation, Aedes mosquitoes and larvae were trapped under conducive conditions which are counted as 495 Aedes mosquitoes and 260 Aedes larvae. First of all, adult mosquitoes were identified morphologically under microscopy, counted as 73.3% Ae. aegypti and 26.7% Ae. albopictus. Finally, reverse transcriptase polymerase chain reaction analyses that only 4 adults of Aedes mosquitoes and 10 Aedes larvae as naturally infected with dengue virus with possible source Ae. aegypti. This study basically uncovered the presence of virus in different species of mosquitoes in southern regions of Pakistan. The present study will also give us an insight for vector control programs of dengue virus in the affected area.
Molecular Biology Research Communications
Shiraz University Press
2322-181X
7
v.
2
no.
2018
77
82
https://mbrc.shirazu.ac.ir/article_4832_7bb9d2b66616d08d3c3a060b9e444ed5.pdf
dx.doi.org/10.22099/mbrc.2018.29073.1315
Impacts of seed priming with salicylic acid and sodium hydrosulfide on possible metabolic pathway of two amino acids in maize plant under lead stress
Roya
Zanganeh
Department of Biology, Faculty of Science, Urmia University, Urmia, Iran
author
Rashid
Jamei
Department of Biology, Faculty of Science, Urmia University, Urmia, Iran
author
Fatemeh
Rahmani
Department of Biology, Faculty of Science, Urmia University, Urmia, Iran
author
text
article
2018
eng
Heavy metals pollution is one of the key environmental problems. In this research, the effect of seed priming with salicylic acid and sodium hydrosulfide was investigated on methionine and arginine amino acids contents and some compounds derived from their metabolism as well as ZmACS6 and ZmSAMD transcripts levels in maize plants under lead stress. For this purpose, maize seeds were soaked in salicylic acid (0.5 mM) and sodium hydrosulfide (0.5mM) for 12 hours and then exposed to lead (2.5 mM) for 9 days. The results showed that lead stress reduced nitric oxide content and shoot ZmACS6 and ZmSAMD transcript levels while increased glycine betaine, methionine, arginine and proline amino acids contents as well as root ZmACS6 and ZmSAMD transcript levels. Salicylic acid and sodium hydrosulfide pretreatments reduced methionine, arginine and proline accumulation and increased glycine betaine and nitric oxide contents and regulated the expression of ZmACS6 and ZmSAMD genes (genes participating in methionine metabolism) under lead stress. Our data suggest that salicylic acid and hydrogen sulfide play role in regulating the methionine and arginine metabolism in maize under lead stress condition.
Molecular Biology Research Communications
Shiraz University Press
2322-181X
7
v.
2
no.
2018
83
88
https://mbrc.shirazu.ac.ir/article_4842_15140fca7e6938b82a6bb5aafc0e6099.pdf
dx.doi.org/10.22099/mbrc.2018.29089.1317
Induction of apoptosis and necrosis in human acute erythroleukemia cells by inhibition of long non-coding RNA PVT1
Mahsa
Salehi
Department of Genetics and Molecular Biology, School of Medicine, Isfahan University of Medical Sciences, Isfahan, Iran
author
Mohammadreza
Sharifi
Department of Genetics and Molecular Biology, School of Medicine, Isfahan University of Medical Sciences, Isfahan, Iran
author
text
article
2018
eng
Recent advances in molecular medicine have proposed new therapeutic strategies for cancer. One of the molecular research lines for the diagnosis and treatment of cancer is the use of long non-coding RNAs (LncRNAs) which are a class of non-coding RNA molecules longer than 200 base pairs in length that act as the key regulator of gene expression. Different aspects of cellular activities like cell growth, proliferation, differentiation, apoptosis and migration are regulated by lncRNAs. In various cancers, aberrant expression of lncRNAs has been reported. One of the lncRNAs that showed upregulation in human acute myeloid leukemia (AML) is lncRNA plasmacytoma variant translocation 1 (PVT1). Here, we performed blockage of lncRNA PVT1 in human acute erythroleukemia (AEL) cell line (KG1) using antisense LNA GapmeRs. Then, at different time points (24, 48 and 72 hours) after transfection, qRT‑real‑time PCR and Annexin‑V/Propidium Iodide staining assay were performed. The data were processed using the ANOVA test. At all three time points, the ratio of apoptotic cells in the PVT1 antisense LNA GapmeRs treated group was higher than the other groups. The ratio of necrotic cells in the antisense LNA GapmeRs group was also higher than the other groups. These assessments show that inhibition of lncRNA PVT1 could significantly induce apoptosis and necrosis in KG1 cells. Our findings can be used in translational medicine for future investigation in acute erythroleukemia and treatment approach based on antisense therapy.
Molecular Biology Research Communications
Shiraz University Press
2322-181X
7
v.
2
no.
2018
89
96
https://mbrc.shirazu.ac.ir/article_4843_09d7583ee7edf69b2fd4e33927be16d9.pdf
dx.doi.org/10.22099/mbrc.2018.29081.1316