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Molecular Biology Reports

Sarah Thabet, Nada Souissi
The mycobacterial insertion sequence IS6110 proved crucial in deciphering tuberculosis (TB) transmission dynamics. This sequence was also shown to play an important role in the pathogenicity (transmission ability and/or virulence) of Mycobacterium tuberculosis, the main causative agent of TB in humans. In this study, we explored the usefulness of IS6110 and its potential as a phylogenetic/typing marker. We also analyzed the genetic polymorphism and evolutionary trends (selective pressure) of its transposase-encoding open reading frames (ORFs), A and B, using the maximum likelihood method...
October 20, 2016: Molecular Biology Reports
Yvonne N Flores, Rafael Velázquez-Cruz, Paula Ramírez, Manuel Bañuelos, Zuo-Feng Zhang, Hal F Yee, Shen-Chih Chang, Samuel Canizales-Quinteros, Manuel Quiterio, Guillermo Cabrera-Alvarez, Nelly Patiño, Jorge Salmerón
There is scarce information about the link between specific single-nucleotide polymorphisms (SNPs) and risk of liver disease among Latinos, despite the disproportionate burden of disease among this population. Our aim was to investigate nine SNPs in or near the following genes: PNPLA3, LYPLAL1, PPP1R3B, GCKR, NCAN, IRS1, PPARG, and ADIPOR2 and examine their association with persistently elevated alanine aminotransferase (ALT) or aspartate aminotransferase (AST) levels in Mexican adults. Data and samples were collected from 741 participants in the Mexican Health Worker Cohort Study, in Cuernavaca, Mexico...
October 17, 2016: Molecular Biology Reports
Prabhaker Yadav, Ratnesh K Tripathi, Rajeev K Singh, Vindhya Mohindra
During the investigation of genes involved in the hypoxia tolerance, novel transcript, Replication Termination Factor 2 homologue (RTF2h), was found to be differentially expressed in brain of Clarias magur (previous name, C. batrachus) whose function was still undefined. Thus, present study was aimed to examine the transcriptional response of novel RTF2h gene, for its possible involvement in hypoxia tolerance in C. magur. Novel transcripts expressed under hypoxic stress were identified from ESTs obtained from SSH libraries of C...
October 14, 2016: Molecular Biology Reports
Petra Priščáková, Gabriel Minárik, Vanda Repiská
Diabetic retinopathy (DR) is a multifactorial disease with complex pathophysiology. It is the main cause of blindness among the people in productive age. The purpose of this literature review is to highlight recent achievements in the genetics of diabetic retinopathy with particular focus on candidate gene studies. We summarized most of the available published data about candidate genes for diabetic retinopathy with the goal to identify main genetic aspects. We conclude that genetic studies reported contradictory findings and no genetic variants meet criteria of a diagnostic marker, or significantly elucidate the root of DR development...
October 11, 2016: Molecular Biology Reports
Linda Koshy, A L Anju, S Harikrishnan, V R Kutty, V T Jissa, Irin Kurikesu, Parvathy Jayachandran, A Jayakumaran Nair, A Gangaprasad, G M Nair, P R Sudhakaran
The extraction of genomic DNA is the crucial first step in large-scale epidemiological studies. Though there are many popular DNA isolation methods from human whole blood, only a few reports have compared their efficiencies using both end-point and real-time PCR assays. Genomic DNA was extracted from coronary artery disease patients using solution-based conventional protocols such as the phenol-chloroform/proteinase-K method and a non-phenolic non-enzymatic Rapid-Method, which were evaluated and compared vis-a-vis a commercially available silica column-based Blood DNA isolation kit...
September 29, 2016: Molecular Biology Reports
Soo Hwan Kim, Gi Jin Kim, Tsukuru Umemura, Seung Gwan Lee, Kyung Jin Cho
In order to investigate whether plasma microRNA-33a (miR-33a) can be a biomarker for the early detection of atherosclerosis and to reexamine the assumption that miR-33a represses the expression of ABCA1, we compared the expression levels of miR-33a and ATP-binding cassette A1 (ABCA1) using human plasma and supernatants of macrophage cultured media. We first separated ample number of plasma samples from left-over whole blood samples based on the criteria for normal or dyslipidemia, and stored them at -20 °C until use...
September 23, 2016: Molecular Biology Reports
Gaurav Kumar Singh, Sharanbasappa Shrimant Karade, Rajeev Ranjan, Nafees Ahamad, Shakil Ahmed
The mitotic arrest deficiency 2 (Mad2) protein is an essential component of the spindle assembly checkpoint that interacts with Cdc20/Slp1 and inhibit its ability to activate anaphase promoting complex/cyclosome (APC/C). In bladder cancer cell line the C-terminal residue of the mad2 gene has been found to be deleted. In this study we tried to understand the role of the C-terminal region of mad2 on the spindle checkpoint function. To envisage the role of C-terminal region of Mad2, we truncated 25 residues of Mad2 C-terminal region in fission yeast S...
September 23, 2016: Molecular Biology Reports
Michaela Necesankova, Leona Vychodilova, Katerina Albrechtova, Lorna J Kennedy, Jan Hlavac, Kamil Sedlak, David Modry, Eva Janova, Mirko Vyskocil, Petr Horin
The purpose of this study was to seek associations between immunity-related molecular markers and endemic infections in a model population of African village dogs from Northern Kenya with no veterinary care and no selective breeding. A population of village dogs from Northern Kenya composed of three sub-populations from three different areas (84, 50 and 55 dogs) was studied. Canine distemper virus (CDV), Hepatozoon canis, Microfilariae (Acantocheilonema dracunculoides, Acantocheilonema reconditum) and Neospora caninum were the pathogens studied...
September 21, 2016: Molecular Biology Reports
Ying Lei, Yang Wang, Virpi Ahola, Shiqi Luo, Chongren Xu, Rongjiang Wang
The Glanville fritillary butterfly (Melitaea cinxia; Nymphalidae) has been extensively studied as a model species in metapopulation ecology. We investigated in the earlier studies that female butterflies exhibit higher thermal tolerance than males in the Tianshan Mountains of China. We aim to understand the molecular mechanism of differences of thermal responses between sexes. We used RNA-seq approach and performed de novo assembly of transcriptome to compare the gene expression patterns between two sexes after heat stress...
September 20, 2016: Molecular Biology Reports
Yun Jeong Kim, Jae Yoon Kim, Jin Seok Yoon, Dae Yeon Kim, Min Jeong Hong, Yong Weon Seo
Gibberellic acid (GA) is involved in the regulation of plant growth and development. We defined GA-stimulated transcript (GAST) gene family and characterized its four members (TaGAST1, 2, 3, and 4) in wheat spikes. Triticum aestivum whole spikes were collected at ten developmental stages and dehulled spikelets were obtained at various days after flowering. Expression of TaGAST1, 2, 3, and 4 was analyzed using RT-PCR at inflorescence development stages, in different tissues, and after phytohormones application...
September 20, 2016: Molecular Biology Reports
Balraj Singh Gill, Sanjeev Kumar, Navgeet
Evaluating anti-oxidant potential of Ganoderic acid A in STAT 3 pathway in Prostate cancer. Molecular docking and ADMET activities of different isoforms of ganoderic acid on STAT 3 pathway were performed by Maestro 9.6 (Schrödinger Inc). The ganoderic acid A is best-docked among isoforms which analyses the expression level of antioxidant and STAT 3 pathway in PC-3 cells. The receptor-based molecular docking reveals the best binding interaction of SH2 domain of STAT3 and ganoderic acid A with GScore (-6.134), kcal/mol, Lipophilic EvdW (-1...
September 17, 2016: Molecular Biology Reports
Lukasz Lechowicz, Magdalena Chrapek, Jozef Gaweda, Mariusz Urbaniak, Iwona Konieczna
Rheumatoid arthritis is an autoimmune inflammatory disease leading to joint cartilage, bone degradation and limitation of mobility. Diagnosis of RA is difficult and complex. There are also no effective methods for clear discrimination between RA patients and non-RA individuals. In this work we use IR spectroscopy to differentiate RA patients and blood donors' sera. We found differences between investigated sera (RA and non-RA) in range of 3000-2800 and 1800-800 cm(-1) (W1-W5 regions). Based on mathematical analysis we developed a K-NN model characterized by 85 % of sensitivity and 100 % of specificity...
September 17, 2016: Molecular Biology Reports
Ira Vashisht, Tarun Pal, Hemant Sood, Rajinder S Chauhan
Transcriptional regulation of picrosides biosynthesis, the iridoid glycosides of an endangered medicinal herb, Picrorhiza kurroa, is completely unknown. P. kurroa plants obtained from natural habitat accumulate higher picrosides than in-vitro cultured plants, which necessitates identification of transcription factors (TFs) regulating their differential biosynthesis. The current study investigates complete spectrum of different TF classes in P. kurroa transcriptomes and discerns their association with picrosides biosynthesis...
September 15, 2016: Molecular Biology Reports
Ankita Kumari, Charu Bahl, Navneet Singh, Digambar Behera, Siddharth Sharma
p53 helps in maintaining genomic stability by undergoing cellular arrest, DNA repair or cellular apoptosis during DNA damage. So, as to find the association of p53Arg (72) Pro towards lung carcinogenesis and overall survival of North Indian lung cancer patients, single nucleotide polymorphic variant (rs1042522) was analyzed. 840 subjects including 420 cases and 420 controls were recruited and genotyped using PCR-RFLP technique for p53Arg (72) Pro polymorphic site. Association was analyzed using adjusted odds ratio along with its confidence intervals (95 % CI) and p value predicted from logistic regression whereas overall survival for lung cancer patients was obtained using Kaplan-Meir and Cox regression model for different parameters to obtain hazard ratio and survival time with statistical significance (log-rank p value)...
September 10, 2016: Molecular Biology Reports
Carmen G Ossa, Isabel Larridon, Gioconda Peralta, Pieter Asselman, Fernanda Pérez
The aim of this study was to develop microsatellite markers as a tool to study population structure, genetic diversity and effective population size of Echinopsis chiloensis, an endemic cactus from arid and semiarid regions of Central Chile. We developed 12 polymorphic microsatellite markers for E. chiloensis using next-generation sequencing and tested them in 60 individuals from six sites, covering all the latitudinal range of this species. The number of alleles per locus ranged from 3 to 8, while the observed (Ho) and expected (He) heterozygosity ranged from 0...
September 8, 2016: Molecular Biology Reports
Nor Asiah Ismail, M Y Rafii, T M M Mahmud, M M Hanafi, Gous Miah
Ginger is an economically important and valuable plant around the world. Ginger is used as a food, spice, condiment, medicine and ornament. There is available information on biochemical aspects of ginger, but few studies have been reported on its molecular aspects. The main objective of this review is to accumulate the available molecular marker information and its application in diverse ginger studies. This review article was prepared by combing material from published articles and our own research. Molecular markers allow the identification and characterization of plant genotypes through direct access to hereditary material...
September 1, 2016: Molecular Biology Reports
Gaiping Wang, Congcong Zhao, Shasha Chen, Xiaofang Li, Ling Zhang, Cuifang Chang, Cunshuan Xu
Osteopontin (OPN) is a member of Th1 cytokine secreted by activated lymphocytes and macrophages. However, it deserves to be studied whether OPN could promote cell activation or proliferation, and then facilitate hepatic self-repair during liver regeneration (LR). This study is designed to further reveal the effects of OPN on LR in vivo. Firstly, quantitative reverse transcription-PCR (qRT-PCR) and western blot (WB) were utilized to validate the expression profile of endogenous OPN in rat regenerating livers after partial hepatectomy (PH)...
September 1, 2016: Molecular Biology Reports
G Cecener, G Guney Eskiler, U Egeli, B Tunca, A Alemdar, S Gokgoz, I Tasdelen
The PALB2 gene, has been accepted as a moderate-penetrance gene associated with breast cancer susceptibility and this gene product is involved in the DNA damage repair pathway via co-localization with BRCA2. Germline PALB2 mutations are associated with an increased breast cancer risk. However, the prevalence of the diverse types of PALB2 variants depend on the population. Thus, the aim of the present study was to determine, for the first time, the prevalence of PALB2 variants in a Turkish population of BRCA1/BRCA2-negative early-onset patients with breast cancer...
November 2016: Molecular Biology Reports
Lihe Dai, Xiaohong Chu, Fuzeng Lu, Ruhai Xu
As an important triglyceride hydrolase in mammalian cells, patatin-like phospholipase domain-containing 2 (PNPLA2) predominantly performs the first step in triglyceride hydrolysis. The objective of this study was to detect and evaluate the effects of mutations in the 5' upstream region of porcine PNPLA2 gene with fat deposition and carcass traits. Four single nuclear polymorphisms were identified, including g.161969 T>C, g.161962 A>G, g.161953 C>G and g.161904 G>T, and subsequently genotyped in five pure breeds...
November 2016: Molecular Biology Reports
M Iranmanesh, A Esmailizadeh, M R Mohammad Abadi, Elmira Zand, M S Mokhtari, Dong-Dong Wu
Japanese quail is an animal model in biological studies and also a commercial bird for eggs and meat production. This study was conducted to map quantitative trait loci (QTL) affecting live weight in Japanese quail. An F2 mapping population was developed by crossing two diverse lines (meat type and egg layer) of Japanese quail. A total number of 34 F1 and 422 F2 progeny were produced by reciprocal crossing of eight pairs of parental birds. All the birds from three generations were genotyped for SSR markers that were spread across all the autosomal linkage groups...
November 2016: Molecular Biology Reports
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