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Molecular Biology Research Communications

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https://www.readbyqxmd.com/read/28261629/impact-of-heat-shock-step-on-bacterial-transformation-efficiency
#1
Maral Rahimzadeh, Majid Sadeghizadeh, Farhood Najafi, Seyed Arab, Hamid Mobasheri
CaCl2 treatment followed by heat shock is the most common method for artificial transformation. Here, the cells were transformed using CaCl2 treatment either with heat shock (standard protocol) or without heat shock (lab protocol) to comprehend the difference in transformation efficiency. The BL21 strain of Escherichia coli (E. coli) was being susceptible using CaCl2 treatment. Some Cells were kept at -80 (o)C while the others were kept at 4 ˚C. Afterwards the susceptible cells were transformed using either standard or lab protocol...
December 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28261628/partial-and-complete-microdeletions-of-y-chromosome-in-infertile-males-from-south-of-iran
#2
Raheleh Masoudi, Liusa Mazaheri-Asadi, Shahryar Khorasani
Y chromosome microdeletions are the second genetic cause of male infertility. The incidence of Y chromosome microdeletions can vary considerably depending on several factors, including patient selection criteria, population composition, and diagnostic protocols. They are associated with spermatogenic failure and lead to azoospermia or oligozoospermia. The advance in assisted reproductive technology and intracytoplasmic sperm injection, and the possibility of genetic defect transmission to the next generation make it necessary to improve our knowledge about the various factors leading to spermatogenic impairment...
December 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28261627/in-silico-identification-of-mirnas-and-their-target-genes-and-analysis-of-gene-co-expression-network-in-saffron-crocus-sativus-l-stigma
#3
Zahra Zinati, Roohollah Shamloo-Dashtpagerdi, Ali Behpouri
As an aromatic and colorful plant of substantive taste, saffron (Crocus sativus L.) owes such properties of matter to growing class of the secondary metabolites derived from the carotenoids, apocarotenoids. Regarding the critical role of microRNAs in secondary metabolic synthesis and the limited number of identified miRNAs in C. sativus, on the other hand, one may see the point how the characterization of miRNAs along with the corresponding target genes in C. sativus might expand our perspectives on the roles of miRNAs in carotenoid/apocarotenoid biosynthetic pathway...
December 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28261626/influence-of-heparin-molecular-size-on-the-induction-of-c-terminal-unfolding-in-%C3%AE-2-microglobulin
#4
Kanon Fukasawa, Yuichiro Higashimoto, Yoshihiro Motomiya, Yoshinori Uji, Yukio Ando
Dialysis-related amyloidosis (DRA) is characterized by accumulation of amyloid β2- microglobulin (β2m) in the interstitial matrix. Matrix substances such as heparin have reportedly been strongly implicated in the pathogenesis of dialysis-related amyloidosis. In clinical setting of hemodialysis, two types of heparin, i.e., high and low molecular heparin (H.M.H. and L.M.H.) have been routinely used. Still commonly used is H.M.H., followed by L.M.H. preparations with distinct advantages. Here, we studied that the interaction of native and two amyloidogenic β2m variants: ΔN6β2m and D76N β2m with H...
December 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28261625/isolation-and-identification-of-legionella-spp-from-different-aquatic-sources-in-south-west-of-iran-by-molecular-culture-methods
#5
Mohammad Tabatabaei, Zahra Hemati, Maryam-O-Sadat Moezzi, Negar Azimzadeh
Legionella pneumophila, the causative agent of Legionnaires' diseases (LD) is usually transmitted to humans via inhalation of aerosols from contaminated natural and manmade water sources. These organisms may become fatal especially in immunocompromised patients and LD is the one of the important disease from a public health perspective. This survey investigated the frequency of Legionella spp. including L. pneumophila, in some cold and warm water systems in South-West of Iran by culture and PCR methods. Thirty four water samples were collected from diverse water supply systems...
December 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28261624/in-silico-prediction-of-b-cell-epitopes-of-the-extracellular-domain-of-insulin-like-growth-factor-1-receptor
#6
Vahid Bayrami, Mehrnaz Keyhanfar, Hassan Mohabatkar, Manijeh Mahdavi, Violaine Moreau
The insulin-like growth factor-1 receptor (IGF-1R) is a transmembrane receptor with tyrosine kinase activity. The receptor plays a critical role in cancer. Using monoclonal antibodies (MAbs) against the IGF-1R, typically blocks ligand binding and enhances down-regulation of the cell-surface IGF-1R. Some MAbs such as cixutumumab are under clinical trial investigation. Targeting multiple distinct epitopes on IGF-1R, might be an effective strategy to inhibit IGF-1R pathway in cancer. In this study, new linear B cell epitopes for the extracellular domains of IGF-1R were predicted by in silico methods using a combination of linear B cell epitope prediction web servers such as ABCpred, Bepired, BCPREDs, Bcepred and Elliprro...
December 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097172/transcript-levels-of-phytoene-desaturase-gene-in-dunaliella-salina-teod-as-affected-by-pbs-nanoparticles-and-light-intensity
#7
Hajar Zamani, Ali Moradshahi
Phytoene synthase (Psy) and Phytoene desaturase (Pds) are the first two regulatory enzymes in the carotenoids biosynthetic pathway. The genes Psy and Pds are under transcriptional control in many photosynthetic organisms. In the present study, using quantitative real time- PCR (qRT-PCR), the effects of uncoated and gum-Arabic coated PbS nanoparticles (GA-coated PbS NPs) and light intensity on the mRNA levels of Pds were investigated. Relative to mRNA level of Pds at 100 µmol photon m-2 s-1 light intensity (control culture), 2...
September 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097171/structural-insights-into-the-effects-of-charge-reversal-substitutions-at-the-surface-of-horseradish-peroxidase
#8
Leila Navapour, Navid Mogharrab
Horseradish peroxidase (HRP), has gained significant interests in biotechnology, especially in biosensor field and diagnostic test kits. Hence, its solvent-exposed lysine residues 174, 232, and 241 have been frequently modified with the aim of improving its stability and catalytic efficiency. In this computational study, we investigated the effects of Lys-to-Glu substitutions on HRP structure to model charge-reversal manipulations at the enzyme surface. Simulation results implied that upon these substitutions, the number of stable hydrogen bonds and α-helical content of HRP are increased and the proximal Ca2+ binding pocket becomes more integrated...
September 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097170/microsatellite-ssr-amplification-by-pcr-usually-led-to-polymorphic-bands-evidence-which-shows-replication-slippage-occurs-in-extend-or-nascent-dna-strands
#9
Abasalt Hosseinzadeh-Colagar, Mohammad Javad Haghighatnia, Zahra Amiri, Maryam Mohadjerani, Majid Tafrihi
Microsatellites or simple sequence repeats (SSRs) are very effective molecular markers in population genetics, genome mapping, taxonomic study and other large-scale studies. Variation in number of tandem repeats within microsatellite refers to simple sequence length polymorphism (SSLP); but there are a few studies that are showed SSRs replication slippage may be occurred during in vitro amplification which are produced 'stutter products' differing in length from the main products. The purpose of this study is introducing a reliable method to realize SSRs replication slippage...
September 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097169/molecular-characterization-of-argulus-bengalensis-and-argulus-siamensis-crustacea-argulidae-infecting-the-cultured-carps-in-west-bengal-india-using-18s-rrna-gene-sequences
#10
Avijit Patra, Anjan Mondal, Sayani Banerjee, Harresh Adikesavalu, Siddhartha Narayan Joardar, Thangapalam Jawahar Abraham
The present study characterized Argulus spp. infecting the cultured carps using 18S rRNA gene sequences, estimated the genetic similarity among Argulus spp. and established their phylogenetic relationship. Of the 320 fish samples screened, 34 fish (10.6%) had Argulus infection. The parasitic frequency index (PFI) was observed to be high (20%) in Hypophthalmichthys molitrix and Labeo bata. The frequency of infection was high in September (PFI: 17%) and October (PFI: 12.9%). The 18S rRNA sequences of five A. bengalensis (KF583878, KF192316, KM016968, KM016969, and KM016970) and one A...
September 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097168/purification-and-biochemical-properties-of-a-thermostable-haloalkaline-cellulase-from-bacillus-licheniformis-amf-07-and-its-application-for-hydrolysis-of-different-cellulosic-substrates-to-bioethanol-production
#11
Fatemeh Azadian, Arastoo Badoei-Dalfard, Abdolhamid Namaki-Shoushtari, Mehdi Hassanshahian
A thermophilic strain AMF-07, hydrolyzing carboxymethylcellulose (CMC) was isolated from Kerman hot spring and was identified as Bacillus licheniformis based on 16S rRNA sequence homology. The carboxymethylcellulase (CMCase) enzyme produced by the B. licheniformis was purified by (NH4)2SO4 precipitation, ion exchange and gel filtration chromatography. The purified enzyme gave a single band on SDS- PAGE with a molecular weight of 37 kDa. The CMCase enzyme was highly active and stable over broad ranges of temperature (40-80ºC), pH (6...
September 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097167/expression-purification-and-kinetic-characterization-of-recombinant-benzoate-dioxygenase-from-rhodococcus-ruber-ukmp-5m
#12
Arezoo Tavakoli, Ainon Hamzah, Amir Rabu
In this study, benzoate dioxygenase from Rhodococcus ruber UKMP-5M was catalyzed by oxidating the benzene ring to catechol and other derivatives. The benzoate dioxygenase (benA gene) from Rhodococcus ruber UKMP-5M was then expressed, purified, characterized, The benA gene was amplified (642 bp), and the product was cloned into a pGEM-T vector. The recombinant plasmid pGEMT-benA was digested by double restriction enzymes BamHI and HindIII to construct plasmid pET28b-benA and was then ligated into Escherichia coli BL21 (DE3)...
September 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097166/molecular-characterization-of-pasteurella-multocida-isolates-obtained-from-poultry-ruminant-cats-and-dogs-using-rapd-and-rep-pcr-analysis
#13
Hesamaddin Shirzad-Aski, Mohammad Tabatabaei
In the present study, Randomly Amplified Polymorphic DNA (RAPD) and Repetitive Extragenic Palindromic sequence-based Polymerase Chain Reaction (REP- PCR) were used to characterize 131 isolates of Pasteurella multocida, originating from different healthy and diseased animal species obtained from several geographical regions of Iran. The RAPD and REP-PCR generated amplified products in the range of 300 to 3400 bp and 200 to 2850 bp, respectively. Among all of the P. multocida isolates, cluster analysis revealed that 63 clusters and nine untypable isolates and 81 clusters and six untypable isolates were produced with RAPD and REP-PCR methods, respectively...
September 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097165/in-silico-comparison-of-iranian-hiv-1-envelop-glycoprotein-with-five-nearby-countries
#14
Maryam Ghafari, Mandana Behbahani, Hassan Mohabatkar
HIV-1 envelope (env) glycoprotein mediates an important role in entry of the virus into the susceptible target cells. As env glycoprotein of HIV-1 is highly variable in the different geographical regions, in the present study, different properties of this protein in Iran are compared with five nearby countries. The sequences of HIV-1 env glycoproteins of Iran, Afghanistan, Russia, Turkey, Pakistan and Saudi Arabia databases were collected from databases. Amino acid composition and physical and chemical properties of the proteins from these countries were studied using Protparam and COPid tools...
June 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097164/molecular-characterization-and-construction-of-an-infectious-clone-of-a-pepper-isolate-of-beet-curly-top-iran-virus
#15
Omid Eini, Ghazal Ebadzad Sahraei, Seyed Ali Akbar Behjatnia
Geminiviruses cause curly top disease, in dicotyledonous plants which constrains host crop production. Beet curly top Iran virus (BCTIV) is a widespread Becurtovirus (family Geminiviridae) in numerous areas within Iran. In this study, we isolated and analyzed a full-length genomic DNA of a new variant of BCTIV from pepper crops in the Kaftark region, east of Shiraz (proposed acronym: BCTIV-Kaf [IR: Kaf:2016:Pepper]). Infected pepper plants showed shortening of internodes, severe interveinal chlorosis, upward leaf rolling and leaf curling...
June 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097163/genetic-polymorphisms-in-the-promoter-region-of-catalase-gene-creates-new-potential-pax-6-and-stat4-response-elements
#16
Khyber Saify
Catalase (CAT, OMIM: 115500) is an endogenous antioxidant enzyme and genetic variations in the regulatory regions of the CAT gene may alter the CAT enzyme activity and subsequently may alter the risk of oxidative stress related disease. In this study, potential influence(s) of the A-21T (rs7943316) and C-262T (rs1001179) genetic polymorphisms in the CAT promoter region, using the ALGGEN-PROMO.v8.3 online software were analyzed. Our findings show that the A allele at the -21 position creates a new potential binding site for PAX-6 and the T allele at the -262 position changes the TFII-I binding site into STAT4 response element...
June 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097162/antioxidant-activity-of-polyphenolic-myricetin-in-vitro-cell-free-and-cell-based-systems
#17
Abolfazl Barzegar
Myricetin (Myc) is one of the most important flavonoids in diet due to its abundance in foods with the highest antioxidant activity. The antioxidant activity of Myc was studied in cell-free and cell-based systems to evaluate the ROS protection efficiency of Myc. The studies were based on the assessment of reducing power of Myc according to ferric ion reduction and intracellular ROS level measurement by assaying the cellular fluorescence intensity using dichlorodihydrofluorescein (DCF) probe as an indicator for ROS in cells...
June 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097161/effects-of-extremely-low-frequency-electromagnetic-field-on-expression-levels-of-some-antioxidant-genes-in-human-mcf-7-cells
#18
Hamideh Mahmoudinasab, Fatemeh Sanie-Jahromi, Mostafa Saadat
In the past three decades, study on the biological effects of extremely low-frequency electromagnetic fields (ELF-EMFs) has been of interest to scientists. Although the exact mechanism of its effect is not fully understood, free radical processes has been proposed as a possible mechanism. This study was designed to evaluate the effect of 50-Hz EMFs on the mRNA levels of seven antioxidant genes (CAT, SOD1, SOD2, GSTO1, GSTM3, MSGT1, and MSGT3) in human MCF-7 cells. The EMF exposure patterns were: 1) 5 min field-on/5 min filed-off, 2) 15 min field-on/15 min field-off, 3) 30 min field-on continuously...
June 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28097160/contribution-to-the-molecular-systematics-of-the-genus-capoeta-from-the-south-caspian-sea-basin-using-mitochondrial-cytochrome-b-sequences-teleostei-cyprinidae
#19
Halimeh Zareian, Hamid Reza Esmaeili, Adeleh Heidari, Majid Reza Khoshkholgh, Hamed Mousavi-Sabet
Traditionally, Capoeta populations from the southern Caspian Sea basin have been considered as Capoeta capoeta gracilis. Study on the phylogenetic relationship of Capoeta species using mitochondrial cytochrome b gene sequences show that Capoeta population from the southern Caspian Sea basin is distinct species and receive well support (posterior probability of 100%). Based on the tree topologies obtained from Bayesian and Maximum Likelihood methods, three main groups for the studied Capoeta were detected: Clade I) Capoeta trutta group (the Mesopotamian Capoeta group) including closely related taxa (e...
June 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/27844021/no-association-between-gstm1-and-gstt1-genetic-polymorphisms-and-susceptibility-to-opium-sap%C3%A2-dependence
#20
Khyber Saify, Mohammad Rashid Khalighinasab, Mostafa Saadat
Glutathione S-transferases (GSTs; EC: 2.5.1.18) are a ubiquitous family of eukaryotic and prokaryotic phase II metabolic isozymes. Genes encoding GSTM1 (OMIM: 138350), and GSTT1 (OMIM: 600436) are members of class mu and theta, respectively. The most common polymorphism in the GSTM1 is a deletion of the whole GSTM1 gene with a lack of enzyme activity. A homozygous deletion in the GSTT1 has also been reported (null genotypes of GSTT1). The aim of the present study was to investigate the association between GSTM1 and GSTT1 polymorphisms and risk of dependency to opium sap...
March 2016: Molecular Biology Research Communications
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