Shiraz University Press
Molecular Biology Research Communications
2322-181X
2345-2005
4
3
2015
09
01
In silico structural analysis of quorum sensing genes in Vibrio fischeri
115
124
EN
Mohammed
Z
Al-khayyat
University of Mosul, College of education for pure sciences , Biology department
saeed.mohammed62@yahoo.com
10.22099/mbrc.2015.3075
Quorum sensing controls the luminescence of <em>Vibrio fischeri </em>through the transcriptional activator LuxR and the specific autoinducer signal produced by luxI. Amino acid sequences of these two genes were analyzed using bioinformatics tools. LuxI consists of 193 amino acids and appears to contain five α-helices and six ß-sheets when analyzed by SSpro8. LuxI belongs to the autoinducer synthetase family and contains an acetyltransferase domain extending from residues 24 to 110 as MOTIF predicted. LuxR, on the other hand, contains 250 amino acids and has ten α-helices and four ß-sheets. MOTIF predicted LuxR to possess functional motifs; the inducer binding site extending from amino acid residues 23 to 147 and the LuxR activator site extending between amino acids 182 and 236. The InterProScan5 server identified a winged helix-turn-helix DNA binding motif.
Quorum sensing,Vibrio fischeri,Motifs
https://mbrc.shirazu.ac.ir/article_3075.html
https://mbrc.shirazu.ac.ir/article_3075_ee7ae4dd1fe18151fd93a95886a41fa0.pdf
Shiraz University Press
Molecular Biology Research Communications
2322-181X
2345-2005
4
3
2015
09
01
The phylogenetic position of Myxobolus carnaticus (Myxozoa, Myxosporea, Bivalvulida) infecting gill lamellae of Cirrhinus mrigala (Hamilton, 1822) based on 18S rRNA sequence analysis
125
132
EN
Sayani
Banerjee
Department of Aquatic Animal Health, Faculty of Fishery Sciences, West Bengal University of Animal and Fishery Sciences, Chakgaria, Kolkata, India
banerjeesayani.24@gmail.com
Avjit
Patra
Department of Aquatic Animal Health, Faculty of Fishery Sciences, West Bengal University of Animal and Fishery Sciences, Chakgaria, Kolkata, India
avijitp5@gmail.com
Harresh
Adikasavalu
Department of Aquatic Animal Health, Faculty of Fishery Sciences, West Bengal University of Animal and Fishery Sciences, Chakgaria, Kolkata, India
harreshadikesavalu@gmail.com
Anjan
Mondal
Department of Aquatic Animal Health, Faculty of Fishery Sciences, West Bengal University of Animal and Fishery Sciences, Chakgaria, Kolkata, India
dranjanmondal@gmail.com
Thangapalam
Abraham
298/1 BG patuli
abrahamtj1@gmail.com
10.22099/mbrc.2015.3076
Myxozoans are an economically important group of microscopic parasites best known for the diseases they cause in commercially important fish hosts. The classification of myxosporeans is generally based on the morphology of their myxospores. Without molecular data, it is very difficult to identify new or existing species. DNA sequence information is therefore, a prerequisite to taxonomic and phylogenic studies of myxosporeans. In the present study, a myxozoan parasite, <em>Myxobolus carnaticus</em>,infecting the gill lamellae of mrigal carp, <em>Cirrhinus mrigala</em>,was characterized by the 18S rRNA gene sequence. The DNA sequence of <em>M.</em><em> carnaticus </em>clustered phylogenetically with other gill infecting <em>Myxobolus</em> spp. of freshwater clades, forming a dichotomy with closely related<em> M. pavlovskii </em>(HM991164) that infects the gill lamellae epithelium of silver carp, <em>Hypophthalmichthys molitrix</em> with 95% similarity. Evolutionary pair-wise distances among <em>M. </em><em>carnaticus </em>and other species of myxosporeans indicated high genetic diversity among myxosporeans. The present study demonstrated that tissue tropism, host specificity and habitat play important roles in phylogenetic relationships among myxozoan species.
Cirrhinus mrigala,Myxobolus carnaticus,gill myxoboliasis,Molecular phylogeny
https://mbrc.shirazu.ac.ir/article_3076.html
https://mbrc.shirazu.ac.ir/article_3076_d2169627a3ce7b8215376454782620a4.pdf
Shiraz University Press
Molecular Biology Research Communications
2322-181X
2345-2005
4
3
2015
09
01
Assessment of the vacuolar Na+/H+ antiporter (NHX1) transcriptional changes in Leptochloa fusca L. in response to salt and cadmium stresses
133
142
EN
Hamed
Adabnejad
Department of biotechnology, faculty of agriculture, shahid bahonar university of kerman, kerman, Iran
h.adabnejad@yahoo.com
Hamid Reza
Kavousi
Department of biotechnology, college of agricult, Shahid Bahonar University of Kerman, Kerman, Iran
hrkavousi@yahoo.com
Hadi
Hamidi
Department of biotechnology, faculty of agriculture, shahid bahonar university of Kerman, Kerman, Iran
hadihamidi78@yahoo.com
Iraj
Tavassolian
Department of horticulture, faculty of agriculture, shahid bahonar university of kerman, kerman, Iran
itavasoli@uk.ac.ir
10.22099/mbrc.2015.3115
Sodium/proton exchangers (NHX) are key players in plant responses to salinity and have a central role in establishing ion homeostasis. NHXs can be localized in tonoplast or plasma membranes, where they exchange sodium ions for protons, resulting in the removal of ions from the cytosol into vacuole or extracellular spaces. In the present study, the expression pattern of the gene encoding Na<sup>+</sup>/H<sup>+ </sup>antiporter in the vacuolar membrane (NHX1 gene) in <em>Leptochloa fusca</em> (Kallar grass) was measured by a semi-quantitative RT-PCR method under different treatments of NaCl and CdCl<sub>2</sub>. Results indicated that NaCl positively affected expression levels of <em>Lf</em>NHX1, and that the amount of <em>Lf</em>NHX1 mRNA increased in conjunction with the rise of salinity pressure, This finding suggests that vacuolar Na<sup>+</sup>/H<sup>+</sup> antiporter might play an important role in the salt tolerance ability of kallar grass. The results also showed that cadmium exposure significantly modulated the mRNA expression of the <em>Lf</em>NHX1 gene, suggesting that cadmium exposure disturbed Na<sup>+</sup> homeostasis across the tonoplast and decreased the salt tolerance ability of kallar grass.
Kallar grass,Salt stress,cadmium,NHX1,Semi-quantitative RT-PCR
https://mbrc.shirazu.ac.ir/article_3115.html
https://mbrc.shirazu.ac.ir/article_3115_be446fe6578d0072b75f15d48e88ac68.pdf
Shiraz University Press
Molecular Biology Research Communications
2322-181X
2345-2005
4
3
2015
09
01
The relationship between NQO1 C609T and CAT C-262T genetic polymorphisms and the risk of age-related cataracts
143
149
EN
Narjes
Zarei
Shiraz University
narjeszarei67@gmail.com
Iraj
Saadat
0000-0002-8169-4707
Department of Biology, College of Sciences, Shiraz University
isaadat@shirazu.ac.ir
Majid
Farvardin-Jahromi
Shiraz university of Medical Sciences
farvardi@sums.ac.ir
10.22099/mbrc.2015.3116
Cataract is multi-factorial eye disease identified by the disturbance of the transparent ocular lens. There is significant evidence suggesting oxidative damage as a major cause of initiation and progression of numerous diseases including cataracts. NAD(P)H:quinone oxidoreductase 1 (NQO1; OMIM: 125860) and catalase (CAT, OMIM: 115500) are antioxidant enzymes that prevent cells from oxidative stress. The aim of the present study was to investigate the association between <em>NQO1 C609T</em> (Pro189Ser, rs1800566) and <em>CAT</em> promoter<em> C-262T </em>(rs1001179) genetic polymorphisms and the susceptibility to cataracts. A case-control study including 190 cataracts cases and 190 healthy subjects was carried out. Genotype distributions of <em>NQO1 </em>and <em>CAT </em>polymorphisms were examined using polymerase chain reactions and a restriction fragment length polymorphism (PCR-RFLP) approach to investigate the possible role of these polymorphisms as risk factors in the development of cataracts. Variant CT heterozygous and TT genotypes of the <em>NQO1 C609T</em> polymorphism were found to be associated with an increased risk of cataracts (CT <em>vs</em> CC, OR=1.61, 95%CI: 1.02-2.52, P=0.038), (CT/TT <em>vs</em> CC, OR=1.56, 95%CI: 1.02-2.4, P=0.040). In addition, compared to indoor work places and the CC genotype of <em>NQO1, </em>outdoor work places and CT/TT genotypes of <em>NQO1 </em>were found to increase the risk of age-related cataracts (OR=2.75, 95%CI: 1.20-6.33, P=0.017). The analysis did not reveal, however, any statistically significant (P>0.05) difference between <em>CAT C-262T</em> polymorphism and the risk of cataracts.
Cataract,Cat,Genetic polymorphism,NQO1
https://mbrc.shirazu.ac.ir/article_3116.html
https://mbrc.shirazu.ac.ir/article_3116_42b641e39b90d8f1f2a8049d3a90dbb9.pdf
Shiraz University Press
Molecular Biology Research Communications
2322-181X
2345-2005
4
3
2015
09
01
A theoretical study of benzaldehyde derivatives as tyrosinase inhibitors using Ab initio calculated NQCC parameters
151
159
EN
Marjan
Rafiee
Department of Chemistry, Payame Noor University, Tehran, Iran
rafiee.marjan@gmail.com
Masoumeh
Javaheri
Department of Ceramic, Materials and Energy Research Center, Karaj, Iran
10.22099/mbrc.2015.3118
Tyrosinase is a multifunctional copper-containing enzyme. It can catalyze two distinct reactions of melanin synthesis and benzaldehyde derivatives, which are potential tyrosinase inhibitors. To find the relationships between charge distributions of benzaldehyde and their pharmaceutical behavior, the present study aimed at investigating nuclear quadrupole coupling constants of quadrupolare nuclei in the functional benzaldehyde group and calculating some its derivatives. In addition, the differences between the electronic structures of various derivatives of this depigmenting drug were examined. All ab initio calculations were carried out using Gaussian 03. The results predicted benzaldehyde derivatives to be bicentral inhibitors; nevertheless, the oxygen or hydrogen contents of the aldehyde group were not found to be the only active sites. Furthermore with the presence of the aldehyde group, the terminal methoxy group in C4 was found to contribute to tyrosinase inhibitory activities. In addition, an oxygen atom with high charge density in the side chain was found to play an important role in its inhibitory effect.
Charge density,NQR, Gaussian,quadrupolar nuclei
https://mbrc.shirazu.ac.ir/article_3118.html
https://mbrc.shirazu.ac.ir/article_3118_5511728e3dbaf0e375c46feb89fbc08d.pdf
Shiraz University Press
Molecular Biology Research Communications
2322-181X
2345-2005
4
3
2015
09
01
Identification and molecular cloning of glutamate decarboxylase gene from Lactobacillus casei
161
165
EN
Yasaman
Tavakoli
Department of Biotechnology, Faculty of Advanced Sciences and Technologies, University of Isfahan, Isfahan, Iran.
yasaman.t1988@yahoo.com
Abolghasem
Esmaeili
Department of Biology, Faculty of Sciences, University of Isfahan, Isfahan, Iran.
aesmaeili@sci.ui.ac.ir
Mohammad
Rabbani
Department of Biology, Faculty of Sciences, University of Isfahan, Isfahan, Iran.
m.rabbani@sci.ui.ac.ir
10.22099/mbrc.2015.3119
Gamma-amino butyric acid (GABA) possesses several physiological functions such as neurotransmission, induction of hypotension, diuretic and tranquilizer effects. Production of GABA-enriched products by lactic acid bacteria has been a focus of different researches in recent years because of their safety and health-promoting specifities. In this study, glutamate decarboxylase (<em>gad)</em> gene of a local strains <em>Lactobacillus casei</em> was identified and cloned. In order to clone the <em>gad</em> gene from this strain, the PCR was carried out using primers designed based on conserved regions. The PCR product was purified and ligated into PGEM-T vector. Comparison of obtained sequences shows that this fragment codes the pyridoxal 5′-phosphate binding region. This strain could possibly be used for the industrial GABA production and also for development of functional fermented foods. <em>Gad </em>gene manipulation can also either decrease or increase the activity of enzyme in bacteria.
Gamma-aminobutyric acid,Glutamate decarboxylase,Lactobacillus casei
https://mbrc.shirazu.ac.ir/article_3119.html
https://mbrc.shirazu.ac.ir/article_3119_dc42355185136b63cefae7955dc1a7ae.pdf