ORIGINAL_ARTICLE
Contribution to the molecular systematics of the genus Capoeta from the south Caspian Sea basin using mitochondrial cytochrome b sequences (Teleostei: Cyprinidae)
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.g. trutta, turani, barroisi) characterized by having numerous irregular black spots on the dorsal half of the body. This clade was the sister group to all other Capoeta species and its separation occurred very early in evolution possess, so we considered it as Old Evolutionary Group. Clade II) comprises highly diversified and widespread group, Capoeta damascina complex group (small scale capoeta group), the Anatolian-Iranian group (e.g. banarescui, buhsei, damascina, saadii), characterized by small scales and plain body (absence of irregular black spots on the dorsal half of the body, except in some juveniles) with significantly later speciation event so called Young Evolutionary Group. Clade III) Capoeta capoeta complex group (large scale capoeta group, the Aralo-Caspian group) comprises very closely related taxa characterized by large scales and plain body (absence of irregular black spots on the dorsal half of the body) distributed in Aralo-Caspian water bodies (capoeta, ekmekciae, heratensis, gracilis, sevangi) that has been recently diverged and could be considered as Very Young Evolutionary Group.
https://mbrc.shirazu.ac.ir/article_3608_046ddce3cb34678c0bcc02346d30691e.pdf
2016-06-01
65
75
10.22099/mbrc.2016.3608
Phylogenetic relationship
Evolutionary History
Capoeta Gracilis
Caspian Sea basin
Halimeh
Zareian
h.zareian@gmail.com
1
Ichthyology Research Laboratory, Department of Biology, College of Sciences, Shiraz University, Shiraz, Iran
AUTHOR
Hamid Reza
Esmaeili
hresmaeili22@gmail.com
2
Department of Biology,
College of Sciences,
Shiraz University
LEAD_AUTHOR
Adeleh
Heidari
adeleheidari14@yahoo.com
3
Department of Fisheries, Faculty of Natural Resources, University of Guilan, Sowmeh Sara,Guilan, Iran.
AUTHOR
Majidreza
Khoshkholgh
majidrezagu@yahoo.com
4
Department of Fisheries, Faculty of Natural Resources, University of Guilan, Sowmeh Sara,Guilan, Iran.
AUTHOR
Hamed
Mousavi-Sabet
mosavii.h@gmail.com
5
Department of Fisheries, Faculty of Natural Resources, University of Guilan, Sowmeh Sara,Guilan, Iran.
AUTHOR
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2. Howes GJ. Systematics and biogeography: An overview. [In:] Winfield IJ, Nelson JS (eds) – Cyprinid Fishes: Systematics, biology and explanation. Chapman & Hall, London 1991: 1-33.
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6. Bektas Y, Çiftçi Y, Eroğlu O, Beldüz AO. Genetic discrimination of two Capoeta species in northeastern Anatolia, using mitochondrial 16S rRNA gene. Zool Middle East 2011;53:61-70.
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7. Levin BA, Freyhof J, Lajbner Z, Perea S, Abdoli A, Gaffaroğlu M, Özulug M, Rubenyan HR, SalnikovVB, Doadrio I. Phylogenetic relationships of the algae scraping cyprinid genus Capoeta (Teleostei: Cyprinidae). Mol Phylogenet Evol 2012;62:542-549.
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9. Alwan N. Systematics, taxonomy, phylogeny and zoogeography of the Capoeta damascina species complex (Pisces: Teleostei: Cyprinidae) inferred from comparative morphology and molecular markers (Unpublished doctoral dissertation). Frankfurt University: Frankfurt, 2010; 264 pp.
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27
28. Faria R, Weiss S, Alexandrino P. A molecular phylogenetic perspective on the evolutionary history of Alosa spp. (Clupeidae). Mol Phylogent Evol 2006;40:298-304.
28
ORIGINAL_ARTICLE
Effects of extremely low-frequency electromagnetic field on expression levels of some antioxidant genes in human MCF-7 cells
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. In all three exposure conditions we tried to have total exposure time of 30 minutes. Control cultures were located in the exposure apparatus when the power was off. The experiments were done at two field intensities; 0.25 mT and 0.50 mT. The RNA extraction was done at two times; immediately post exposure and two hours post exposure. The mRNA levels were determined using quantitative real-time polymerase chain reaction. MTT assay for three exposure conditions in the two field intensities represented no cytotoxic effect on MCF-7 cells. Statistical comparison showed a significant difference between 0.25 mT and 0.50 mT intensities for "the 15 min field-on/15 min field-off condition" (Fisher's exact test, P=0.041), indicating that at 0.50 mT intensity field, the number of down-regulated and/or up-regulated genes increased compared with the other ones. However, there is no statistical significant difference between the field intensities for the two others EMF exposure conditions.
https://mbrc.shirazu.ac.ir/article_3609_452ee00079ba20fdf2004d093efb1bd7.pdf
2016-06-01
77
85
10.22099/mbrc.2016.3609
ELF-EMF
antioxidant
Gene expression
MCF-7
Hamideh
Mahmoudinasab
hmahmoudinasab@yahoo.com
1
Department of Biology, College of Sciences, Shiraz University, Shiraz 71467-13565, Iran
AUTHOR
Fatemeh
Sanie-Jahromi
fsanie@shirazu.ac.ir
2
Department of Biology, College of Sciences, Shiraz University, Shiraz 71467-13565, Iran
AUTHOR
Mostafa
Saadat
msaadat41@yahoo.com
3
Department of Biology, College of Sciences, Shiraz University, Shiraz 71467-13565, Iran
LEAD_AUTHOR
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3. Borhani N, Rajaei F, Salehi Z, Javadi A. Analysis of DNA fragmentation in mouse embryos exposed to an extremely low-frequency electromagnetic field. Electromagn Biol Med 2011;30:246-252.
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4. Ivancsits S, Diem E, Pilger A, Rudiger HW, Jahn O. Induction of DNA strand breaks by intermittent exposure to extremely-low-frequency electromagnetic fields in human diploid fibroblasts. Mutat Res 2002;519:1-13.
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5. Dominici L, Villarini M, Fatigoni C, Monarca S, Moretti M. Genotoxic hazard evaluation in welders occupationally exposed to extremely low-frequency magnetic fields (ELF-MF). Int J Hyg Environ Health 2011;215:68-75.
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6. Kirschenlohr H, Ellis P, Hesketh R, Metcalfe J. Gene expression profiles in white blood cells of volunteers exposed to a 50 Hz electromagnetic field. Radiation Res 2012;178:138-149.
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7. Frisch P, Li GC, McLeod K, Laramee CB. Induction of heat shock gene expression in RAT1 primary fibroblast cells by ELF electric fields. Bioelectromagnetics 2013;34:405-413.
7
8. Falone S, Grossi MR, Cinque B, D'Angelo B, Tettamanti E, Cimini A, Di Ilio C, Amicarelli F. Fifty hertz extremely low-frequency electromagnetic field causes changes in redox and differentiative status in neuroblastoma cells. Int J Biochem Cell Biol 2007;39:2093-2106.
8
9. Chen G, Lu D, Chiang H, Leszczynski D, Xu Z. Using model organism Saccharomyces cerevisiae to evaluate the effects of ELF-MF and RF-EMF exposure on global gene expression. Bioelectromagnetics 2012;33:550-560.
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10. Jin YB, Choi SH, Lee JS, Kim JK, Lee JW, Hong SC, Myung SH, Lee YS. Absence of DNA damage after 60-Hz electromagnetic field exposure combined with ionizing radiation, hydrogen peroxide, or c-Myc overexpression. Radiat Environ Biophys 2014;53: 93-101.
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16. Burlaka A, Tsybulin O, Sidorik E, Lukin S, Polishuk V, Tsehmistrenko S, Yakymenko I. Overproduction of free radical species in embryonal cells exposed to low intensity radiofrequency radiation. Exp Oncol 2013;35:219-225.
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17. Campisi A, Gulino M, Acquaviva R, Bellia P, Raciti G, Grasso R, Musumeci F, Vanella A, Triglia A. Reactive oxygen species levels and DNA fragmentation on astrocytes in primary culture after acute exposure to low intensity microwave electromagnetic field. Neurosci Lett 2010;473:52-55.
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18. De Iuliis GN, Newey RJ, King BV, Aitken RJ. Mobile phone radiation induces reactive oxygen species production and DNA damage in human spermatozoa in vitro. PLoS One 2009;4:e6446.
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21. Sobczak A, Kula B, Dancii A. Effects of electromagnetic field on free-radical processes in steelworkers. Part II: Magnetic field influence on vitamin A, E and selenium concentrations in plasma. J Occup Health 2002;44:230-233.
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22. Lisanti MP, Martinez-Outschoorn UE, Lin Z, Pavlides S, Whitaker-Menezes D, Pestell RG, Howell A, Sotgia F. Hydrogen peroxide fuels aging, inflammation, cancer metabolism and metastasis: the seed and soil also needs fertilizer. Cell Cycle 2011;10:2440-2449.
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24. Saify K, Saadat I, Saadat M. Down-regulation of antioxidant genes in human SH-SY5Y cells after treatment with morphine. Life Sci 2016;144:26-29.
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25. Saify K, Saadat M. Expression patterns of antioxidant genes in human SH-SY5Y cells after treatment with methadone. Psychiatry Res 2015;230:116-119.
25
26. Mittler R. Oxidative stress, antioxidants and stress tolerance. Trends Plant Sci 2002;7:405-410.
26
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28
29. Lin X, Nelson WG. Methyl-CpG-binding domain protein-2 mediates transcriptional repression associated with hypermethylated GSTP1 CpG islands in MCF-7 breast cancer cells. CancerRes 2003;63:498-504.
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31.Kula B, Sboczak A, Kuska R. Effects of electromagnetic field on free radical processes in steelworkers. Part I. Magnetic field influence on the antioxidant activity in red blood cells and plasma. J Occup Health 2002;44:226-229.
31
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32
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34
35. Di Loreto S, Falone S, Caracciolo V, Sebastiani P, D'Alessandro A, Mirabilio A, Zimmitti V, Amicarelli F. Fifty hertz extremely low-frequency magnetic field exposure elicits redox and trophic response in rat-cortical neurons. J Cell Physiol 2009;219:334-343.
35
36. Patruno A, Amerio P, Pesce M, Vianale G, Di Luzio S, Tulli A, Franceschelli S, Grilli A, Muraro R, Reale M. Extremely low frequency electromagnetic fields modulate expression of inducible nitric oxide synthase, endothelial nitric oxide synthase and cyclooxygenase-2 in the human keratinocyte cell line HaCat: potential therapeutic effects in wound healing. Br J Dermatol 2010;162:258-266.
36
37
ORIGINAL_ARTICLE
Antioxidant activity of polyphenolic myricetin in vitro cell-free and cell-based systems
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. Moreover, the antitoxic capability of Myc was assessed using MTT method. Data indicated that intracellular ROS are highly toxic and applying low concentration of Myc not only inhibited cellular ROS production but also was accompanying with the protection of cells against the highly toxic and the lethal effects of peroxide compounds. Because of strong correlation between cellular ROS and their cell toxic properties, the higher antioxidant potency of Myc in cell medium resulted in effectively blocking intracellular ROS and protecting cell death. This property is achieved by the help of high polar solubility and cell membrane permeability of Myc.
https://mbrc.shirazu.ac.ir/article_3651_1b1776bea5547b1a18c4e0d34dd08417.pdf
2016-06-01
87
95
10.22099/mbrc.2016.3651
Myricetin
ROS
antioxidant
MTT
FRAP
Abolfazl
Barzegar
barzegar@tabrizu.ac.ir
1
Research Institute for Fundamental Sciences (RIFS), University of Tabriz, Tabriz, Iran
LEAD_AUTHOR
1. Gee JM, Johnson IT. Polyphenolic compounds: interactions with the gut and implications for human health. Curr Med Chem 2001;8:1245-1255.
1
2. Kozłowska A, Szostak-Wegierek D. Flavonoids-food sources and health benefits. Rocz Panstw Zakl Hig 2014;65:79-85.
2
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3
4. Kandaswami C, Middleton E Jr. Free radical scavenging and antioxidant activity of plant flavonoids. Adv Exp Med Biol 1994;366:351-376.
4
5. Pollastri S, Tattini M. Flavonols: old compounds for old roles. Ann Bot 2011;108: 1225-1233.
5
6. Rice-Evans CA, Miller NJ, Paganga G. Structure-antioxidant activity relationships of flavonoids and phenolic acids. Free Radic Biol Med 1996;20:933-956.
6
7. Harnly JM, Doherty RF, Beecher GR, Holden JM, Haytowitz DB, Bhagwat S, Gebhardt S. Flavonoid content of U.S. fruits, vegetables, and nuts. J Agric Food Chem 2006;54:9966-9977.
7
8. Juhasz B, Varga B, Gesztelyi R, Kemeny-Beke A, Zsuga J, Tosaki A. Resveratrol: A multifunctional cytoprotective molecule. Curr Pharm Biotechnol 2010;11:810-818.
8
9. Phillips PA, Sangwan V, Borja-Cacho D, Dudeja V, Vickers SM, Saluja AK. Myricetin induces pancreatic cancer cell death via the induction of apoptosis and inhibition of the phosphatidylinositol 3-kinase (PI3K) signalling pathway. Cancer Lett 2011;308:181-188.
9
10. Chen W, Li Y, Li J, Han Q, Ye L, Li A. Myricetin affords protection against peroxynitrite-mediated DNA damage and hydroxyl radical formation. Food Chem Toxicol 2011;49:2439-2444.
10
11. Kang NJ, Jung SK, Lee KW, Lee HJ. Myricetin is a potent chemopreventive phytochemical in skin carcinogenesis. Ann N Y Acad Sci 2011;1229:124-132.
11
12. Li Y, Ding Y. Minireview: Therapeutic potential of myricetin in diabetes mellitus. Food Sci and Hum Wellness 2012;1:19-25.
12
13. Nöthlings U, Murphy SP, Wilkens LR, Henderson BE, Kolonel LN. Flavonols and pancreatic cancer risk: the multiethnic cohort study. Am J Epidemiol 2007;166: 924–931.
13
14. Kumamoto T, Fujii M, Hou DX. Myricetin directly targets JAK1 to inhibit cell transformation. Cancer Lett 2009;275:17-26.
14
15. Gordon MH, Roedig-Penman A. Antioxidant activity of quercetin and myricetin in liposomes. Chem Phys Lipids 1998;97:79-85.
15
16. Lee KW, Kang NJ, Rogozin EA, Kim HG, Cho YY, Bode AM, Lee HJ, Surh YJ, Bowden GT, Dong Z. Myricetin is a novel natural inhibitor of neoplastic cell transformation and MEK1. Carcinogenesis 2007;28:1918-1927.
16
17. Lin KH, Yang YY, Yang CM, Huang MY, Lo HF, Liu KC, Lin HS, Chao PY. Antioxidant activity of herbaceous plant extracts protect against hydrogen peroxide-induced DNA damage in human lymphocytes. BMC Res Notes 2013;6: 490.
17
18. Wang ZH, Ah Kang K, Zhang R, Piao MJ, Jo SH, Kim JS, Kang SS, Lee JS, Park DH, Hyun JW. Hyun JW. Myricetin suppresses oxidative stress-induced cell damage via both direct and indirect antioxidant action. Environ Toxicol Pharmacol 2010; 29:12-18.
18
19. Barzegar A, Pedersen JZ, Incerpi S, Moosavi-Movahedi AA, Saso L.The mechanism of antioxidant activity of IRFI005 as a synthetic hydrophilic analogue of vitamin E. Biochimie 2011;93:1880-1888.
19
20. Barzegar A. Proton-coupled electron-transfer mechanism for the radical scavenging activity of cardiovascular drug dipyridamole. PLoS One 2012;7:e39660.
20
21. Barzegar A. The role of electron-transfer and H-atom donation on the superb antioxidant activity and free radical reaction of curcumin. Food Chem 2012;135: 1369-1376.
21
22. Erdogan-Orhan I, Sever-Yılmaz B, Altun ML, Saltan G. Radical quenching activity, ferric-reducing antioxidant power, and ferrous ion-chelating capacity of 16 Ballota species and their total phenol and flavonoid contents. J Med Food 2010;13:1537-1543.
22
23. Brieger K, Schiavone S, Miller FJ Jr, Krause KH. Reactive oxygen species: from health to disease. Swiss Med Wkly. 2012;142: w13659.
23
24. Kirkinezosa IG, Moraes CT. Reactive oxygen species and mitochondrial diseases. Semin Cell Dev Biol 2001;12:449–457.
24
ORIGINAL_ARTICLE
Genetic polymorphisms in the promoter region of catalase gene, creates new potential PAX-6 and STAT4 response elements
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. The PAX-6 and STAT4 are the multifunctional and enhancing transcription factors.
https://mbrc.shirazu.ac.ir/article_3662_827b153b8cbdc704d94f8baf088504a1.pdf
2016-06-01
97
100
10.22099/mbrc.2016.3662
Catalase
PAX-6
STAT4
Transcription factors
Khyber
Saify
khaibar.saify@yahoo.com
1
Department of Biology, College of Sciences, Kunduz University, Kunduz, Afghanistan
LEAD_AUTHOR
1. Cross CE, Halliwell B, Borish ET, Pryor WA, Ames BN, Saul RL, McCord JM, Harman D. Oxygen radicals and human disease. Ann Intern Med 1987;107:526-455.
1
2. Guyton KZ, Kensler TW. Oxidative mechanisms in carcinogenesis. Br Med Bull 1993;49:523-544.
2
3. Zhang Y, Zhang L, Sun D, Li Z, Wang L, Liu P. Genetic polymorphisms of superoxide dismutases, catalase, and glutathione peroxidase in age-related cataract. Mol Vis 2011;17:2325-2332.
3
4. Saadat M, Saadat S. Genetic polymorphism of CAT C-262T and susceptibility to breast cancer, a case-control study and meta-analysis of the literatures. Pathol Oncol Res 2015;21:433-437.
4
5. Chang D, Hu ZL, Zhang L, Zhao YS, Meng QH, Guan QB, Zhou J, Pan HZ. Association of catalase genotype with oxidative stress in the predication of colorectal cancer: modification by epidemiological factors. Biomed Environ Sci 2012;2:156-162.
5
6. Ceriello A, Morocutti A, Mercuri F, Quagliaro L, Moro M, Damante G, Viberti GC. Defective intracellular antioxidant enzyme production in type 1 diabetic patients with nephropathy. Diabetes 2000;49:2170-2177.
6
7. Hodgkinson AD, Bartlett T, Oates PJ, Millward BA, Demaine AG. The response of antioxidant genes to hyperglycemia is abnormal in patients with type 1 diabetes and diabetic nephropathy. Diabetes 2003;52:846-851.
7
8. Zarei N, Saadat I, Farvardin-Jahromi M. The relationship between NQO1 C609T and CAT C-262T genetic polymorphisms and the risk of age-related cataracts. Mol Biol Res Commun 2015;3:143-149.
8
9. Ebrahimpour S, Saadat I. Association of CAT C-262T and SOD1 A251G single nucleotide polymorphisms susceptible to gastric cancer. Mol Biol Res Commun 2014;4:223-229.
9
10. Ahn J, NowellS,McCann SE, Yu J, Carter L, Lang NP, Kadlubar FF, Ratnasinghe LD, Ambrosone CB. Associations between catalase phenotype and genotype: modification by epidemiologic factors. Cancer Epidemiol Biomarkers Prev 2006;15:1217-1222.
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11. Nadif R, Mintz M, Jedlicka A, Bertrand JP, Kleeberger SR, Kauffmann F. Association of CAT polymorphisms with catalase activity and exposure to environmental oxidative stimuli. Free Radic Res 2005;39:1345-1350.
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12. Mishra S, Maurya SK, Srivastava K, Shukla S, Mishra R. Pax6 influences expression patterns of genes involved in neuro-degeneration. Ann Neurosci 2015; 4:226-231.
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13. Hebert-Schuster M, Cottart CH, Laguillier-Morizot C, Raynaud-Simon A, Golmard JL, Cynober L, Beaudeux JL, Fabre EE, Nivet-Antoine V. Catalase rs769214 SNP in elderly malnutrition and during renutrition: is glucagon to blame? Free Radic Biol Med 2011;51:1583-1588.
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14. Wang Y, Qu A, Wang H. Signal transducer and activator of transcription 4 in liver diseases. Int J BiolSci 2015;11:448-855.
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15. de Andrade KQ, Moura FA, Dos Santos JM, de Araújo OR, de Farias Santos JC, Goulart MO. Oxidative stress and inflammation in hepatic diseases: therapeutic possibilities of N-acetylcysteine. Int J Mol Sci 2015;16:30269-30308.
15
ORIGINAL_ARTICLE
Molecular characterization and construction of an infectious clone of a pepper isolate of Beet curly top Iran virus
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. Sequence and phylogenetic analysis showed this BCTIV variant grouped with sugar beet isolates of BCTIV and has the highest similarity to a sugar beet BCTIV isolate from Negar town in Kerman province, Iran. It was more distantly related to a bean isolate of BCTIV from northeast region of Iran. A tandem repeat partial dimmer of BCTIV was constructed and found to be infectious in pepper, tomato and Nicotiana benthamiana plants. Results of this study indicated that BCTIV-Kaf is a new variant of BCTIV infecting pepper plants in Shiraz and that geographic location rather than the type of host plant has more effect on genetic diversity of BCTIV in Iran.
https://mbrc.shirazu.ac.ir/article_3707_07ebe3794c000cf3a271d40ca59f1131.pdf
2016-06-01
101
113
10.22099/mbrc.2016.3707
Agroinoculation
BCTIV
Geminivirus
Pepper
Omid
Eini
omid.eini@znu.ac.ir
1
Department of Plant Protection, School of Agriculture, University of Zanjan, Zanjan, Iran
LEAD_AUTHOR
Ghazal
Ebadzad-Sahraei
ghazal@shu.ac.ir
2
Plant Virology Research Center, College of Agriculture, Shiraz University, Shiraz, Iran
AUTHOR
Seyed Ali Akbar
Behjatnia
akbar_behjatnia@hotmail.com
3
Plant Virology Research Center, College of Agriculture, Shiraz University, Shiraz, Iran
AUTHOR
1. Varsani A, Navas-Castillo N, Moriones E, Hernandez-Zepeda C, Idris A, Brown JK, Murilo Zerbini F, Martin FD. Establishment of three new genera in the family Geminiviridae: Becurtovirus, Eragrovirus and Turncurtovirus. Arch Virol 2014;159:2193-2203.
1
2. Varsani A, Martin DP, Navas-Castillo J, Moriones E, Hernandez-Zepeda C, Idris A, Zerbini FZ, Brown JK. Revisiting the classification of curtoviruses based on genome-wide paiwise identity. Arch Virol 2014;159:1873-1882.
2
3. Briddon RW, Stenger DC, Bedford ID, Stanley J, Izadpanah K, Markham PG. Comparison of a beet curly top virus isolate originating from the old world with those from the new world. Eur J Plant Pathol 1998;104:77-84.
3
4. Bolok-Yazdi H, Heydarnejad J, Massumi H. Genome characterization and genetic iversity of beet curly top Iran virus: a geminivirus with a novel nonanucleotide. Virus Genes 2008;36:539-545.
4
5. Gharouni-Kardani S, Heydarnejad J, Zakiaghl M, Mehrvar M, Kraberger S,Varsani A. Diversity of Beet curly top Iran virus isolated from different hosts in Iran. Virus Genes 2013;46:571-575.
5
6. Brown JK, Fauquet CM, Briddon RW, Zerbini M, Moriones E, Navas Castillo J. Geminiviridae, in Virus taxonomy: Ninth Report of the International Committee on Taxonomy of Viruses. King AMQ, Adams MJ, Carstens EB, Lefkowitz EJ, Editors. 2012, Elsevier: London. p. 351-373.
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7
8. Heydarnejad J, Keyvani N, Razavinejad S, Massumi H, Varsani A. Fulfilling Koch’s postulates for beet curly top Iran virus and proposal for consideration of new genus in the family Geminiviridae. Arch Virol 2013;158:435-443.
8
9. Soleimani R, Matic S, Taheri H, Behjatnia SAA, Vecchiati M, Izadpanah K, Accotto GP. The unconventional geminivirus Beet curly top Iran virus: satisfying Koch's postulates and determining vector and host range. Ann Appl Biol 2013;162:174-181.
9
10. Rouhibakhsh A, Priya J, Periasamy M, Haq QMI, Malathi VG. An improved DNA isolation method and PCR protocol for efficient detection of multicomponents of begomovirus in legumes. J Virol Methods 2008;147:37-42.
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11. Heydarnejad J, Hosseini-Abhari E, Bolok Yazdi HR,Massumi H. Curly top of cultivated plants and weeds and report of a unique curtovirus from Iran. J Phytopath 2007;155:321-325.
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13. Fukuta S, Tamura M, Maejima H, Takahashi R, Kuwayama S, Tsuji T, Yoshida T, Itoh K, Hashizume H, Nakajima Y, Uehara Y,Shirako Y. Differential detection of Wheat yellow mosaic virus, Japanese soil-borne wheat mosaic virus and Chinese wheat mosaic virus by reverse transcription loop-mediated isothermal amplification reaction. J Virol Methods 2013;189:348-354.
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15
16. Saeed M, Mansoor S, Rezaian M, Briddon R, Randles J. Satellite DNA β overrides the pathogenicity phenotype of the C4 gene of tomato leaf curl virus but does not compensate for loss of function of the coat protein and V2 genes. Arch Virol 2008;153:1367-1372.
16
17. Ghodoum-Parizipour MH. Distribution of viruses causing sugar beet curly top disease and the effect of temperature on recovery of Beet severe curly top virus-infected plants, in College of Agriculture 2011, Shiraz university: Shiraz.
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18. Chen LF, Vivoda E, Gilbertson RL. Genetic diversity in curtoviruses: a highly divergent strain of Beet mild curly top virus associated with an outbreak of curly top disease in pepper in Mexico. Arch Virol 2011;156:547-555.
18
19. Rentería-Canett I, Xoconostle-Cázares B, Ruiz-Medrano R, Rivera-Bustamante R. Geminivirus mixed infection on pepper plants: Synergistic interaction between PHYVV and PepGMV. Virology 2011;8:104-115.
19
20. Lam N, Creamer R, Rascon J, Belfon R. Characterization of a new curtovirus, Pepper yellow dwarf virus, from chile pepper and distribution in weed hosts in New Mexico. Arch Virol 2009;154:429-436.
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21. Strausbaugh CA, Wintermantel WM, Gillen AM, Eujayl IA. Curly Top Survey in the Western United States. Phytopathology 2008;98:1212-1217.
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23
ORIGINAL_ARTICLE
In silico comparison of Iranian HIV -1 envelop glycoprotein with five nearby countries
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. Receiver-operating characteristic (ROC) curve analysis and Support Vector Machine (SVM) were used to evaluate association between the properties of HIV-1 env glycoprotein of Iran with five nearby countries. The results verify that amino acid composition and four physical and chemical properties (molecular weight, isoelectric point, Aliphatic Index, and grand average of hydropathicity) of HIV-1 env protein in Iran and Russia were not significantly different. In conclusion, the results indicate that in silico techniques provide valuable information for comparing HIV-1 envelop glycoprotein in different geographical locations.
https://mbrc.shirazu.ac.ir/article_3708_14661eb5b5bea08e01738bd022382c79.pdf
2016-06-01
114
121
10.22099/mbrc.2016.3708
Amino acid composition
Envelope glycoprotein
HIV-1
Physical and chemical properties
Maryam
Ghaffari
maryam.gh1986@yahoo.com
1
Department of Biotechnology, Faculty of Advanced Sciences and Technologies, University of Isfahan, Isfahan, Iran.
AUTHOR
Mandana
Behbahani
ma_behbahani@yahoo.com
2
Department of Biotechnology, Faculty of Advanced Sciences and Technologies, University of Isfahan, Isfahan, Iran.
AUTHOR
Hassan
Mohabatkar
h.mohabatkar@ast.ui.ac.ir
3
Department of Biotechnology, Faculty of Advanced Sciences and Technologies, University of Isfahan, Isfahan,Iran.
LEAD_AUTHOR
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