| تعداد نشریات | 284 |
| تعداد نشریات سازمان | 82 |
| تعداد شماره‌ها | 3,069 |
| تعداد مقالات | 34,253 |
| تعداد مشاهده مقاله | 47,028,583 |
| تعداد دریافت فایل اصل مقاله | 77,956,447 |
شناسایی نشانگرهای چندشکل ریزماهواره در چغندرقند | ||
| چغندرقند | ||
| مقاله 7، دوره 32، شماره 2، آذر 1395، صفحه 173-182 اصل مقاله (274.5 K) | ||
| نوع مقاله: کامل علمی - پژوهشی | ||
| شناسه دیجیتال (DOI): 10.22092/jsb.2016.107057 | ||
| نویسندگان | ||
| اصغر میرزائی اصل* 1؛ محمدحسین صفری2؛ علی دلجو3؛ فرشاد دشتی3 | ||
| 1دانشگاه بوعلی سینا | ||
| 2دانش آموخته کارشناسی ارشد دانشگاه بوعلی سینا | ||
| 3عضو هیئت علمی-دانشگاه بوعلی سینا | ||
| چکیده | ||
| به منظور شناسایی نشانگرهای SSR و EST-SSR در چغندر قند، مجموعا 2884 توالی EST و همچنین توالی ژن FLC-Like، یکی از ژنهای کلیدی کنترل کننده گلدهی در چغندر، از پایگاه NCBI استخراج شد. بعد از انجام سرهمبندی توالیها و ساخت توالیهای غیر تکراری، همه کانتیگها به منظور شناسایی SSRsهای دو تا شش نوکلئوتیدی مورد جستجو قرار گرفتند. سپس طراحی آغازگرهای اختصاصی از نواحی حفاظت شده اطراف این SSRها انجام شد. تعداد 300 توالی معادل 14 درصد از کل توالیهای EST دارای ریزماهواره بودند و به طور متوسط نواحی بیان شونده در چغندرقند به ازای هر 4/6 کیلو باز دارای یک ریزماهواره بوده و فراوانترین آنها تکرارهای سه تایی (36/33) بودند. تعدا 15 جفت آغازگر اختصاصی طراحی شده بر روی 12 رقم و لاین چغندر با آزمون PCR بررسی شد و شش نشانگر چندشکل شناسایی شد که چهار مورد از آنها از توالیهای ژنهای کنترل کننده گلدهی هستند. این نشانگرها قادر به تولید دو تا چهار الل در هر مکان بوده و محتوای اطلاعات چندشکلی (PIC) آنها بین 0/4 تا 0/66 بود. این اطلاعات EST-SSR و نشانگرهای جدید SSR شناسایی شده، منابع مهمی برای مطالعات ژنتیکی، تاکسونومی، اصلاح مولکولی، شناسایی ارقام در مطالعات آینده بر روی چغندر قند است. | ||
| کلیدواژه‌ها | ||
| چغندر قند؛ ژنهای گلدهی؛ نشانگر؛ EST | ||
| عنوان مقاله [English] | ||
| Development of polymorphic microsatellite markers for sugar beet (Beta vulgaris L.) | ||
| نویسندگان [English] | ||
| Asghar Mirzaie-asl1؛ | ||
| 1Bu-Ali Sina University | ||
| چکیده [English] | ||
| A total of 2884 Expressed Sequence Tags (EST) and genomic sequence of FLC-Like gene, a major gene controlling the flowering time in sugar beet, were extracted from NCBI database. After sequence alignment and construction of unrepeated primers, all contigs were surveyed for identification of 2-6 bp SSRs. Then, specific primers were designed from the conserved regions around the SSRs. Three hundred consensus sequences (14% of all EST sequences) contained SSRs with an average of 4.6 kb of expressed region of genome for one SSR. Trinucleotide repeats were the most frequent (36.33%) SSRs. Among the 15 specific primer pairs tested with PCR on 12 beet accessions, cultivars, and lines, six polymorph markers were identified four of which were the sequences of the flowering genes. These markers were able to generate 2-4 alleles per locus with minimum and maximum polymorphic information content (PIC) of 0.4 and 0.66, respectively. This EST-SSRs dataset and new identified SSR markers may be used as important sources for genetic and taxonomic studies, molecular breeding and identification of sugar beet varieties in the future studies. | ||
| کلیدواژه‌ها [English] | ||
| beta vulgaris, EST, flowering genes, SSR markers | ||
| مراجع | ||
|
Bastow R, Mylne JS, Lister C, Lippman Z, Martienssen RA, Dean C. Vernalization requires epigenetic silencing of FLC by histone methylation. Nature. 2004; 427: 164-167.
Cai D, Kleine M, Kifle S, Horloff HJ, Sandal NN, Marcker KA, Lankhorst RMK, Salentijn EMJ, Lange W, Stiekema WJ, Wyss V, Grundler FMW, Jung C. Positional cloning of a gene for nematode resistance in sugar beet. Science. 1997; 275: 832-834.
Callen DF, Thompson AD, Shen Y, Phillips HA, Richards RI, Mulley JC, Sutherland GR. Incidence and origin of null alleles in the (AC)n microsatellite markers. American Journal of Human Genetics. 1993; 52: 922–927.
Christopher MR, Mary B, Sharon EM, Steve K, Lee P. Polymorphic microsatellite markers for inferring diversity in wild and domesticated sugar beet (Beta vulgaris). Mol. Ecol. Not. 2004; 4:243-245.
Cordeiro GM, Casu R, Mcintyre Cl, Manners JM, Henry RJ. Microsatellite markers from sugar cane (Saccharum spp.) ESTs cross transferable to erianthus and sorghum. Plant Science. 2001; 160: 1115-1123.
Crevillen P, Dean C. Regulation of the floral repressor gene FLC: the complexity of transcription in a chromatin context. Current opinion in plant biology. 2011;14: 38-44.
Cureton AN, Burns MJ, Ford-Lloyd BV, Newbury HJ. Development of simple sequence repeat (SSR) markersfor the assessment of gene flow between sea beet (Beta vulgaris ssp. maritima) populations. Mol. Ecol. Not. 2002; 2: 402-403.
Ellis JR, Burke JM. EST-SSRs as a resource for population genetic analyses. Heredity. 2007; 99: 125-132.
Eujay I, Sledge Mk, Wang L, May GD, Chekhovskiy K, Zwonitzer JC, Mian MAR. Medicago truncatula EST-SSRs reveal cross-species genetic markers for Medicago spp. Theoretical and Applied Genetics. 2004; 108: 414-422.
Eujay I, Sorells M, Baum M, Wolters P, Powll. Assessment of genotypic variation among cultivated durum wheat based on EST-SSRs and genomic SSRs. Euphytica. 2001; 119: 39–43.
Gao LF, Tang J, Li H, Jia J. Analysis of microsatellites in major crops assessed by computational and experimental approaches. Molecular Breeding. 2003; 12: 245–261.
Gupta PK, Rustgim S, Sharma S, Singh R, Kumar N, Balyan. Transferable EST-SSR markers for the study of polymorphism and genetic diversity in bread wheat. Molecular Genetics and Genomics. 2003; 270: 315–323.
Helliwell CA, Wood CC, Robertson M, James Peacock W, Dennis ES. The Arabidopsis FLC protein interacts directly in vivo with SOC1 and FT chromatin and is part of a high‐molecular‐weight protein complex. The Plant Journal. 2006; 46: 183-192.
Hu J, Li J, Liang F, Liu L, Si S. Genetic relationship of a cucumber germplasm collection revealed by newly developed EST-SSR markers. Journal of Genetics. 2010; 89: 28-32.
Kantety RV, Rota ML, Matthews DE, Sorrells. Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat. Plant Molecular Biology. 2002; 48: 501–510.
Kong Q, Xiang C, Yu Z. Development of EST-SSRs in Cucumis sativus from sequence database. Molecular Ecology notes. 2006; 6, 1234-1236.
Laurent V, Devaux P, Thiel F, Mielordt S, Touzet P, Quillet MC. Comparative effectiveness of sugar beet microsatellite markers isolated from genomic libraries and GenBank ESTs to map the sugar beet genome.Theor Appl Genet. 2007; 115: 793-805.
Liu Y, Li Y, Zhou G, Uzokwe N, Chang R, Chen S, Qiu L. Development of Soybean EST-SSR Markers and Their Use to Assess Genet Diversity in the Subgenus Soja. Agricultural sciences in china. 2010; 9(10), 1423-1429.
Marinus JMS, Esselink GD, Everaert I, Riek JD, Vosman B. Characterisation of sugar beet (Beta vulgaris L. ssp. Vulgaris) varieties using microsatellite markers. BMC Genetics. 2010; 11(41): 1-11.
Mayer C. Phobos a tandem repeat search program. IOP Publishing PHOBOS. 2010; http://www.ruhr-uni-bochum.de/ecoevo/cm/cm_phobos.htm
Morgante M, Hanafey M, Powell W. Microsatellites are preferentially associated with non-repetitive DNA in plant genomes. Nat Genet. 2002; 30(2): 194-200.
Rae SJ, Aldam C, Dominguez I., Barnes SR, Edwards KJ. Development and incorporation of microsatellite markersinto the linkage map of sugar beet (Beta vulgaris spp.). Theoretical and Applied Genetics. 2000; 100: 1240-1248.
Richard CM, Brownson M, Mitchell SE, Kresovich S, Panella L. Polymorphic microsatellite markers for inferring diversity in wild and domesticated sugar beet (Beta vulgaris). Molecular Ecology Notes. 2004; 4: 243-245.
Rungis D, Berube Y, Zhang J, Raloh S, Ritland CE, Ellis BE, Douglas C, Bohlmann J, Ritland K. Robust simple sequence repeat markers for spruce (Picea spp.) from expressed sequence tags. Theoretical and Applied Genetics. 2004; 109: 1283–1294.
Safari MH, Mirzaie-asl A. Horizontal Poly-acrylamide Gel Electrophoresis by Agarose Slots. Agricultural biotechnology. 2015; 33-37. (In Persian, abstract in English)
Saha S, Karaca M, Jenkins JN, Zipf AE, Reddy OUK and Kantety RV. Simple sequence repeats as useful resources to study transcribed genes of cotton. Euphytica. 2003; 130: 355–364.
Scott KD, Eggler P, Seaton G, Rossetto M, Ablett EM, Lee LS, Henry RJ. Analysis of SSRs derived from grape ESTs. Theoretical and Applied Genetics. 2000; 100: 723–726.
Shojaei E. study of some flowering controlling genes in sugar beet (Beta vulgaris L.). Msc Thesis. University of Bu-Ali Sina. 2013. (In Persian, abstract in English)
Smulders MJM, Esselink GD, Everaert I, Riek JD, Vosman B. Characterisation of sugar beet (Beta vulgaris L. ssp.vulgaris) varieties using microsatellite markers. BMC Genetics. 2010; 11: 41
Varshney RK, Graner A, Sorrells ME. Genic microsatellite markers in plants: features and applications. Trends in biotechnology. 2005; 23(1): 48-55.
Varshney RK, Thiel T, Stein N, Langridge P, Graner A. In silico analysis on frequency and distribution of microsatellites in ESTs of some cereal species. Cell. Molecular Biology Letter. 2002; 7: 537–546.
Yi G, Lee J, Lee S, Choi D, Kim BD. Exploitation of pepper EST–SSRs and an SSR-base linkage map. Theoretical and Applied Genetics. 2006; 114: 113-130. | ||
|
آمار تعداد مشاهده مقاله: 1,055 تعداد دریافت فایل اصل مقاله: 514 |
||