Constructing DNA fingerprinting of Hemarthria cultivars using EST-SSR and SCoT markers

详细信息    查看全文

• 作者：Linkai Huang (1)
  Xiu Huang (1)
  Haidong Yan (1)
  Guohua Yin (2)
  Xinquan Zhang (1)
  Ye Tian (1)
  Yu Zhang (1)
  Xiaomei Jiang (1)
  Yanhong Yan (1)
  Xiao Ma (1)
  Yan Peng (1)
  Jiangning Zhou (1)
  Gang Nie (1)
  
• 关键词：Cultivars ; DNA fingerprinting ; EST ; SSR ; Hemarthria ; SCoT
• 刊名：Genetic Resources and Crop Evolution
• 出版年：2014
• 出版时间：August 2014
• 年：2014
• 卷：61
• 期：6
• 页码：1047-1055
• 全文大小：1,790 KB
• 参考文献：1. Chen YX, Zhang XQ, Xie WG, Ma X, Liu Y (2011) Genetic diversity of / Hemarthria compressa germplasms from southwestern China based on EST-SSR markers. Acta Pratacul Sin 6:245-53
  2. Cherif-Mouaki S, Said M, Alvarez JB, Cabrera A (2011) Sub-arm location of prolamin and EST-SSR loci on chromosome 1Hch from / Hordeum chilense. Euphytica 178:63-9 CrossRef
  3. de Carvalho DD, Goncalez DD, Ghisi OMAA (1996) Agronomic evaluation of seven accessions of / Hemarthria altissima (Poir.) Stapf et CE Hubb in Pindamonhangaba, Sao Paulo. Rev Soc Bras Zoo 25:825-36
  4. Gupta PK, Balyan HS, Sharma PC, Ramesh B (1996) Microsatellites in plants: a new class of molecular markers. Curr Sci India 70:45-4
  5. Holton TA, Christopher JT, McClure L, Harker N, Henry RJ (2002) Identification and mapping of polymorphic SSR markers from expressed gene sequences of barley and wheat. Mol Breed 9:63-1 CrossRef
  6. Hong YB, Chen XP, Liang XQ, Liu HY, Zhou GY, Li SX, Wen SJ, Holbrook CC, Guo BZ (2010) A SSR-based composite genetic linkage map for the cultivated peanut ( / Arachis hypogaea L.) genome. BMC Plant Biol 10:17 CrossRef
  7. Hu JB, Li JW, Liang FF, Liu LJ, Si SW (2010) Genetic relationship of a cucumber germplasm collection revealed by newly developed EST-SSR markers. J Genet 89:28-2
  8. Huang LK, Zhang XQ, Ma X, Liu W, Li F, Zeng B (2008) Genetic differentiation among / Hemarthria compressa populations in south China and its genetic relationship with / H. japonica. Hereditas 145:84-1 CrossRef
  9. Huang LK, Zhang XQ, Xie WG, Zhang J, Cheng L, Yan HD (2012) Molecular diversity and population structure of the forage grass / Hemarthria compressa (Poaceae) in south China based on SRAP markers. Genet Mol Res 11:2441-450 CrossRef
  10. Kantety RV, Rota ML, Matthews DE, Sorrells ME (2002) Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat. Plant Mol Biol 48:501-10 CrossRef
  11. Kojima T, Nagaoka T, Noda K, Ogihara Y (1998) Genetic linkage map of ISSR and RAPD markers in Einkorn wheat in relation to that of RFLP markers. Theor Appl Genet 96:37-5 CrossRef
  12. Luo C, He XH, Chen H, Ou SJ, Gao MP (2010) Analysis of diversity and relationships among mango cultivars using start codon targeted (SCoT) markers. Biochem Syst Ecol 38:1176-184 CrossRef
  13. Luo C, He XH, Chen H, Hu Y, Ou SJ (2012) Genetic relationship and diversity of / Mangifera indica L.: revealed through SCoT analysis. Genet Resour Crop Evol 59:1505-515 CrossRef
  14. Prosperi JM, Jenczewski E, Angevain M, Ronfort J (2006) Morphologic and agronomic diversity of wild genetic resources of / Medicago sativa L. collected in Spain. Genet Resour Crop Evol 53:843-56 CrossRef
  15. Quesenberry KH, Dunavin LS, Hodges EM, Killinger GB, Kretschmer AE, Ocumpaugh WR, Roush RD, Ruelke OC, Schank SC, Smith DC (1979) Registration of Redalta, Greenalta, and Bigalta Limpograss1 (reg. nos. 52, 53, and 54). Crop Sci 19:294 CrossRef
  16. Quesenberry KH, Ocumpaugh WR, Ruelke OC, Dunavin LS, Mislevy P (1987) Registration of ‘Floralta-Limpograss. Crop Sci 27:1087 CrossRef
  17. Rumball PJ, Lambert JP (1981) Plant introduction trials: performance of some subtropical grasses in Northland. N Z J Exp Agric 9:79-3
  18. Saha MC, Rouf Mian MA, Eujayl I, Zwonitzer JC, Wang LJ, May GD (2004) Tall fescue EST-SSR markers with transferability across several grass species. Theor Appl Genet 109:783-91 CrossRef
  19. Shi J, Song BT, Jing KJ, Liu J (2012) Genetic diversity and fingerprinting of 50 pigmented potato ( / Solanum tuberosum L.) genotypes with SSR markers. J Agric Biotechnol 20:362-71
  20. Siise A, Massawe FJ (2013) Microsatellites based marker molecular analysis of Ghanaian bambara groundnut ( / Vigna subterranea (L.) Verdc.) landraces alongside morphological characterization. Genet Resour Crop Evol 60:777-87 CrossRef
  21. Tang CS, Young CC (1982) Collection and identification of allelopathic compounds from the undisturbed root system of bigalta limpograss ( / Hemarthria altissima). Plant Physiol 69:155-60 CrossRef
  22. Teng HT, Lv B, Zhao JR, Xu Y, Wang FG, Du YY, Yang K, Tang H, Li XY (2009) DNA fingerprint profile involved in plant variety protection practice. Biotechnol Bull 1:3-
  23. Thiel T, Michalek W, Varshney R, Graner A (2003) Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley ( / Hordeum vulgare L.). Theor Appl Genet 106:411-22
  24. Yang CH, Zhang XQ, Li XL, Du Y, Wu Y (2004) / Hemarthria germplasm resources and breeding. Acta Pratacul Sin 132:7-2
  25. Zhang L, Bernard M, Leroy P, Feuillet C, Sourdille P (2005) High transferability of bread wheat EST-derived SSRs to other cereals. Theor Appl Genet 111:677-87 CrossRef
  26. Zhang LY, Zhao QD, Liu HK, Shang YJY (2007) Application and research progress of forage species and cultivars by fingerprint technology. Anim Husb Feed Sci 28:41-4
  27. Zhao LP, Liu LW, Gong YQ, Wang MX, Yu FM, Wang LZ (2007) Cultivar fingerprinting in radish ( / Raphanus sativus) with SRAP and AFLP marker. Bull Bot Res 27:687-93
  28. Zhu YF, Qin GC, Hu J, Wang Y, Wang JC, Zhu SJ (2012) Fingerprinting and variety identification of rice ( / Oryza sativa L.) based on simple sequence repeat markers. Plant Omics 5:421-26
  
• 作者单位：Linkai Huang (1)
  Xiu Huang (1)
  Haidong Yan (1)
  Guohua Yin (2)
  Xinquan Zhang (1)
  Ye Tian (1)
  Yu Zhang (1)
  Xiaomei Jiang (1)
  Yanhong Yan (1)
  Xiao Ma (1)
  Yan Peng (1)
  Jiangning Zhou (1)
  Gang Nie (1)
  
  1. Department of Grassland Science, College of Animal Science and Technology, Sichuan Agricultural University, Ya’an, 625014, Sichuan, China
  2. College of Agriculture Life Science, The University of Arizona, Tucson, AZ, 85721, USA
  
• ISSN：1573-5109

文摘

DNA fingerprinting of known cultivars may provide much-needed data to assist with the identification of such cultivars. From 86 pairs of expressed sequence tag SSRs (EST-SSR) and 45 start-codon targeted polymorphism (SCoT) primers, eight pairs of EST-SSR primers and seven SCoT primers were chosen to construct the DNA fingerprinting of six Hemarthria cultivars in this study. Using genomic DNA from six cultivars, a total of eight pairs of EST-SSR primers were able to amplify 193 bands, producing an average of 24.1 bands per primer pair. The percentage of polymorphic bands (PPB) was 83.4?%, and the polymorphism information content (PIC) ranged from 0.480 to 0.695, with an average of 0.602. A total of seven SCoT primers amplified 105 bands with an average of 15 bands per sample. The PPB was 84.8?%, and the PIC ranged from 0.471 to 0.758, with an average of 0.612. The unweighted pair-group method with arithmetic mean dendrogram from EST-SSR and SCoT markers grouped the six Hemarthria cultivars into two major groups of the same. These clusters are in accordance with their known species and origin. Our results indicate a rich genetic diversity in these six Hemarthria cultivars. The six cultivars we assayed could be easily identified using these eight pairs of EST-SSR and seven pairs of SCoT primers.