Genetic relationship and identification of <i>Dioscorea polystachya</i> cultivars accessed by ISAP and SCAR markers

Authors

  • Bin Peng 1. College of Horticulture, Nanjing Agricultural University, Nanjing, People’s Republic of China; 2. nstitute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing, People’s Republic of China
  • Yanmei Zhang Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing
  • Xiaoqin Sun Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing
  • Mimi Li Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing
  • Jiayu Xue Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing
  • Yueyu Hang 1. College of Horticulture, Nanjing Agricultural University, Nanjing, People’s Republic of China; 2. nstitute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing, People’s Republic of China

Keywords:

Dioscorea polystachya, Genetic relationship, Identification, ISAP, SCAR

Abstract

A survey of intron sequence amplified polymorphism (ISAP) in conjunction with sequence characterized amplified region (SCAR) was carried out to examine the genetic relationships among 14 Dioscorea polystachya cultivars and identify the most popular cultivar ‘Tiegun’. Our results revealed that there is a high level of polymorphism among these cultivars. Furthermore, in this study, ISAP markers were consistent with the morphological characters of Dioscorea polystachya cultivars and previous hypotheses on the classification of these cultivars into 2 groups via leaf and tuber shapes have been confirmed. Based on morphological characters and molecular data, we show for the first time that D. doryphora might be a single species and another progenitor of these cultivars. An ISAP fragment specific to the ‘Tiegun’ cultivar was converted into a SCAR marker. This marker could be used to discriminate the ‘Tiegun’ cultivar from the other 13 cultivars. Overall, the results of our study provide the foundations for subsequent breeding programs or conservation actions.

https://doi.org/10.2298/ABS150717098P

Received: July 17, 2015; Revised: September 18, 2015; Accepted: September 20, 2015; Published online: October 17, 2016

How to cite this article: Peng B, Zhang Y, Sun X, Li M, Xue J, Hang Y. Genetic relationship and identification of Dioscorea polystachya cultivars accessed by ISAP and SCAR markers. Arch Biol Sci. 2017;69(2):277-84.

Downloads

Download data is not yet available.

References

Mignouna D, Abang M, Asiedu R, Geeta R. True yams (Dioscorea): A biological and evolutionary link between eudicots and grasses. Cold Spring Harbor Protocols. 2009;11(4): emo136.

Wu ZhengYi, Peter H. Raven. Flora of China. In: Ding ZZ, Gilbert M.G, editors. Dioscorea. Vol. 24. Beijing: Science Press; 2000. p. 276-96.

Scarcelli N, Tostain S, Mariac C, Agbangla C, Da O, Berthaud J. Genetic Nature of Yams (Dioscorea sp.) Domesticated by Farmers in Benin (West Africa). Genet Resour Crop Evol. 2006;53(1):121-30.

Scarcelli N, Couderc M, Baco M, Egah J, Vigouroux Y. Clonal diversity and estimation of relative clone age: application to agrobiodiversity of yam (Dioscorea rotundata). BMC Plant Biol. 2013;13(1):178.

Committee CP. Pharmacopoeia of the People's Republic of China. Beijing: Medico-Pharmaceutical Science and Technology Press; 2010. 28p.

Coursey, DG. Yams. An account of the nature, origins, cultivation and utilisation of the useful members of the Dioscoreaceae. London: Longmans Press; 1967. 230p.

Feng XF, Huang LQ, Ge XG, Yang LJ, Yang JY. Textual research on origin and development of genuine medicinal herbs of Shanyao. Chin J Chin Mater Med. 2008;33(7):859-62.

Li YX, Huang DY, Huang XL, Wang Y, Luo HS, Zhou X. Progress of Study on Dioscorea Opposita Thunb. Chin Agric Sci Bull. 2009;25(9):1-6.

Wang F, Liu HY, Lu CT, Bai ZW, Wang TL, Zhang BH. Comparison of the Agronomical Traits and Nutrient Quality among Five Yam Germplasms. J Henan Agric Sci. 2005;3:58-60.

Chai JH, Yan JZ, Huang XH, Ye SJ, Jiang LW J, Gu ZZ. A taxonomical study on varital resource of Dioscorea species. Acta Agric Univ Jiangxiensis. 1999;21(1):53.

Hua SM, Tu QC, Lei FG. Genetic diversity of Dioscorea polystachya Turcz. revealed by RAPD markers. J Plant Genet Resour. 2009;10(2):195-200.

Zhou Y, Guo H, Zhou J. Study on main nutrients in Iron Dioscorea opposita Thunb. Food Nutr China. 2011;3:69-71.

Wang SJ, Gao WY, Liu HY, Chen HX, Yu JG, Xiao PG. Studies on the physicochemical, morphological, thermal and crystalline properties of starches separated from different Dioscorea opposita cultivars. Food Chem. 2006;99(1):38-44.

Sartie A, Asiedu R, Franco J. Genetic and phenotypic diversity in a germplasm working collection of cultivated tropical yams (Dioscorea spp.). Genet Resour Crop Evol. 2012;59(8):1753-65.

Mengesha WA, Demissew S, Fay M, Smith R, Nordal I, Wilkin P. Genetic diversity and population structure of Guinea yams and their wild relatives in South and South West Ethiopia as revealed by microsatellite markers. Genet Resour Crop Evol. 2013;60(2):529-41.

Mukherjee P, Bhat KV. Phylogenetic relationship of wild and cultivated yam species (Dioscorea spp.) of India inferred from PCR–RFLP analysis of two cpDNA loci. Plant Syst Evol. 2013;299(8):1587-97.

Lay HL, Liu HJ, Liao MH, Chen CC, Liu S, Sheu BW. Genetic identification of Chinese drug materials in Yams (Dioscorea spp.) by RAPD analysis. J Food Drug Anal. 2001;9(3):132-8.

Siqueira MVBM, Bonatelli ML, Günther T, Gawenda I, Schmid KJ, Pavinato VAC, Veasey EA. Water yam (Dioscorea alata L.) diversity pattern in Brazil: an analysis with SSR and morphological markers. Genet Resour Crop Evol. 2013;61(3):611-24.

Lu CR, Yu SX, Yu JW, Fan SL, Song MZ, Wang W. Development and appraisement of functional molecular marker: intron sequence amplified polymorphism (ISAP). Hereditas. 2008;30(9):1207-16.

Peng M, Qu L, Wang Q. Seed-specific identification of Larix gmelinii, Larix olgensis, and Larix principis-rupprechtii using sequence-characterised amplified region markers. Biochem Syst Ecol. 2014;55:231-5.

Paran I, Michelmore RW. Development of reliable PCR-based markers linked to downy mildew resistance genes in lettuce. Theoret Appl Genetics. 1993;85(8):985-93.

Cheng J, Long Y, Khan MA, Wei C, Fu S, Fu J. Development and significance of RAPD-SCAR markers for the identification of Litchi chinensis Sonn. by improved RAPD amplification and molecular cloning. Electron J Biotechn. 2015;18(1):35-9.

Cho KH, Shin IS, Kim SH, Kim JH, Kim DH, Shin YU. Identification of Korean pear cultivars using combinations of SCAR markers. Hortic Environ Biote. 2012;53(3):228-36.

Wang DW, Li Y, Li ZQ. Identification of a male-specific Amplified Fragment Length Polymorphism (AFLP) and a Sequence Characterized Amplified Region (SCAR) marker in Eucommia ulmoides Oliv. Int J Mol Sci. 2011;12(1):857-64.

Wu Y, Zhang Z, Chen Y, Wang B, Yang G, Yang W. Authentication of Thailand jasmine rice using RAPD and SCAR methods. Eur Food Res Technol. 2009;229(3):515-21.

Vaillancourt A, Nkongolo KK, Michael P, Mehes M. Identification, characterisation, and chromosome locations of rye and wheat specific ISSR and SCAR markers useful for breeding purposes. Euphytica. 2008;159(3):297-306.

Rajesh MK, Jerard BA, Preethi P, Thomas RJ, Fayas TP, Rachana KE. Development of a RAPD-derived SCAR marker associated with tall-type palm trait in coconut. Sci Hortic. 2013;150(2):312-6.

Asemota HN. A fast, simple, and efficient miniscale method for the preparation of DNA from tissues of yam (Dioscorea spp.). Plant Mol Biol Rep. 1995;13(3):214-8.

Lalitha S. Primer premier 5. Biotechnol Softw I J. 2004;1(6):270-2.

Mengesha WA, Demissew S, Fay M, Smith R, Nordal I, Wilkin P. Genetic diversity and species delimitation in the cultivated and wild Guinea yams (Dioscorea spp.) from Southwest Ethiopia as determined by AFLP (amplified fragment length polymorphism) markers. Genet Resour Crop Evol. 2013;60(4):1-11.

Sonibare MA, Asiedu R, Albach DC. Genetic diversity of Dioscorea dumetorum (Kunth) Pax using amplified fragment length polymorphisms (AFLP) and cpDNA. Biochem Syst Ecol. 2010;38(3):320-34.

Lucic A, Popovic V, Nevenic M, Ristic D, Rakonjac L, Cirkovic-Mitrovic T, Mladenović-Drinić S. Genetic diversity of Scots pine (Pinus sylvestris L.) populations in Serbia revealed by SSR markers. Arch Biol Sci. 2014;66(4):1485-92.

Gradzielewska A, Tyrka M, Lesniowska-Nowak J, Nazaruk J. Genetic Relationships Among Representatives of Dasypyrum, Secale and Triticum Species Revealed with RAPD and ISSR Markers. Not Bot Horti Agrobot Cluj Napoca. 2014;42(2):420-30.

Zhao L, Liu H, Cai G, Xia M. Assessment of the genetic diversity and genetic relationships of Lilium in China using ISSR markers. Biochem Syst Ecol.2014;55(4):184-9.

Narzary D, Mahar KS, Rana T, Ranade S. Analysis of genetic diversity among wild pomegranates in Western Himalayas, using PCR methods. Sci Hortic. 2009;121(2):237-42.

Diez CM, Trujillo I, Martinez-Urdiroz N, Barranco D, Rallo L, Marfil P, Gaut BS. Olive domestication and diversification in the Mediterranean Basin. New Phytol. 2015;206(1):436-47.

Mignouna HD, Dansi A. Yam (Dioscorea ssp.) domestication by the Nago and Fon ethnic groups in Benin. Genet Resour Crop Evol. 2003;50(5):519-28.

Nascimento WF, Rodrigues JF, Koehler S, Gepts P, Veasey EA. Spatially structured genetic diversity of the Amerindian yam (Dioscorea trifida L.) assessed by SSR and ISSR markers in Southern Brazil. Genet Resour Crop Evol. 2013;60(8):2405-20.

Schaal B, Hayworth D, Olsen K, Rauscher J, Smith W. Phylogeographic studies in plants: problems and prospects. Molec Ecol. 1998;7(4):465-74.

Babil P, Kondo S, Iwata H, Kushikawa S, Shihiwachi H. Intra-specific ploidy variations in cultivated Chinese yam (Dioscorea polystachya Turcz.). Trop Agr Develop. 2013;57(3):101-7.

Hsu KM, Tsai JL, Chen MY, Ku HM, Liu SC. Molecular phylogeny of Dioscorea (Dioscoreaceae) in East and Southeast Asia. Blumea. 2013;58(1):21-7.

Zhang ZY, Xie CX, Huang XS, Chui YJ. Comparison of quality of rhizome Dioscorea between geo-authentic and non-authentic producing areas. Res Pract Chin Med. 2003;17(1):19-21.

Zhang WM, Shan CY, He HL, Jiang HF, Zhang J. Quality comparison between two cultivated Chinese yam Kunming yam and Tiegun yam. Chin Med Mat. 2007;30(5):513-5.

Downloads

Published

2017-05-25

How to Cite

1.
Peng B, Zhang Y, Sun X, Li M, Xue J, Hang Y. Genetic relationship and identification of &lt;i&gt;Dioscorea polystachya&lt;/i&gt; cultivars accessed by ISAP and SCAR markers. Arch Biol Sci [Internet]. 2017May25 [cited 2024Nov.22];69(2):277-84. Available from: https://serbiosoc.org.rs/arch/index.php/abs/article/view/1725

Issue

Section

Articles

Most read articles by the same author(s)