Fingerprint Construction and Genetic Diversity Analysis of Tree Peony Collected from Hunan Province Based on SSR Markers

Zhengmin Yang; Yang Shi; Jiaqi Shuai; Yanlin Li; Tianjiao Sun; Mengjie Chen; Changping Lv

doi:10.7235/HORT.20210061

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2021 Vol.39, Issue 5 Preview Page

Research Article

Fingerprint Construction and Genetic Diversity Analysis of Tree Peony Collected from Hunan Province Based on SSR Markers

31 October 2021. pp. 684-695

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Abstract

To protect and identify the varieties of tree peony, DNA fingerprints were constructed and genetic diversity was analyzed with simple sequence repeat markers with tailed primer M13 (TP-M13-SSR) technology in 18 local tree peony varieties in Hunan Province of China. Twenty-four out of 131 pairs of polymorphic primers showing stable amplification and good capillary electrophoresis peaks were selected. The Shannon information indexes (I), polymorphism information contents (PICs), and differentiation rates of eight primer pairs were higher than average. Unweighted pair-group method with arithmetic mean (UPGMA) dendrograms indicated that the genetic similarity coefficients of the 18 Hunan tree peony varieties ranged from 0.57 to 0.86, and Paeonia suffruticosa ‘Ning Xiang Hong’ (0.57) was classified as a separate group. The 18 varieties could be completely distinguished with two pairs of primers. The variety names, flower types, fingerprinting codes, and other information were included in the quick response (QR) code, which provides a basis for the molecular identification of Hunan tree peony varieties. The construction of DNA fingerprinting of tree peony varieties in Hunan is important for its protection.

Keywords

capillary electrophoresis

molecular markers

quick response (QR) code

simple sequence repeat with tailed primer M13 (TP-M13-SSR)

unweighted pair-group method with arithmetic mean (UPGMA)

References

Allen GC, Flores-Vergara MA, Krasnyanski S, Kumar S, Thompson WF (2006) A modified protocol for rapid DNA isolation from plant tissues using cetyltrimethylammonium bromide. Nat Protoc 1:2320-2325. doi:10.1038/nprot.2006.384 10.1038/nprot.2006.38417406474

Chen CW, Cao K, Wang LR, Zhu GR, Fang WC (2011) Molecular ID establishment of main China peach varieties and peach related species. Chin Agric Sci 44:2081-2093. doi:10.3864/j.issn.0578-1752.2011.10.013 10.3864/j.issn.0578-1752.2011.10.013

Fan YM, Wang Q, Dong ZJ, Yin YJ, Silva JATD, Yu XN (2020) Advances in molecular biology of Paeonia L. Planta 251:47. doi:10.1007/s00425-019-03299-9 10.1007/s00425-019-03299-931784828

Francis CY, Rong CY, Boyle T (1999) POPGENE, Microsoft Window-based freeware for population genetic analysis. University of Alberta:1-13

Gao Y, Wang K, Wang DJ, Gong X, Liu LJ, Liu FZ (2016) Molecular ID establishment of apple cultivars by TP-M13-SSR. Acta Hortic Sin 43:25-37. doi:10.16420/j.issn.0513-353x.2015-0324 10.16420/j.issn.0513-353x.2015-0324

Gao YL, Zhu RS, Liu CY, Li WF, Jiang HW, LI CD, Yao BC, Hu GH, Chen QS (2009) Establishment of molecular ID in soybean varieties in Heilongjiang, China. Acta Agron Sin 35:211-218. doi:10.3724/sp.J.1006.2009.00211 10.3724/SP.J.1006.2009.00211

Hao L, Zhai YG, Zhang GS, Lu DY, Huang HG (2020) Efficient fingerprinting of the tetraploid Salix psammophila using SSR markers. For 11:176. doi:10.3390/f11020176 10.3390/f11020176

Homolka A, Berenyi M, Burg K, Kopecky D, Fluch S (2010) Microsatellite markers in the tree peony, Paeonia suffruticosa (Paeoniaceae). Am J Bot 97:e42-e44. doi:10.3732/ajb.1000127 10.3732/ajb.100012721622456

Hong DY, Pan KY (1999) Taxonomical history and revision of Paeonia sect. Moutan (Paeoniaceae). Acta Phytotaxon Sin 37:351-368 (Abstract in English)

Hou BX, Liu ZX, Yang XK, Li YZ (2009) History of tree peony cultivation and a native tree peony garden in Hunan. J Chi Urb For 7:52-55. (Abstract in English)

Hou XG, Guo DL, Cheng SP, Zhang JY (2011) Development of thirty new polymorphic microsatellite primers for Paeonia suffruticosa. Bio Plant 55:708-710. doi:10.1007/s10535-011-0172-x 10.1007/s10535-011-0172-x

Keyser ED, Shu QY, Bockstaele EV, Riek JD (2010) Multipoint-likelihood maximization mapping on 4 segregating populations to achieve an integrated framework map for QTL analysis in pot azalea (Rhododendron simsii hybrids). BMC Mol Biol 11:1. doi:10.1186/1471-2199-11-1 10.1186/1471-2199-11-120070894PMC2837023

Kumar PP, Janakiram T, Bhat KV (2020) Microsatellite based DNA fingerprinting and assessment of genetic diversity in bougainvillea cultivars. Gene 753:144794. doi:10.1016/j.gene.2020.144794 10.1016/j.gene.2020.14479432464245

Li Chen (2019) Development of simple sequence repeat (SSR) markers from functional genes and establishment of molecular. MS thesis, Beijing University of Agriculture, Beijing, China

Liu LH, Liu YN, Zhang MM, Li HB, Pang BS, Zhao CP (2020) Construction and comparative analysis of SNP and SSR fingerprints of 75 wheat cultivars in China. J Agric Sci Technol 22:15-23. doi:10.13304/j.nykjdb.2019.1023 (Abstract in English) 10.13304/j.nykjdb.2019.1023

Ma LY, Kong DC, Liu HB, Wang SQ, Li YY, Peng XM (2012) Construction of SSR fingerprint on 36 Chinese jujube cultivars. Acta Hortic Sin 39:647-654. doi:10.16420/j.issn.0513-353x.2012.04.007 (Abstract in English) 10.16420/j.issn.0513-353x.2012.04.007

Nagy S, Poczai P, Cernák I, Gorji AM, Hegedűs G, Taller J (2012) PICcalc: an online program to calculate polymorphic information content for molecular genetic studies. Biochem Genet 50:670-672. doi:10.1007/s10528-012-9509-1 10.1007/s10528-012-9509-122573137

Nei M (1973) Analysis of gene diversity in subdivided populations. Proc Natl Acad Sci USA 70:3321-3323. doi:10.1073/pnas.70.12.3321 10.1073/pnas.70.12.33214519626PMC427228

Ohtsubo KI, Nakamura S (2007) Cultivar identification of rice (Oryza sativa L.) by polymerase chain reaction method and its application to processed rice products. J Agric Food Chem 55:1501-1509. doi:10.1021/jf062737z 10.1021/jf062737z17256960

Powell W, Machray GC, Provan J (1996) Polymorphism revealed by simple sequence repeat. Trends Plant Sci 1:215-222. doi:10.1016/1360-1385(96)86898-1 10.1016/1360-1385(96)86898-1

Rakshit A, Rakshit S, Santhy V, Gotmare VP, Mohan P, Singh VV, Singh S, Singh J, Balyan HS, et al. (2010) Evaluation of SSR markers for the assessment of genetic diversity and fingerprinting of Gossypium hirsutum accessions. J Plant Biochem Biotechnol 19:153-160. doi:10.1007/BF03263335 10.1007/BF03263335

Rojas G, Méndez MA, Munoz C, Lemus G, Hinrichsen P (2008) Identification of a minimal microsatellite marker panel for the fingerprinting of peach and nectarine cultivars. Electron J Biotechnol 11:5. doi:10.2225/vol11-issue5-fulltext-1 10.2225/vol11-issue5-fulltext-1

Schuelke M (2000) An economic method for the fluorescent labeling of PCR fragments. Nat Biotechnol 18:233-234. doi:10.1038/72708 10.1038/7270810657137

Vassou SL, Kusuma G, Parani M (2015) DNA barcoding for species identification from dried and powdered plant parts: A case study with authentication of the raw drug market samples of Sida cordifolia. Gene 559:86-93. doi:10.1016/j.gene.2015.01.025 10.1016/j.gene.2015.01.02525596347

Wahdan MT, Abdelsalam AZ, El-Naggar AA, Hussein MA (2011) Preliminary horticultural studies to describe and identify of two new egyptian mango strains using DNA fingerprint. J Am Sci 7:641-650

Wang FG, Yang Y, Yi HM, Zhao JR, Ren J, Wang L, Ge JR, Jiang B, Zhang XC, et al. (2017) Construction of an SSR-Based standard fingerprint database for corn variety authorized in China. Chin Agric Sci 50:1-14. doi:10.3864/j.issn.0578-1752.2017.01.001 (Abstract in English) 10.3864/j.issn.0578-1752.2017.01.001

Wang J (2009a) Genetic diversity of Paeonia ostia and germplasm resources of tree peony cultivars from Chinese Jiangnan area. PhD thesis, Beijing Forestry University, Beijing, China

Wang JX, Xia T, Zhang JM, Zhou SL (2009b) Isolation and characterization of fourteen microsatellites from a tree peony (Paeonia suffruticosa). Conserv Genet 10:1029-1031. doi:10.1007/s10592-008-9680-4 10.1007/s10592-008-9680-4

Wu J, Cai CF, Cheng FY, Cui HL, Zhou H (2014) Characterisation and development of EST-SSR markers in tree peony using transcriptome sequences. Mol Breed 34:1853-1866. doi:10.1007/s11032-014-0144-x 10.1007/s11032-014-0144-x

Wu Lb, Lv CP, Xiao TT, Xu WT, Chen HX, Peng JH (2017) Investigation of germplasm resources of Paeonia suffuticosa in Hunan province. Hunan Agric Sci 1:8-12+15. doi:10.16498/j.cnki.hnnykx.2017.001.003 (Abstract in English)

Xu WT, Lv CP, Sun TJ, Chen MJ, Yang ZM, Chen HX, Li YL (2020) Morphological and ISSR molecular markers analysis of nine native peony resources in Hunan province. Mol Plant Breed 18:5038-5045. doi:10.13271/j.mpb.018.005038 (Abstract in English) 10.13271/j.mpb.018.005038

Yu HP, Cheng FY, Zhong Y, Cai CF, Wu J, Cui HL (2013) Development of simple sequence repeat (SSR) markers from Paeonia ostii to study the genetic relationships among tree peonies (Paeoniaceae). Sci Hortic 164:58-64. doi:10.1016/j.scienta.2013.06.043 10.1016/j.scienta.2013.06.043

Zhai LJ, Shi QQ, Niu LX, Zhang YL (2018) Research progress of wild tree peony resources of Subsect. Vagintae. North Hortic 42:167-174. doi:10.11937/bfyy.20173379 (Abstract in English) 10.11937/bfyy.20173379

Zhang J, Liu AQ, Zhang SL, Xie YR, Liu Y (2016a) Using the SSR with fluorescent labeling to establish SSR molecular ID code for cultivars of the Chinese herbaceous peony. J Beijing For Univ 38:101-109. doi:10.13332/j.1000-1522.20150349 (Abstract in English) 10.13332/j.1000-1522.20150349

Zhang MH, Jin XL, Cheng FY, Lu JH, Wu S (2016b) ISSR analysis on genetic diversity of Paeonia suffruticosa in Hunan province. Chin Tradit Herb Drugs 47:1193-1198. doi:10.7501/j.issn.0253-2670.2016.07.022 (Abstract in English) 10.7501/j.issn.0253-2670.2016.07.022

Zhang MH, Jin XL, Wen YF, Shen SY, Wen X, Wu S, Lu JH, Ye Y (2019) Genetic diversity and relationship of Hunan province of China local tree peonies based on SSR markers. Acta Sci Pol-Hortorum Cultus 18:213-223. doi:10.24326/asphc.2019.4.20 10.24326/asphc.2019.4.20

Zhang YL, Wang Y, Li ZH, Ma H (2011) SSRs marking of Paeoniadelavayi based on peony EST data. For Res 24:171-175. doi:10.13275/j.cnki.lykxyj.2011.02.008 (Abstract in English) 10.13275/j.cnki.lykxyj.2011.02.008

Information

Publisher :KOREAN SOCIETY FOR HORTICULTURAL SCIENCE
Publisher(Ko) :원예과학기술지
Journal Title :Horticultural Science and Technology
Journal Title(Ko) :원예과학기술지
Volume : 39
No :5
Pages :684-695
Received Date : 2021-04-06
Revised Date : 2021-07-08
Accepted Date : 2021-07-13
DOI :https://doi.org/10.7235/HORT.20210061

Horticultural Science and Technology ISSN:1226-8763(Print) 2465-8588(Online) 원예과학기술지

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