Application of Simple Sequence Repeat Molecular Markers in the Study of Tree Peony
Received date: 2015-02-12
Accepted date: 2015-06-23
Online published: 2015-10-09
Simple sequence repeat (SSR) markers have the characteristics of simple operation, codominance and reliable reproduciblity in phylogenetic studies. This paper summarizes the techniques for developing peony SSR marker primers: bioinformatics technology, magnetic beads enrichment and next-generation sequencing. Furthermore, we summarize the current findings of the frequency and distribution of SSR loci in peony genome. We hope our summary on the application of SSR markers on tree peony will provide useful references to people who are working on the species.
Qi Guo, Dalong Guo, Lili Guo, Lin Zhang, Xiaogai Hou . Application of Simple Sequence Repeat Molecular Markers in the Study of Tree Peony[J]. Chinese Bulletin of Botany, 2015 , 50(5) : 652 -664 . DOI: 10.11983/CBB15016
| 1 | 陈向明, 郑国生, 张圣旺 (2001). 牡丹栽培品种的RAPD分析. 园艺学报 28, 370-372. |
| 2 | 董海燕, 季孔庶, 侯伯鑫, 赵宏波 (2014). 基于ISSR标记的红花檵木品种亲缘关系分析. 园艺学报 41, 365-374. |
| 3 | 郭大龙 (2007a). 牡丹种质资源遗传多样性研究进展. 北方园艺 (9), 61-65. |
| 4 | 郭大龙 (2007b). 植物微卫星引物开发方法. 安徽农业科学 35, 5361-5363. |
| 5 | 韩明利, 崔娜, 于志海, 李天来, 侯丽霞 (2011). EST-SSR标记在蔬菜遗传育种中的应用. 生物技术 21, 94-97. |
| 6 | 洪德元, 潘开玉 (1999). 芍药属牡丹组的分类历史和分类处理. 植物分类学报 37, 351-368. |
| 7 | 蒋晓英, 杨春文, 林清, 吴红, 杨勋毅, 刘捷, 雷开荣 (2013). SSR标记技术在杂交水稻和杂交玉米种子质量鉴定中的应用研究. 中国农学通报 29, 41-46. |
| 8 | 罗纯, 张青林, 罗正荣 (2015). 第二代测序技术在植物遗传研究中的应用. 广东农业科学 42, 186-192. |
| 9 | 苏雪, 张辉, 董莉娜, 张建清, 朱学秦, 孙坤 (2006). 应用RAPD技术对甘肃栽培牡丹品种的分类鉴定研究. 西北植物学报 26, 696-701. |
| 10 | 谭祖猛, 李云昌, 胡琼, 梅德圣, 程计华 (2008). 分子标记在油菜杂种优势利用中的研究进展. 植物学通报 25, 230-239. |
| 11 | 王东升, 辛红, 邢世岩, 刘晓静, 吴岐奎 (2013). 基于AFLP标记的山东省5个野核桃群体的遗传多样性分析. 植物资源与环境学报 22(3), 63-69. |
| 12 | 王玉民, 尹大鹏, 张春宵, 康岭生, 金峰学, 姜昱 (2014). 利用SSR标记分析35份糯玉米种质的遗传多样性. 玉米科学 22, 27-31, 35. |
| 13 | 魏霜, 袁俊杰, 程文杰, 林利平, 李小健, 鄞杰平, 黄锦炎, 刘碧琳, 刘晓莹 (2014). 兰花的分子标记研究进展. 检验检疫学刊 (2), 73-76. |
| 14 | 张冬菊, 李世超, 吴鹏夫, 张晓, 李秋香, 杨树华, 贾瑞冬, 葛红 (2014). 基于表型和SRAP标记的切花菊品种遗传多样性分析. 园艺学报 41, 118-130. |
| 15 | 张杨, 陈志宽, 赖育菠, 黄树林, 邵红伟 (2014). 应用RAPD分子标记技术探讨3种石斛属植物的种间关系. 亚热带植物科学 43, 123-126. |
| 16 | 周志钦, 潘开玉, 洪德元 (2003). 牡丹组野生种间亲缘关系和栽培牡丹起源研究进展. 园艺学报 30, 370-372. |
| 17 | Agarwal M, Shrivastava N, Padh H (2008). Advances in molecular marker techniques and their applications in plant sciences.Plant Cell Rep 27, 617-631. |
| 18 | Akkak A, Scariot V, Torello Marinoni D, Boccacci P, Beltramo C, Botta R (2009). Development and evalua- tion of microsatellite markers in Phoenix dactylifera L. and their transferability to other Phoenix species.Biol Plant 53, 164-166. |
| 19 | Akritidis P, Mylona PV, Tsaftaris AS, Polidoros AN (2009). Genetic diversity assessment in greek Medicago trun- catula genotypes using microsatellite markers. Biol Plant 53, 343-346. |
| 20 | Cheng FY (2007). Advances in the breeding of tree peonies and a cultivar system for the cultivar group.International Journal Plant Breeding 1, 89-104. |
| 21 | Condit R, Hubbell SP (1991). Abundance and DNA sequence of two-base repeat regions in tropical tree genome.Genome 34, 66-71. |
| 22 | Eujayl I, Sledge MK, Wang L, May GD, Chekhovskiy K, Zwonitzer JC, Mian MAR (2004).Medicago truncatula EST-SSRs reveal cross-species genetic markers for Medi- cago spp.Theor Appl Genet 108, 414-422. |
| 23 | Gai SP, Zhang YX, Mu P, Liu CY, Liu S, Dong L, Zheng GS (2012). Transcriptome analysis of tree peony during chilling requirement fulfillment: assembling, annotation and markers discovering.Gene 497, 256-262. |
| 24 | Gao ZM, Wu J, Liu ZA, Wang LS, Ren HX, Shu QY (2013). Rapid microsatellite development for tree peony and its implications.BMC Genomics 14, 886. |
| 25 | Garcia-Mas J, Benjak A, Sanseverino W, Bourgeois M, Mir G, González VM, Hénaff E, Câmara F, Cozzuto L, Lowy E, Alioto T, Capella-Gutiérrez S, Blanca J, Cañi- zares J, Ziarsolo P, Gonzalez-Ibeas D, Rodríguez- Moreno L, Droege M, Du L, Alvarez-Tejado M, Lorente- Galdos B, Melé M, Yang L, Weng Y, Navarro A, Marques-Bonet T, Aranda MA, Nuez F, Picó B, Ga- baldón T, Roma G, Guigó R, Casacuberta JM, Arús P, Puigdomènech P (2012). The genome of melon (Cucu- mis melo L.).Proc Natl Acad Sci USA 109, 11872-11877. |
| 26 | Gilmore B, Bassil N, Nyberg A, Knaus B, Smith D, Barney DL, Hummer K (2013). Microsatellite marker development in peony using next generation sequencing.J Amer Soc Hort Sci 138, 64-74. |
| 27 | Guo DL, Hou XG, Zhang J (2009). Sequence-related amplified polymorphism analysis of tree peony (Paeonia suffruticosa Andrews) cultivars with different flower colours.J Hortic Sci Biotechnol 84,131-136. |
| 28 | Hakki EE, Akkaya MS (2000). Microsatellite isolation using amplified fragment length polymorphism markers: no cloning, no screening.Mol Ecol 9, 2152-2154. |
| 29 | 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. |
| 30 | Hou XG, Guo DL, Cheng SP, Zhang JY (2011a). Deve- lopment of thirty new polymorphic microsatellite primers for Paeonia suffruticosa.Biol Plant 55, 708-710. |
| 31 | Hou XG, Guo DL, Wang J (2011b). Development and characterization of EST-SSR markers in Paeonia suffruticosa (Paeoniaceae).Am J Bot 98, e303-e305. |
| 32 | Hou XG, Yin WL, Li JJ, Wang HF (2006). AFLP analysis of genetic diversity of 30 tree peony (Paeonia suffruticosa Andr.) cultivars.Scientia Agric Sinica 39, 1709-1715. |
| 33 | Jennings TN, Knaus BJ, Mullins TD, Haig SM, Cronn RC (2011). Multiplexed microsatellite recovery using mas- sively parallel sequencing. Mol Ecol Resour 11, 1060-1067. |
| 34 | Malausa T, Gilles A, Meglécz E, Blanquart H, Duthoy S, Costedoat C, Dubut V, Pech N, Castagnone-Sereno P, Délye C, Feau N, Frey P, Gauthier P, Guillemaud T, Hazard L, Corre V, Lung-Escarmant B, Malé PJG, Ferreira S, Martin JF (2011). High-throughput microsatellite isolation through 454 GS-FLX titanium pyrosequencing of enriched DNA libraries.Mol Ecol Resour 11, 638-644. |
| 35 | Patzak J (2001). Comparison of RAPD, STS, ISSR and AFLP molecular methods used for assessment of genetic diversity in hop (Humulus lupulus L.). Euphytica 121, 9-18. |
| 36 | Pazos-Navarro M, Dabauza M, Correal E, Hanson K, Teakle N, Real D, Nelson MN (2011). Next generation DNA sequencing technology delivers valuable genetic markers for the genomic orphan legume species, Bituminaria bituminosa.BMC Genet 12, 104. |
| 37 | Provan J, Powell W, Waugh R (1996). Microsatellite analysis of relationships within cultivated potato (Solanum tuberosum).Theor Appl Genet 92, 1078-1084. |
| 38 | Refseth UH, Fangan BM, Jakobsen KS (1997). Hybridization capture of microsatellites directly from genomic DNA.Electrophoresis 18, 1519-1523. |
| 39 | Schuster SC (2008). Next-generation sequencing transforms today’s biology.Nat Methods 5, 16-18. |
| 40 | Smulders MJM, Bredemeijer G, Rus-Kortekaas W, Arens P, Vosman B (1997). Use of short microsatellites from database sequences to generate polymorphisms among Lycopersicon esculentum cultivars and accessions of other Lycopersicon species.Theor Appl Genet 94, 264-272. |
| 41 | Sonah H, Deshmukh RK, Sharma A, Singh VP, Gupta DK, Gacche RN, Rana JC, Singh NK, Sharma TR (2011). Genome-wide distribution and organization of microsatellites in plants: an insight into marker development in Bra- chypodium.PLoS One 6, e21298. |
| 42 | Tautz D (1989). Hypervariability of simple sequences as a general source for polymorphic DNA markers.Nucleic Acids Res 17, 6463-6471. |
| 43 | Uzun A, Gulsen O, Seday U, Bircan M, Yilmaz KU (2010). SRAP based genetic analysis of some apricot cultivars.Rom Biotech Lett 15, 5396-5404. |
| 44 | Vijayan K (2007). Molecular markers and their application in mulberry breeding.Int J Indust Entomol 15, 145-155. |
| 45 | Wall PK, Leebens-Mack J, Chanderbali AS, Barakat A, Wolctt E, Liang HY, Landherr L, Tomsho LP, Hu Y, Carlson JE, Ma H, Schuster SC, Soltis DE, Soltis PS, Altman N, dePamphilis CW (2009). Comparison of next generation sequencing technologies for transcriptome characterization.BMC Genomics 10, 347. |
| 46 | Wang JX, Xia T, Zhang JM, Zhou SL (2009). Isolation and characterization of fourteen microsatellites from a tree peony (Paeonia suffruticosa).Conserv Genet 10, 1029-1031. |
| 47 | Wang LY, Wang Z, Weber JL, Zhong G, Tanksley SD (1994). Survey of plant short tandem DNA repeats.Theor Appl Genet 88, 1-6. |
| 48 | Wu J, Wang ZW, Shi ZB, Zhang S, Ming R, Zhu SL, Khan MA, Tao ST, Korban SS, Wang H, Chen NJ, Nishio T, Xu X, Cong L, Qi KJ, Huang XS, Wang YT, Zhao X, Wu JY, Deng C, Gou CY, Zhou WL, Yin H, Qin GH, Sha YH, Tao Y, Chen H, Yang Y, Song Y, Zhan DL, Wang J, Li LT, Dai MS, Gu C, Wang YZ, Shi DH, Wang XW, Zhang HP, Zeng L, Zheng DM, Wang CL, Chen MS, Wang GB, Xie L, Sovero V, Sha SF, Huang WJ, Zhang SJ, Zhang MY, Sun JM, Xu LL, Li Y, Liu X, Li QS, Shen JH, Wang JY, Paull RE, Bennetzen JL, Wang J, Zhang SL (2013). The genome of the pear (Pyrus bretschneideri Rehd.).Genome Res 23, 396-408. |
| 49 | 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. |
| 50 | Yan Y, Huang X, Fang XT, Lu L, Zhou RC, Ge XJ, Shi SH (2011). Development and characterization of EST-SSR markers in the invasive weed Mikania micrantha (Asteraceae).Am J Bot 98, e1-e3. |
| 51 | 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. |
| 52 | Yuan JH, Cheng FY, Zhou SL (2010). Hybrid origin of Paeonia × yananensis revealed by microsatellite markers, chloroplast gene sequences, and morphological characteristics.Int J Plant Sci 171, 409-420. |
| 53 | Zane L, Bargelloni L, Patarnello T (2002). Strategies for microsatellite isolation: a review.Mol Ecol 11, 1-6. |
| 54 | Zhang JJ, Shu QY, Liu ZA, Ren HX, Wang LS, De Keyser E (2012). Two EST-derived marker systems for cultivar identification in tree peony.Plant Cell Rep 31, 299-310. |
| 55 | Zhang JM, Liu J, Sun HL, Yu J, Wang JX, Zhou SL (2011). Nuclear and chloroplast SSR markers in Paeonia delavayi (Paeoniaceae) and cross-species amplification in P. ludlowii.Am J Bot 98, e346-e348. |
| 56 | Zhao X, Zhou ZQ, Lin QB, Pan KY, Li MY (2008). Phylogenetic analysis of Paeonia sect. Moutan (Paeonia- ceae) based on multiple DNA fragments and morphologi- cal data.J Syst Evol 46, 563-572. |
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