EST-SSR analysis of genetic diversity of <i>Robinia</i><i> pseudoacacia</i> clones  in Jixian County, Shanxi Province of northern China

Li Xiuyu; Guo Qi; Dong Li; Sun Yuhan; Niu Dongsheng; Liu Jiaping; Wang Hongsheng; Li Yun

doi:10.13332/j.1000-1522.20190108

Journal of Beijing Forestry University > 2019 > 41(7): 39-48. > DOI: 10.13332/j.1000-1522.20190108

Li Xiuyu, Guo Qi, Dong Li, Sun Yuhan, Niu Dongsheng, Liu Jiaping, Wang Hongsheng, Li Yun. EST-SSR analysis of genetic diversity of Robinia pseudoacacia clones in Jixian County, Shanxi Province of northern China[J]. Journal of Beijing Forestry University, 2019, 41(7): 39-48. DOI: 10.13332/j.1000-1522.20190108

Citation:

PDF (591 KB)

EST-SSR analysis of genetic diversity of Robinia pseudoacacia clones in Jixian County, Shanxi Province of northern China

1.
Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Robinia pseudoacacia Engineering Technology Research Center of National Forestry and Grassland Administration, National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing 100083, China
2.
Seed Garden of Robinia pseudoacacia in Jixian County, Jixian 042200, Shanxi, China

More Information

Received Date: March 27, 2019
Revised Date: May 25, 2019
Available Online: July 04, 2019
Published Date: June 30, 2019

Graphical Abstract

Abstract

Abstract

Objective This paper aims to understand the number of alleles of simple sequence repeats detected by EST-SSR primers, and to analyze the polymorphisms of germplasm of Robinia pseudoacacia clones in Ji xian County of Shanxi Province,northern China and the genetic relationship between germplasms, and provide reference for primer utilization and genetic management of Robinia pseudoacacia germplasm.
Method 45 pairs of EST-SSR primers developed by our laboratory were used for PCR amplification, and the products were detected by capillary electrophoresis, the genetic parameters of population were evaluated by Popgene 1.32 software, and cluster analysis was performed by NTsys 2.10e.
Result Except for primer RP-24, 45 pairs of EST-SSR primers showed good polymorphism. A total of 298 allelic repeat sequences were detected in 44 pairs of primers, and 2 to 15 were detected in each pair, with an average of 6.77. The observed heterozygosity (H_o) of the population ranged from 0.022 7 to 0.842 1, with an average of 0.412 6. The expected heterozygosity (H_e) varies from 0.088 7 to 0.822 3, averaging 0.484 0. Primer polymorphism information (PIC) ranged from 0.085 2 to 0.796 6, with an average of 0.444 4.
Conclusion Robinia pseudoacacia clonal germplasm in this base has high genetic diversity. It can be seen from the clustering results that 96 genetic clones of the hedgehog clones can be clustered into five classes when the genetic distance is 0.81. Cluster maps showed the genetic relationship among the clones of Robinia pseudoacacia at the molecular level, and the results of the study have positive reference value for the use of these primers for germplasm evaluation, resource management and assisted breeding of Robinia pseudoacacia.
- Robinia pseudoacacia,
- EST-SSR,
- genetic diversity,
- cluster analysis

FullText(HTML)

References (34)

References

[1]	Huntley J C. Robinia pseudoacacia L. black locust[M]. Washington DC: Silvics of North America, 1990, 2: 755−761.
[2]	赵蓬晖, 张江涛, 王念. 刺槐原产地分布及世界各国引种与研究概况[J]. 河南林业科技, 2017, 37(1):30−32. doi: 10.3969/j.issn.1003-2630.2017.01.010 Zhao P H, Zhang J T, Wang N. The original distribution introduction and development of Robinia pserdoacacia[J]. Journal of Henan Forestry Science and Technology, 2017, 37(1): 30−32. doi: 10.3969/j.issn.1003-2630.2017.01.010
[3]	中国森林编辑委员会. 中国森林: 3卷[M]. 北京: 中国林业出版社, 2000: 3−5. China Forest Editorial Committee. Forests in China: Vol. 3[M]. Beijing: China Forestry Publishing House, 2000: 3−5.
[4]	孙鹏, 戴丽, 孙妍, 等. 刺槐幼林不同无性系性状比较及相关分析[J]. 北京林业大学学报, 2013, 35(4):34−40. Sun P, Dai L, Sun Y, et al. Comparison and correlative analysis of growth traits in young Robinia pseudoacacia clones[J]. Journal of Beijing Forestry University, 2013, 35(4): 34−40.
[5]	习洋, 胡瑞阳, 王欢, 等. 刺槐未成熟合子胚的体细胞胚胎发生和植株再生[J]. 林业科学, 2012, 48(1):60−69. doi: 10.3969/j.issn.1672-8246.2012.01.009 Xi Y, Hu R Y, Wang H, et al. Somatic embryogenesis and plant regeneration from immature zygotic embryos of black locust (Robinia pseudoacacia)[J]. Scientia Silvae Sinicae, 2012, 48(1): 60−69. doi: 10.3969/j.issn.1672-8246.2012.01.009
[6]	沈俊岭, 赵芳, 李云, 等. 速生型刺槐遗传转化体系的建立[J]. 核农学报, 2006, 20(6):477−481. doi: 10.3969/j.issn.1000-8551.2006.06.007 Shen J L, Zhao F, Li Y, et al. Establishment of genetic transformation system of fastgrowing black locust[J]. Acta Agriculturae Nucleatae Sinica, 2006, 20(6): 477−481. doi: 10.3969/j.issn.1000-8551.2006.06.007
[7]	孙鹏, 戴丽, 徐兆翮, 等. 刺槐花粉萌发和花粉管伸长生长过程中柱头与花柱内钙离子的分布特征[J]. 北京林业大学学报, 2015, 37(11):59−68. Sun P, Dai L, Xu Z H, et al. Distribution of Ca2+ in the stigma and style of Robinia pseudoacacia during pollen germination and pollen tube elongation[J]. Journal of Beijing Forestry University, 2015, 37(11): 59−68.
[8]	Powell W, Machray G C, Provan J. Polymorphism revealed by simple sequence repeats[J]. Trends in Plant Science, 1996, 1(7): 215−222.
[9]	唐荣华, 张君诚, 吴为人. SSR分子标记的开发技术研究进展[J]. 西南农业学报, 2002, 15(4):106−109. doi: 10.3969/j.issn.1001-4829.2002.04.026 Tang R H, Zhang J C, Wei W R. Progress in the way to develop SSR molecular marker[J]. Southwest China Journal of Agricultural Sciences, 2002, 15(4): 106−109. doi: 10.3969/j.issn.1001-4829.2002.04.026
[10]	李卫国, 常天俊, 龚红梅. EST-SSR及其在植物基因组学研究中的应用[J]. 生物技术, 2008, 18(4):90−93. Li W G, Chang T J, Gong H M. Simple sequence repeats derived from expression sequence tags (EST-SSRs) and its application to plant genomics[J]. Biotechnology, 2008, 18(4): 90−93.
[11]	陈全求, 詹先进, 蓝家样, 等. EST分子标记开发研究进展[J]. 中国农学通报, 2008, 24(9):72−77. Chen Q Q, Zhan X J, Lan J Y, et al. Study progress in development of EST(expressed sequence tags)[J]. Chinese Agricultural Science Bulletin, 2008, 24(9): 72−77.
[12]	徐杨, 邓丽丽, 周丽, 等. 云南松EST-SSR引物在其近缘种中通用性的研究[J]. 西南林业大学学报, 2016, 36(1):16−20. Xu Y, Deng L L, Zhou L, et al. The transferability analysis of microsatellite markers from expressed sequence tags of Pinus yunnanensis to its close related species[J]. Journal of Southwest Forestry College, 2016, 36(1): 16−20.
[13]	Varshney R K, Graner A, Sorrells M E. Genic microsatellite markers in plants: features and applications[J]. Trends in Biotechnology, 2005, 23(1): 48−55. doi: 10.1016/j.tibtech.2004.11.005
[14]	林元震, 郭海, 刘纯鑫, 等. EST-SSR标记在木本植物中的开发和应用[J]. 植物生理学通讯, 2009, 45(12):1221−1225. Lin Y Z, Guo H, Liu C X, et al. Development and application of EST-SSR markers in woody plants[J]. Plant Physiology Communications, 2009, 45(12): 1221−1225.
[15]	赵天梁. 山西华北落叶松群落物种多样性[J]. 北京林业大学学报, 2017, 39(6):45−50. Zhao T L. Species diversity of Larix principis-rupprechtii communities in Shanxi Province of northern China[J]. Journal of Beijing Forestry University, 2017, 39(6): 45−50.
[16]	安宗燕, 唐红, 李婉茹. 基于EST-SSR的紫斑牡丹品种遗传多样性分析[J]. 分子植物育种, 2018, 16(20):6744−6752. An Z Y, Tang H, Li W R. Genetic diversity analysis of Paeonia rockii cultivar based on EST-SSR[J]. Molecular Plant Breeding, 2018, 16(20): 6744−6752.
[17]	石艳, 童再康, 高燕会. 换锦花EST-SSR标记开发及遗传多样性分析[J]. 核农学报, 2018, 32(6):1089−1096. doi: 10.11869/j.issn.100-8551.2018.06.1089 Shi Y, Tong Z K, Gao Y H. Development of EST-SSR markers and genetic diversity analysis in Lycoris sprengeri[J]. Acta Agriculturae Nucleatae Sinica, 2018, 32(6): 1089−1096. doi: 10.11869/j.issn.100-8551.2018.06.1089
[18]	胡文舜, 陈秀萍, 郑少泉. 龙眼EST-SSR标记开发及无患子科5个属种质遗传多样性分析[J/OL]. 园艺学报, 2019 (2019−01−05) [2019−02−13]. http://kns.cnki.net/kcms/detail/11.1924.S.20190103.1338.006.html. Hu W S, Chen X P, Zheng S Q. EST-SSR markers development from Longan (Dimocarpus longan Lour.) and its application in genetic diversity analysis of five genera of Sapindaceae[J/OL]. Acta Horticulturae Sinica, 2019 (2019−01−05) [2019−02−13]. http://kns.cnki.net/kcms/detail/11.1924.S.20190103.1338.006.html.
[19]	王西成, 姜淑苓, 上官凌飞, 等. 梨EST-SSR标记的开发及其在梨品种遗传多样性分析中的应用评价[J]. 中国农业科学, 2010, 43(24):5079−5087. doi: 10.3864/j.issn.0578-1752.2010.24.012 Wang X C, Jiang S L, Shangguan L F, et al. Development of EST-SSR markers for pear and evaluation of their application in pear genetic diversity analysis[J]. Scientia Agricultura Sinica, 2010, 43(24): 5079−5087. doi: 10.3864/j.issn.0578-1752.2010.24.012
[20]	胡宏霞, 穆国俊, 侯名语, 等. 河北省花生地方品种基于EST-SSR的遗传多样性及性状−标记相关分析[J]. 植物遗传资源学报, 2013, 14(6):1118−1123, 1129. Hu H X, Mu G J, Hou M Y, et al. Genetic diversity and marker-trait analysis for the peanut Landraces in Hebei based on EST-SSR markers[J]. Journal of Plant Genetic Resources, 2013, 14(6): 1118−1123, 1129.
[21]	王盈盈, 刘玉新, 汪俊君, 等. 62个小麦品种基于EST-SSR标记的遗传多样性分析[J]. 麦类作物学报, 2008, 28(5):749−754. Wang Y Y, Liu Y X, Wang J J, et al. Genetic diversity of 62 commom wheat cultivars using EST-SSR markers[J]. Journal of Triticeae Crops, 2008, 28(5): 749−754.
[22]	赵克奇, 董黎, 王少明, 等. 刺槐EST-SSR标记PCR反应体系的优化[J]. 中国农学通报, 2014, 30(22):45−52. doi: 10.11924/j.issn.1000-6850.2014-0325 Zhao K Q, Dong L, Wang S M, et al. The optimization of EST-SSR PCR reaction system for Robinia pseudoacacia L.[J]. Chinese Agricultural Science Bulletin, 2014, 30(22): 45−52. doi: 10.11924/j.issn.1000-6850.2014-0325
[23]	Guo Q, Wang J X, Su L Z, et al. Development and Evaluation of a Novel Set of EST-SSR Markers Based on Transcriptome Sequences of Black Locust (Robinia pseudoacacia L.)[J/OL]. Genes, 2017, 8(7) (2017−07−07) [2017−12−15]. https://doi.org/10.3390/genes8070177.
[24]	尹明华, 徐文慧, 谢妮妮, 等. 三叶青种质资源遗传多样性的SSR荧光标记分析[J]. 中草药, 2018, 49(23):5649−5656. doi: 10.7501/j.issn.0253-2670.2018.23.026 Yin M H, Xu W H, Xie N N, et al. Genetic diversity analysis of Tetrastigma hemsleyanum germplasm resources based on fluorescently labeled SSR markers[J]. Chinese Traditional and Herbal Drugs, 2018, 49(23): 5649−5656. doi: 10.7501/j.issn.0253-2670.2018.23.026
[25]	Selkoe K A, Toonen R J. Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers[J]. Ecology Letters, 2006, 9(5): 615−629. doi: 10.1111/ele.2006.9.issue-5
[26]	Guo Q, Li, X Y, Yang S H, et al. Evaluation of the genetic diversity and differentiation of black locust (Robinia pseudoacacia L.) based on genomic and expressed sequence Tag-simple sequence repeats[J]. Moleculai Sciences, 2018, 19(9): 2492.
[27]	Botstein D. Construction of a genetic linkage map in man using restriction fragment length polymorphisms[J]. Am J Hum Genet, 1980, 32(3): 314−331.
[28]	Pandian S, Satish L, Rameshkumar R, et al. Analysis of population structure and genetic diversity in an exotic germplasm collection of Eleusine coracana (L.) Gaertn. using genic-SSR markers[J]. Gene, 2018, 653: 80−90.
[29]	毛秀红, 郑勇奇, 孙百友, 等. 基于SSR的刺槐无性系遗传多样性分析和指纹图谱构建[J]. 林业科学, 2017, 53(10):80−89. doi: 10.11707/j.1001-7488.20171009 Mao X H, Zheng Y Q, Sun B Y, et al. Genetic diversity and fingerprints of Robinia pseudoacacia clones based on SSR markers[J]. Scientia Silvae Sinicae, 2017, 53(10): 80−89. doi: 10.11707/j.1001-7488.20171009
[30]	孙芳, 杨敏生, 张军, 等. 刺槐不同居群遗传多样性的ISSR分析[J]. 植物遗传资源学报, 2009, 10(1):91−96. Sun F, Yang M S, Zhang J, et al. ISSR analysis of genetic diversity of Robinia pseudoacacia populations[J]. Journal of Plant Genetic Resources, 2009, 10(1): 91−96.
[31]	王东升, 周继磊, 解荷锋, 等. 刺槐无性系遗传多样性的AFLP分析[J]. 西南林业大学学报, 2012, 32(6):25−29. doi: 10.3969/j.issn.2095-1914.2012.06.005 Wang D S, Zhou J L, Xie H F, et al. AFLP genetic diversity analysis of Robinia pseudoacacia clones[J]. Journal of Southwest Forestry College, 2012, 32(6): 25−29. doi: 10.3969/j.issn.2095-1914.2012.06.005
[32]	杨敏生, Hertel H,Schneck V. 欧洲刺槐种源群体遗传结构和多样性[J]. 生态学报, 2004, 24(12):2700−2706. doi: 10.3321/j.issn:1000-0933.2004.12.004 Yang M S,Hertel H,Schneck V. Genetic diversity and population structure of Robinia pseudoacacia provenances from middle Europe[J]. Acta Ecologica Sinica, 2004, 24(12): 2700−2706. doi: 10.3321/j.issn:1000-0933.2004.12.004
[33]	张志毅, 林木遗传学基础[M]. 北京: 中国林业出版社, 2012: 304 Zhang Z Y, Genetic basis of forest trees[M]. Beijing: China Forestry Publishing House, 2012: 304
[34]	骆蒙, 贾继增. 植物基因组表达序列标签(EST)计划研究进展[J]. 生物化学与生物物理进展, 2001, 28(4):494−497. doi: 10.3321/j.issn:1000-3282.2001.04.014 Luo M, Jia J Z. Progress in expressed sequence tags (EST) project of plant genome[J]. Progress in Biochemistry and Biophysics, 2001, 28(4): 494−497. doi: 10.3321/j.issn:1000-3282.2001.04.014

[1]	Gao Lei, Liu Dan. Genetic diversity analysis and fingerprint mapping construction of Tilia amurensis based on SSR molecular markers[J]. Journal of Beijing Forestry University, 2025, 47(3): 28-37. DOI: 10.12171/j.1000-1522.20240399
[2]	Guo Xiaobing, Huang Zhixin, Zhang Tianxiang, Ding Jianhong, Gao Yunyun, Fu Yajun, Hu Defu, Liu Gang. Analysis of mtDNA genetic diversity and genetic structure of captive forest musk deer population[J]. Journal of Beijing Forestry University, 2022, 44(3): 98-105. DOI: 10.12171/j.1000-1522.20210050
[3]	Zhao Pan, Li Danyang, Ma Jinlin, Liang Wenhui, Pang Xiaoming, Long Cui, Ma Jingyi, Guo Huihong. SSR marker development, genetic diversity and population structure analysis in oil tree species Vernicia montana[J]. Journal of Beijing Forestry University, 2021, 43(11): 50-61. DOI: 10.12171/j.1000-1522.20210054
[4]	Miao Yubo, Fang Pan, Yang Zhiheng, Zhu Xiaomei, Gao Qiong, Liu Yang, Li Wei. Genetic structure analysis of Pinus sylvestris var. mongolica under different geographical environments[J]. Journal of Beijing Forestry University, 2018, 40(10): 43-50. DOI: 10.13332/j.1000-1522.20170438
[5]	CHEN Ling-na, MA Qing-guo, ZHANG Jun-pei, ZHOU Bei-bei, PEI Dong. Development of BAC-SSR markers in walnut and its application in genetic diversity analysis[J]. Journal of Beijing Forestry University, 2014, 36(6): 24-29. DOI: 10.13332/j.cnki.jbfu.2014.06.008
[6]	LI Yi-liang, ZHAO Fen-cheng, HU Yan-fei, CAI Jian, WU Hui-shan, ZHANG Ying-zhong, GUO Wen-bing. Analysis of genetic diversity from different geographical populations in Khaya senegalensis[J]. Journal of Beijing Forestry University, 2014, 36(5): 82-86. DOI: 10.13332/j.cnki.jbfu.2014.05.022
[7]	LIU Jie, LI Jing, CHEN Min, LUO You-qing, TAO Jing. Genetic diversity of Hyphantria cunea populations in China by AFLP analysis[J]. Journal of Beijing Forestry University, 2012, 34(4): 107-113.
[8]	SONG Yue-peng, JIANG Xi-bing, ZHANG Man, WANG Ze-liang, BO Wen-hao, AN Xin-min, ZHANG Zhi-yi. Genetic differences revealed by Genomic-SSR and EST-SSR in poplar[J]. Journal of Beijing Forestry University, 2010, 32(5): 1-7.
[9]	GUAN Ping, MA Dan-wei, WANG Gui-xia, SHI Jian-ming, CHEN Fang. ISSR analysis on genetic diversity of Gastrodia elata Bl.in Guizhou Province, southwestern China[J]. Journal of Beijing Forestry University, 2007, 29(6): 35-40. DOI: 10.13332/j.1000-1522.2007.06.003
[10]	LI Xue-pin, HE Zheng-quan, CHEN Fa-ju, UANG Hong-wei, LI Feng-lan. RAPD analysis for the genetic diversity of four poplulations of davidia involucrata Baill.in Shengnoongjia area, hubei Province[J]. Journal of Beijing Forestry University, 2006, 28(3): 66-70.

Cited By

Cited by

Periodical cited type(13)

1.	柯澳，王宇聪，胡博宇，林琦，李勇，双丰. 基于图像的野生动物检测与识别综述. 计算机系统应用. 2024(01): 22-36 .
2.	陈明，王善勤. 基于改进YOLOv5s算法和自适应决策的野猪检测方法. 湖南工业职业技术学院学报. 2024(04): 19-24 .
3.	杨帆. 基于人工智能下的野生动物识别研究与应用. 中国高新科技. 2024(16): 72-74 .
4.	杨拂晓，费龙，闫泰辰. 基于深度学习的野生动物图像识别研究综述. 北京测绘. 2024(09): 1237-1242 .
5.	戴天虹，刘超. 基于改进EfficientDet的雪豹红外相机图像检测方法. 哈尔滨理工大学学报. 2023(02): 108-116 .
6.	杨雪珂，蒙金超，冯悦恒，林婷婷，王兆君，刘辉. 基于残差卷积神经网络模型的勺嘴鹬动作识别. 热带生物学报. 2023(05): 481-489 .
7.	齐建东，马鐘添，张德怀，田赟. 基于BS-ResNeXt-50的密云地区野生动物图像识别. 林业科学. 2023(08): 112-122 .
8.	杨琴，安见才让. 遮挡条件下的动物目标检测方法研究进展. 信息技术与信息化. 2023(12): 189-192 .
9.	王翰霖，文帅，白俊，李东睿，罗概，林玉成. 红外相机监测目标物种的一种自动化检测方法：以绿尾虹雉为例. 四川动物. 2022(04): 361-369 .
10.	李艳杰，召玉龙. 自然保护区亚洲象活动行为监测方法研究. 绿色科技. 2021(22): 63-64+79 .
11.	陈建促，王越，朱小飞，李章宇，林志航. 融合多特征图的野生动物视频目标检测方法. 计算机工程与应用. 2020(07): 221-227 .
12.	谢将剑，杨俊，邢照亮，张卓，陈新. 多特征融合的鸟类物种识别方法. 应用声学. 2020(02): 199-206 .
13.	宫一男，谭孟雨，王震，赵国静，蒋沛林，蒋仕铭，张鼎基，葛剑平，冯利民. 基于深度学习的红外相机动物影像人工智能识别:以东北虎豹国家公园为例. 兽类学报. 2019(04): 458-465 .

Other cited types(20)

Get Citation

PDF

XML

Article views (2574) PDF downloads (62) Cited by(33)

Turn off MathJax

Article Contents

Abstract

References

EST-SSR analysis of genetic diversity of Robinia pseudoacacia clones in Jixian County, Shanxi Province of northern China