[1]万小林,粱思琪,崔令军,等.大叶黄精转录组中SSR位点信息分析[J].北方园艺,2024,(14):104-109.[doi:10.11937/bfyy.20234297]
　WAN Xiaolin,LIANG Siqi,CUI Lingjun,et al.Analysis of SSR Site Information in the Transcriptome of Polygonatum kingianum var.grandifolium[J].Northern Horticulture,2024,(14):104-109.[doi:10.11937/bfyy.20234297]
点击复制

大叶黄精转录组中SSR位点信息分析

《北方园艺》[ISSN:1001-0009/CN:23-1247/S] 卷: 期数: 2024年14 页码: 104-109 栏目: 出版日期: 2024-07-31
Title:
Analysis of SSR Site Information in the Transcriptome of Polygonatum kingianum var.grandifolium
文章编号:
1001-0009(2024)14-0104-06
作者:
万小林; 粱思琪; 崔令军; 肖强
（湖北民族大学 林学园艺学院，生物资源保护与利用湖北省重点实验室，湖北 恩施 445000）
Author(s):
WAN Xiaolin; LIANG Siqi; CUI Lingjun; XIAO Qiang
(School of Forestry and Horticulture,Hubei Minzu University/Hubei Key Laboratory of Biologic Resources Protection and Utilization，Enshi，Hubei 445000)
关键词:
大叶黄精; 转录组; SSR
Keywords:
Polygonatum kingianum var.grandifolium; transcriptome; SSR
分类号:
S 668.9
DOI:
10.11937/bfyy.20234297
文献标志码:
A
摘要:
以大叶黄精转录组所获得的51 704条Unigenes为试材，采用MISA软件检索出大叶黄精的SSR位点，并利用Primer 3软件对检索到的SSR基序进行引物设计，研究了大叶黄精的SSR特征，以期为大叶黄精SSR分子标记的开发与应用提供参考依据。结果表明：大叶黄精转录组中检索出25 384个SSR位点，其发生频率为49.09%。单核苷酸和二核苷酸重复是大叶黄精SSR的主要基序类型，且A/T和AG/CT基序的出现频率最高，占大叶黄精SSR总数的66.91%。通过引物设计，最终在大叶黄精转录组中获得13 220对引物。随机选取12对引物进行PCR扩增，扩增成功率高达67%。因此，认为该研究的转录组数据可靠，且SSR位点类型丰富。
Abstract:
Taking 51 704 Unigenes obtained from the transcriptome of P.kingianum var.grandifolium as the test material，and MISA software was used to retrieve the SSR loci of P.kingianum var.grandifolium and primers were designed for the retrieved SSR motifs using Primer 3 software,in order to provide reference for the development and application of SSR molecular markers in P.kingianum var.grandifolium.The results showed that 25 384 SSR loci were retrieved from P.kingianum var.grandifolium transcriptome with a frequency of 49.09%.Single nucleotide and dinucleotide repeats were the major motif types of P.kingianum var.grandifolium SSR，and the A/T and AG/CT motifs had the highest frequency，accounting for 66.91% of the total number of P.kingianum var.grandifolium SSRs.By primer design，13 220 primer pairs were finally obtained in P.kingianum var.grandifolium transcriptome.Twelve primer pairs were randomly selected for PCR amplification and the amplification success rate was high at 67%.Therefore，the transcriptome data from this study were considered reliable and rich in SSR locus types.

参考文献/References:

［1］国家药典委员会.中华人民共和国药典（二部）:2020年版［M］.北京:中国医药科技出版社,2020.［2］石艳,杨通广,杨美森,等.大叶黄精:一种潜力巨大的食药两用作物［J］.中国中药杂志,2022,47(4):1132-1135.［3］刘爽,胡舒婷,贾巧君,等.黄精的化学组成及药理作用的研究进展［J］.天然产物研究与开发,2021,33(10):1783-1796.［4］张娇,王元忠,杨维泽,等.黄精属植物化学成分及药理活性研究进展［J］.中国中药杂志,2019,44(10):1989-2008.［5］杨梦婷,黄洲,干建平,等.SSR分子标记的研究进展［J］.杭州师范大学学报(自然科学版),2019,18(4):429-436.［6］LIU T,ZHU S,FU L,et al.Development and characterization of 1 827 expressed sequence tag-derived simple sequence repeat markers for ramie (Boehmeria nivea L.gaud)［J］.PLoS One,2013,8(4):e60346.［7］王国平,胡再青,徐冬丽,等.青稞遗传多样性及其农艺性状与SSR标记的关联分析［J］.云南农业大学学报(自然科学),2023,38(1):1-8.［8］李清,李标,郭顺星.金钗石斛转录组SSR位点信息分析［J］.中国中药杂志,2017,42(1):63-69.［9］张景,李晓东,宗庆波,等.半夏SSR分子标记开发与遗传多样性［J］.华中农业大学学报,2021,40(6):19-26.［10］叶鹏,李显煌,陈杰,等.金铁锁转录组SSR的分布及其序列特征［J］.云南农业大学学报(自然科学),2019,34(5):808-814.［11］杨华,陈琪,韦朝领,等.茶树转录组中SSR位点的信息分析［J］.安徽农业大学学报,2011,38(6):882-886.［12］朱巧,邓欣,张树冰,等.黄精属6种植物的SSR遗传差异分析［J］.中国中药杂志,2018,43(14):2935-2943.［13］陈浩,钱华丽,徐哲,等.滇黄精转录组SSR位点信息分析［J］.中草药，2022(22)：104-109.［14］陈友吾,廖荣俊,叶碧欢,等.多花黄精转录组SSR位点分析及分子标记开发［J］.中草药,2020,51(1):182-189.［15］李晓娟,赵文菊,赵孟良,等.球茎甘蓝SSR分子标记开发及指纹图谱构建［J］.南方农业学报,2023,54(1):22-33.［16］王小敏,张春红,胡丽超,等.基于高通量测序的蓝莓果实转录组SSR信息分析［J］.北方园艺,2022(13):49-54.［17］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.［18］ALEXANDER L W,THAMMINA C S,KRAMER M.Cross-transferability of SSR markers in Osmanthus［J］.Genetic Resources and Crop Evolution,2018,65(1):125-136.［19］LIU G,XIE Y,ZHANG D,et al.Analysis of SSR loci and development of SSR primers in Eucalyptus［J］.Journal of Forestry Research,2018,29(2):273-282.［20］程小毛,宗媛媛,黄晓霞.挪威云杉EST资源的SSR信息分析［J］.现代农业科技,2011(8):185-186,192.［21］YANG Q,JIANG Y,WANG Y,et al.SSR loci analysis in transcriptome and molecular marker development in Polygonatumsibiricum［J］.BioMed Research International,2022,2022:4237913.［22］范三红,郭蔼光,单丽伟,等.拟南芥基因密码子偏爱性分析［J］.生物化学与生物物理进展,2003,30(2):221-225.

相似文献/References:

[1]黄琼林,何 瑞,詹若挺,等.南药青天葵转录组SSR位点信息分析[J].北方园艺,2015,39(12):76.[doi:10.11937/bfyy.201512021]
　HUANG Qiong-lin,HE Rui,ZHAN Ruo-ting,et al.SSR Loci Information Analysis in Nervilia fordii Transcriptome[J].Northern Horticulture,2015,39(14):76.[doi:10.11937/bfyy.201512021]
[2]苏秀红,李庆磊,陈随清,等.冬凌草转录组SSR位点分析及多态性初步评价[J].北方园艺,2016,40(04):93.[doi:10.11937/bfyy.201604025]
　SU Xiuhong,LI Qinglei,CHEN Suiqing,et al.Analysis of SSR Loci Information in Transcriptome of Rabdosia rubescens (Henmsl.) Hara and Its Polymorphism[J].Northern Horticulture,2016,40(14):93.[doi:10.11937/bfyy.201604025]
[3]刘慧敏,乌云塔娜,杜红岩.杜仲转录组基因密码子使用偏好性分析[J].北方园艺,2016,40(13):85.[doi:10.11937/bfyy.201613023]
　LIU Huimin,WUYUN Tana,DU Hongyan.Analysis of Characteristic of Codon Usage of Eucommia ulmoides Transcriptome[J].Northern Horticulture,2016,40(14):85.[doi:10.11937/bfyy.201613023]
[4]王云生,文光琴,聂飞.矮丛蓝莓品种“美登”叶片转录组测序和生物信息学分析[J].北方园艺,2017,41(01):101.[doi:10.11937/bfyy.201701023]
　WANG Yunsheng,WEN Guangqin,NIE Fei.Leaf Transcriptome Sequencing and Bioinformatics Analysis of Lowbush Blueberry Variety ‘Blomidon’[J].Northern Horticulture,2017,41(14):101.[doi:10.11937/bfyy.201701023]
[5]姚娜,刘秀明,董园园,等.转录组的测序方法及应用研究概述[J].北方园艺,2017,41(12):192.[doi:10.11937/bfyy.201712043]
　YAO Na,LIU Xiuming,DONG Yuanyuan,et al.Advances in Application and Seguencing Methods of Transcriptome[J].Northern Horticulture,2017,41(14):192.[doi:10.11937/bfyy.201712043]
[6]龙月红,宋菊,国红玉,等.刺五加转录因子基因的挖掘[J].北方园艺,2017,41(20):153.[doi:10.11937/bfyy.20170195]
　LONG Yuehong,SONG Ju,GUO Hongyu,et al.Exploring Transcription Factors in Eleutherococcus senticosus[J].Northern Horticulture,2017,41(14):153.[doi:10.11937/bfyy.20170195]
[7]刘洋,卢凯政,卞少杰,等.田间自然温度调控下核桃根系差异表达基因分析[J].北方园艺,2020,44(17):30.[doi:10.11937/bfyy.20194278]
　LIU Yang,LU Kaizheng,BIAN Shaojie,et al.Analysis of Differentially Expressed Gene Profile in the Root of Walnut Under Natural Temperature Regulation in the Field[J].Northern Horticulture,2020,44(14):30.[doi:10.11937/bfyy.20194278]
[8]廖绪红,沙秀芬,廖雪梅,等.藁本属药用植物分子生物学研究进展[J].北方园艺,2021,(12):133.[doi:10.11937/bfyy.20203322]
　LIAO Xuhong,SHA Xiufen,LIAO Xuemei,et al.Research Progress on Molecular Biology of Ligusticum[J].Northern Horticulture,2021,(14):133.[doi:10.11937/bfyy.20203322]
[9]王一清,王安琪,冯钧婷,等.亚洲百合糖代谢相关基因的表达与代谢分析[J].北方园艺,2022,(06):60.[doi:10.11937/bfyy.20213255]
　WANG Yiqing,WANG Anqi,FENG Junting,et al.Analysis of Gene Expression and Metabolism Related to Sugar Metabolism of Lilium Asiatica Hybrida[J].Northern Horticulture,2022,(14):60.[doi:10.11937/bfyy.20213255]
[10]王小敏,张春红,胡丽超,等.基于高通量测序的蓝莓果实转录组[J].北方园艺,2022,(13):49.[doi:10.11937/bfyy.20214714]
　WANG Xiaomin,ZHANG Chunhong,HU Lichao,et al.SSR Information Analysis of Blueberry Fruit Transcriptome Based on High Throughput Sequencing[J].Northern Horticulture,2022,(14):49.[doi:10.11937/bfyy.20214714]

备注/Memo

第一作者简介：万小林（1999-），女，硕士研究生，研究方向为特色动植物资源开发与利用。E-mail：854520014@qq.com.责任作者：肖强（1970-），男，博士，教授，现主要从事中药材资源开发利用等研究工作。E-mail：1992022@hbmzu.edu.cn.基金项目：国家自然科学基金资助项目(31260057)；黄精黄酮合成分子机制解析与优质种质资源创新资助项目(2023AFD077)；湖北省科技厅技术创新重大专项资助项目(2019ACA120)。收稿日期：2023-12-09

更新日期/Last Update: 2024-08-08