|Table of Contents|

Analysis of SSR Site Information in the Transcriptome of Polygonatum kingianum var.grandifolium

《北方园艺》[ISSN:1001-0009/CN:23-1247/S]

Issue:
2024年14
Page:
104-109
Research Field:
Publishing date:

Info

Title:
Analysis of SSR Site Information in the Transcriptome of Polygonatum kingianum var.grandifolium
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)
Keywords:
Polygonatum kingianum var.grandifolium; transcriptome; SSR
PACS:
S 668.9
DOI:
10.11937/bfyy.20234297
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.

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.

Memo

Memo:
-
Last Update: 2024-08-08