[1]邢啸林,陈丹,况勇,等.水芹SSR分子标记开发与遗传多样性分析[J].江苏农业学报,2024,(07):1285-1296.[doi:doi:10.3969/j.issn.1000-4440.2024.07.015]
　XING Xiaolin,CHEN Dan,KUANG Yong,et al.Development of SSR molecular markers and genetic diversity analysis of Oenanthe javanica[J].,2024,(07):1285-1296.[doi:doi:10.3969/j.issn.1000-4440.2024.07.015]
点击复制

水芹SSR分子标记开发与遗传多样性分析()
分享到：

江苏农业学报[ISSN:1006-6977/CN:61-1281/TN]

卷:
期数:
2024年07期
页码:
1285-1296
栏目:
园艺
出版日期:
2024-07-30

文章信息/Info

Title:
Development of SSR molecular markers and genetic diversity analysis of Oenanthe javanica
作者:
邢啸林1; 陈丹1; 况勇1; 徐文娟1; 黄然2; 甘德芳1
(1.安徽农业大学园艺学院,安徽合肥230036；2.安徽正泽生态农业科技发展有限公司,安徽定远233230)
Author(s):
XING Xiaolin1; CHEN Dan1; KUANG Yong1; XU Wenjuan1; HUANG Ran2; GAN Defang1
(1.School of Horticulture, Anhui Agricultural University, Hefei 230036, China;2.Anhui Zhengze Ecological Agriculture Science and Technology Development Co., Ltd., Dingyuan 233230, China)
关键词:
水芹; 简单重复序列(SSR)分子标记; 聚类分析; 遗传多样性
Keywords:
dropwort; simple sequence repeat (SSR) molecular markers; cluster analysis; genetic diversity
分类号:
S645.901
DOI:
doi:10.3969/j.issn.1000-4440.2024.07.015
文献标志码:
A
摘要:
水芹是伞形科水芹属多年生草本植物,是一种重要的药食两用蔬菜作物。在中国,水芹的种植区域十分广泛,然而目前对其种质资源的鉴定、培育及遗传信息的研究较少。本研究利用溧阳白芹基因组开发水芹简单重复序列(SSR)分子标记,分析55份水芹的遗传多样性并用非加权组平均法(UPGMA)构建系统进化树,同时用SSR扩增条带数据构建DNA指纹图谱。结果显示,共鉴定到325 699个SSR位点,其中单核苷酸SSR重复单元、二核苷酸SSR重复单元、三核苷酸SSR重复单元、四核苷酸SSR重复单元、五核苷酸SSR重复单元、六核苷酸SSR重复单元的出现频率分别为33.94%、54.62%、9.31%、1.66%、0.17%、0.29%,其中二核苷酸SSR重复单元数最多,有177 887个,且A/T(占比为29.98%)和AT/AT(占比为35.70%)是较丰富的重复类型。UPGMA分析结果表明,33对高多态性引物[多态信息含量(PIC)>0.25]可将55份水芹材料分为4组。利用筛选出的4对引物(Oj-084、Oj-110、Oj-112、Oj-156)可以将55份水芹材料完全区分开,并且可构建指纹图谱。研究结果可为水芹种质资源鉴定、保护及分子遗传育种提供有力依据。
Abstract:
Dropwort is a perennial herbaceous plant of Oenanthe genus in the Apiaceae family, which is an important vegetable crop for both food and medicine. In China, the planting area of dropwort is very extensive. However, there are few studies on the identification and cultivation of its germplasm resources and the genetic information. In this study, we used the genome of Liyang Baiqin to develop simple sequence repeat (SSR) molecular markers for dropwort, and analyzed the genetic diversity of 55 samples. The phylogenetic tree was constructed by unweighted pair group method with arithmetic means (UPGMA), and the DNA fingerprint was constructed with SSR amplified band data. The results showed that a total of 325 699 SSR loci were identified. The frequencies of single nucleotide SSR repeat units, dinucleotide SSR repeat units, trinucleotide SSR repeat units, tetranucleotide SSR repeat units, pentanucleotide SSR repeat units and hexanucleotide SSR repeat units were 33.94%, 54.62%, 9.31%, 1.66%, 0.17% and 0.29%, respectively. Among them, the number of dinucleotide SSR repeat units was the largest (177 887), and A/T (29.98%) and AT/AT (35.70%) were the more abundant repeat types. The results of UPGMA analysis indicated that 55 Oenanthe javanica materials could be divided into four groups by 33 pairs of highly polymorphic primers (polymorphic information content>0.25). Four pairs of primers (Oj-084, Oj-110, Oj-112, Oj-156) were used to completely distinguish 55 Oenanthe javanica materials, and the fingerprint could be constructed. The results can provide a strong basis for the identification, protection and molecular genetic breeding of Oenanthe javanica germplasm resources.

参考文献/References:

[1]赵有为. 中国水生蔬菜[M]. 北京:中国农业出版社,1999.
[2]AI G, HUANG Z M, LIU Q C, et al. The protective effect of total phenolics from Oenanthe javanica on acute liver failure induced by D-galactosamine[J]. Journal of Ethnopharmacology,2016,100(186):53-60.
[3]CHAN E W C, WONG S K, CHAN H T. Ulam herbs of Oenanthe javanica and Cosmos caudatus:an overview on their medicinal properties[J]. Journal of Natural Remedies,2017,16(4):137.
[4]WANG W N,YANG X B,LIU H Z,et al. Effect of Oenanthe javanica flavone on human and duck hepatitis B virus infection[J]. Acta Pharmacologica Sinica,2005,26(5):587-592.
[5]李瑞,王燕,李良俊. 水芹品质研究现状[J]. 长江蔬菜,2017(22):27-31.
[6]WEI R R, SANG Z P, MA Q G. A new geranylated lignan from Oenanthe javanica and anti-inflammatory activity[J]. Chemistry of Natural Compounds,2022,58(5):808-811.
[7]JO B R, KIM H S, AHN J W, et al. A novel antiviral protein derived from Oenanthe javanica:type I interferon-dependent antiviral signaling and its pharmacological potential[J]. Biomolecules,2022,12(6):835.
[8]尹渝来,孙芳芳,鲍忠洲,等. 不同的水芹栽培方法介绍[J]. 长江蔬菜,2017(18):123-125.
[9]朱顺华,罗庆,李梦瑶,等. 水芹雄性不育材料的鉴定及营养品质分析[J]. 植物科学学报,2023,41(3):343-348.
[10]LU C L,LI X F. A review of Oenanthe javanica (blume) DC. as traditional medicinal plant and its therapeutic potential[J]. Evidence-Based Complementary and Alternative Medicine,2019:6495819. DOI:10.1155/2019/6495819.
[11]吕艳. 湿栽水芹遮光软化栽培关键技术研究[D]. 扬州:扬州大学,2022.
[12]YAO D R, CHANG Y J, WANG W, et al. The safety of consuming water dropwort used to purify livestock wastewater considering accumulated antibiotics and antibiotic resistance genes[J]. Antibiotics,2022,11(4):428.
[13]GAO J Q, LI Q, ZHANG J S, et al. Purification of micro-polluted lake water by biofortification of vertical subsurface flow constructed wetlands in low-temperature season[J]. Water,2022,14(6):896.
[14]欧开翔,谷荣辉. 水芹的化学成分、药理活性及其功能性食品研究进展[J]. 食品工业科技,2022,43(1):435-444.
[15]程雷,崔明晓,刘可玉,等. 水芹多糖的提取及其对巨噬细胞RAW264.7免疫活性的初步研究[J]. 食品与发酵工业,2023,49(6):79-85.
[16]袁丽,陈欣,周龙甫,等. 水芹提取物降低高尿酸血症大鼠血尿酸水平及机制研究[J]. 中国新药杂志,2020,29(22):2597-2604.
[17]ZHANG Z, DONG H Z, YUAN M, et al. The complete chloroplast genome of Oenanthe javanica[J]. Mitochondrial DNA Part B-Resources,2020,5(3):3151-3153.
[18]LIU J X, JIANG Q, TAO J P, et al. Integrative genome,transcriptome,microRNA,and degradome analysis of water dropwort (Oenanthe javanica) in response to water stress[J]. Horticulture Research,2021,8(1):262.
[19]赵书花. 水芹种质资源亲缘关系分析[D]. 扬州:扬州大学,2010.
[20]傅劭. 水芹种质资源的系统学及繁殖生态学研究[D]. 武汉:武汉大学,2015.
[21]王月,刘佳,陈闽,等. 基于AOX1和MCM5基因水芹地方品种的遗传关系分析及‘玉祁红芹’ISSR-SCAR标记建立[J]. 植物资源与环境学报,2021,30(4):50-59.
[22]马名川,刘龙龙,刘璋,等. 苦荞全基因组SSR位点特征分析与分子标记开发[J]. 作物杂志,2021,37(1):38-46.
[23]杜伟,王东航,侯思宇,等. 基于苦荞全长转录组测序开发SSR标记及遗传多样性分析[J]. 植物生理学报,2020,56(7):1432-1444.
[24]蔡齐宗,王佳蕊,陈庆富,等. 苦荞全基因组SSR位点鉴定及分子标记开发[J]. 河南农业大学学报,2022,56(3):392-400.
[25]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.
[26]FANG X M, HUANG K H, NIE J, et al. Genome-wide mining,characterization,and development of microsatellite markers in Tartary buckwheat (Fagopyrum tataricum Garetn.)[J]. Euphytica,2019,215(11):183.
[27]李金璐,王硕,于婧,等. 一种改良的植物DNA提取方法[J]. 植物学报,2013,48(1):72-78.
[28]CHEN C J, CHEN H, ZHANG Y, et al. TBtools:an integrative toolkit developed for interactive analyses of big biological data[J]. Molecular Plant,2020,13(8):1194-1202.
[29]仇律雯,杨扬,范亚明,等. 国家东南区鲜食糯玉米品质及农艺性状与SSR标记遗传多样性分析[J]. 江苏农业科学,2022,50(18):130-135.
[30]周彩霞,罗培四,孔方南,等. 木奶果种质资源的遗传多样性分析及DNA指纹图谱构建[J]. 南方农业学报,2022,53(5):1207-1215.
[31]陈翠萍,刘洋. 基于SSR标记的藜麦种质资源遗传多样性分析与指纹图谱构建[J]. 江苏农业科学,2022,50(13):26-31.
[32]王凤格,田红丽,易红梅,等. 植物品种DNA指纹鉴定原理及其鉴定方案[J]. 分子植物育种,2018,16(14):4756-4766.
[33]CHAKRAVARTHI B K, NARAVANENI R. SSR marker based DNA fingerprinting and diversity study in rice (Oryza sativa. L)[J]. African Journal of Biotechnology,2006,5(9):684-688.
[34]SALEHI M, ARZANI A, TALEBI M, et al. Genetic diversity of wheat wild relatives using SSR markers[J]. ABI Genetika,2018,50(1):131-141.
[35]王凤格,杨扬,易红梅,等. 中国玉米审定品种标准SSR指纹库的构建[J]. 中国农业科学,2017,50(1):1-14.
[36]陈昌龙,董岩,田宇,等. 芹菜转录组数据SSR标记的开发及其遗传多样性分析[J]. 农业生物技术学报,2020,28(4):616-628.
[37]马振国,欧承刚,刘莉洁,等. 胡萝卜品种资源遗传多样性及亲缘关系研究[J]. 中国蔬菜,2015(11):28-34.
[38]FENG K, KAN X Y, LI R, et al. Integrative analysis of long- and short-read transcriptomes identify the regulation of terpenoids biosynthesis under shading cultivation in Oenanthe javanica[J]. Frontiers in Genetics,2022,13:813216.
[39]FU N, WANG P Y, LIU X D, et al. Use of EST-SSR markers for evaluating genetic diversity and fingerprinting celery (Apium graveolens L.) cultivars[J]. Molecules,2014,19(2):1939-1955.

相似文献/References:

[1]高磊,李慧,洪奔,等.葡萄品种钟山红玉与钟山红杂交后代的SSR鉴定及葡萄果实性状遗传倾向分析[J].江苏农业学报,2023,(01):187.[doi:doi:10.3969/j.issn.1000-4440.2023.01.022]
　GAO Lei,LI Hui,HONG Ben,et al.SSR identification and genetic tendency analysis of fruit characters of hybrid offspring of Zhongshan Hongyu and Zhongshan Hong[J].,2023,(07):187.[doi:doi:10.3969/j.issn.1000-4440.2023.01.022]

备注/Memo

备注/Memo:
收稿日期：2023-08-26基金项目：安徽省良种攻关项目(22805003)；安徽省自然科学研究重点项目(2023AH051056)；安徽省自然科学基金项目(2008085MC80)作者简介：邢啸林(1998-),男,安徽凤阳人,硕士研究生,主要从事蔬菜种质资源与遗传育种研究。(E-mail)1697027498@qq.com通讯作者：甘德芳,(E-mail)gandf@ahau.edu.cn
更新日期/Last Update: 2024-09-14