大麦黄条点花叶病毒的分布及其分离物的遗传多样性

杨菲1 张爱红1 孟凡思1 霍良占1 李希望1 邸垫平1 苗洪芹1

(1.河北省农林科学院植物保护研究所/河北省农业有害生物综合防治工程技术研究中心/农业部华北北部作物有害生物综合治理重点实验室, 河北保定 071000)

【摘要】【目的】明确大麦黄条点花叶病毒(Barley yellow striate mosaic virus,BYSMV)在中国北方小麦主产区的分布及其种群遗传多样性,为病害流行预警和防控提供理论依据。【方法】2008—2016年,在河北、山东、江苏、安徽、河南、陕西和山西等7个省66个县/市/区田间,采集了864份疑似病毒病症状的植物样品。提取样品总RNA,利用一步法三重RT-PCR技术检测样品中的BYSMV、水稻黑条矮缩病毒(Rice black-streaked dwarf virus,RBSDV)和北方禾谷花叶病毒(Northern cereal mosaic virus,NCMV)。利用RT-PCR扩增获得BYSMV的L和N基因片段,克隆并测定核苷酸序列,应用MEGA、Dna SP和PAML等软件分析BYSMV分离物的系统进化和遗传多样性特征。【结果】从48个县/市/区采集的336份样品中检测到BYSMV,检出率为38.89%,该病毒主要分布于陕西、河北、山西和山东,另外,河南及安徽北部亦有分布,江苏徐州和邳州仅局部发生。基于BYSMV的L、N基因序列构建的系统发育树均可将分离物划分为2个亚组,亚组I中的分离物其来源涉及全部7个省份,而亚组II中的分离物仅来自陕西和山西2个省,基于L基因序列系统发育分析表明亚组II分离物与伊朗的分离物亲缘关系较近,BYSMV的遗传分化与分离物的地理来源相关,而与寄主植物、发生时间无明显相关性。运用RDP程序包的7个软件进行基因重组分析显示没有支持重组的证据。选择压力分析显示,亚组内和亚组间的ω(d N/d S)值(0.02—0.19)远小于1,表明群体正承受净化选择。L和N基因的单倍型多样性(Hd)值(0.90909和0.99524)均大于0.5、核苷酸多样性(π)值(0.01324和0.01224)均高于0.005,表明中国BYSMV群体遗传多样性丰富。基于L和N基因片段的遗传分化研究显示,东部和西部群体的遗传分化系数(FST)值(0.32201和0.37326)均大于0.25,且统计检验差异显著,表明东部和西部的BYSMV群体严重分化;基因流(Nm)值(0.53和0.42)均小于1,说明有限的基因流是促使群体发生遗传分化的主要原因。【结论】BYSMV在中国北方小麦主产区分布广泛,河北、山东、江苏、安徽、河南、陕西和山西等地均有不同程度的发生。BYSMV群体具有丰富的遗传多样性,且东部和西部群体之间存在严重的遗传分化。

【关键词】 大麦黄条点花叶病毒; 系统发生; 遗传多样性; 选择压力; 遗传分化;

【DOI】

【基金资助】 国家“973”计划(2014CB138400) 植物病虫害生物学国家重点实验室开放基金(SKLOF201614)

Download this article

    References

    [1]CONTI M.Vector relationships and other characteristics of Barley yellow striate mosaic virus(BYSMV).Annals of Applied Biology,1980,95(1):83-92.

    [2]DI D P,ZHANG Y L,ZHANG A H,YAN C,YANG F,LU Y G,TIAN L Z,WANG X B,MIAO H Q.Identification of a virus transmitted by small brown planthopper in wheat.Acta Phytopathologica Sinica,2016,46(4):453-460.(in Chinese)

    [3]DI D P,ZHANG Y L,YAN C,YAN T,ZHANG A H,YANG F,CAO X L,LI D W,LU Y G,WANG X B,MIAO H Q.First report of Barley yellow striate mosaic virus on wheat in China.Plant Disease,2014,98(10):1450.

    [4]CONTI M.Investigation on a bullet-shaped virus of cereals isolated in Italy from planthoppers.Journal of Phytopathology,1969,66(3):275-279.

    [5]GREBER R S.Maize sterile stunt-a delphacid transmitted rhabdovirus affecting some maize genotypes in Australia.Australian Journal of Agricultural Research,1982,33(1):13-23.

    [6]LOCKHART B E L,EL-MAATAOUI M,CARROLL T W,LENNON A M,ZASKE S K.Identification of Barley yellow striate mosaic virus in Morocco and its field detection by enzyme immune assay.Plant Disease,1986,70(12):1113-1117.

    [7]IZADPANAH K,EBRAHIM-NESBAT F,AFSHARIFAR A R.Barley yellow striate mosaic virus as the cause of a major disease of wheat and millet in Iran.Journal of Phytopathology,1991,131(4):290-296.

    [8]MAKKOUK K M,BERTSCHINGER L,CONTI M,BOLAY N,DUSUNCELI F.Barley yellow striate mosaic rhabdovirus naturally infects cereal crops in the Anatolian Plateau of Turkey.Journal of Phytopathology,1996,144(7/8):413-415.

    [9]MAKKOUK K,KUMARI S G,GHULAM W,ATTAR N.First record of Barley yellow striate mosaic virus affecting wheat SummerNurseries in Syria.Plant Disease,2004,88(1):83.

    [10]DUMÓN A D,ARGÜELLO-CARO E B,ALEMANDRI M V,BAINOTTI C,MATTIO M F,RODRÍGUEZ S M,DEL VAS M,TRUOL G.Identification and biological characterization of Barley yellow striate mosaic virus(BYSMV):A new wheat disease in Argentina.Tropical Plant Pathology,2011,36(6):374-382.

    [11]YAN T,ZHU J R,DI D P,GAO Q,ZHANG Y L,ZHANG A H,YAN C,MIAO H Q,WANG X B.Characterization of the complete genome of Barley yellow striate mosaic virus reveals a nested gene encoding a small hydrophobic protein.Virology,2015,478:112-122.

    [12]ALMASI R,AFSHARIFAR A,NIAZI A,PAKDEL A,IZADPANAH K.Analysis of the complete nucleotide sequence of the polymerase gene of Barley yellow striate mosaic virus–Iranian isolate.Journal of Phytopathology,2010,158(5):351-356.

    [13]ROOSSINCK M J.Mechanisms of plant virus evolution.Annual Review of Phytopathology,1997,35:191-209.

    [14]DRAKE J W,HOLLAND J J.Mutation rates among RNA viruses.Proceedings of the National Academy of Sciences of the United States of America,1999,96(24):13910-13913.

    [15]WEI T Y,YANG J G,LIAO F R,GAO F L,LU L M,ZHANG X T,LI F,WU Z J,LIN Q Y,XIE L H,LIN H X.Genetic diversity and population structure of Rice stripe virus in China.Journal of General Virology,2009,90(4):1025-1034.

    [16]WU B,BLANCHARD-LETORT A,LIU Y,ZHOU G,WANG X,ELENA S F.Dynamics of molecular evolution and phylogeography of Barley yellow dwarf virus-PAV.PLo S ONE,2011,6(2):e16896.

    [17]YIN X,ZHENG F Q,TANG W,ZHU Q Q,LI X D,ZHANG G M,LIU H T,LIU B S.Genetic structure of Rice black-streaked dwarf virus populations in China.Archives of Virology,2013,158(12):2505-2515.

    [18]HIGGINS C M,CHANG W L,KHAN S,TANG J,ELLIOTT C,DIETZGEN R G.Diversity and evolutionary history of Lettuce necrotic yellows virus in Australia and New Zealand.Archives of Virology,2016,161(2):269-277.

    [19]KLERKS M M,LINDNER J L,VAŠKOVA D,ŠPAK J,THOMPSON J R,JELKMANN W,SCHOEN C D.Detection and tentative grouping of Strawberry crinkle virus isolates.European Journal of Plant Pathology,2004,110:45-52.

    [20]PAPPI P G,MALIOGKA V I,AMOUTZIAS G D,KATIS N I.Genetic variation of Eggplant mottled dwarf virus from annual and perennial plant hosts.Archives of Virology,2016,161(3):631-639.

    [21]TAMURA K,STECHER G,PETERSON D,FILIPSKI A,KUMAR S.MEGA6:Molecular evolutionary genetics analysis version 6.0.Molecular Biology and Evolution,2013,30(12):2725-2729.

    [22]MARTIN D P,MURRELL B,GOLDEN M,KHOOSAL A,MUHIRE B.RDP4:Detection and analysis of recombination patterns in virus genomes.Virus Evolution,2015,1(1):vev003.

    [23]MARTIN D,RYBICKI E.RDP:detection of recombination amongst aligned sequences.Bioinformatics,2000,16(6):562-563.

    [24]PADIDAM M,SAWYER S,FAUQUET C M.Possible emergence of new geminiviruses by frequent recombination.Virology,1999,265(2):218-225.

    [25]SMITH J M.Analyzing the mosaic structure of genes.Journal of Molecular Evolution,1992,34(2):126-129.

    [26]MARTIN D P,POSADA D,CRANDALL K A,WILLIAMSON C.A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints.AIDS Research and Human Retroviruses,2005,21(1):98-102.

    [27]POSADA D,CRANDALL K A.Evaluation of methods for detecting recombination from DNA sequences:computer simulations.Proceedings of the National Academy of Sciences of the United States of America,2001,98(24):13757-13762.

    [28]GIBBS M J,ARMSTRONG J S,GIBBS A J.Sister-scanning:a Monte Carlo procedure for assessing signals in recombinant sequences.Bioinformatics,2000,16(7):573-582.

    [29]BONI M F,POSADA D,FELDMAN M W.An exact nonparametric method for inferring mosaic structure in sequence triplets.Genetics,2007,176(2):1035-1047.

    [30]YANG Z H.PAML 4:a program package for phylogenetic analysis by maximum likelihood.Molecular Biology and Evolution,2007,24(8):1586-1591.

    [31]SWANSON W J,VACQUIER V D.The rapid evolution of reproductive proteins.Nature Reviews Genetics,2002,3(2):137-144.

    [32]SWANSON W J,NIELSEN R,YANG Q F.Pervasive adaptive evolution in mammalian fertilization proteins.Molecular Biology and Evolution,2003,20(1):18-20.

    [33]YANG Z H,NIELSEN R,GOLDMAN N,PEDERSEN A M K.Codon-substitution models for heterogeneous selection pressure at amino acid sites.Genetics,2000,155(1):431-449.

    [34]YANG Z H,WONG W S W,NIELSEN R.Bayes empirical bayes inference of amino acid sites under positive selection.Molecular Biology and Evolution,2005,22(4):1107-1118.

    [35]LIBRADO P,ROZAS J.Dna SP v5:a software for comprehensive analysis of DNA polymorphism data.Bioinformatics,2009,25(11):1451-1452.

    [36]QIU W F,YANG L,MEI R H,LIN Z L,CAI Z N.Studies on a rosette disease of wheat I distribution,symptoms and losses.Acta Phytophylacica Sinica,1979,6(1):11-16.(in Chinese)

    [37]DUAN X F,DI D P,ZHANG A H,MIAO H Q.Molecular detection and identification of the pathogen causing wheat rosette stunt disease in the north of China.Acta Phytopathologica Sinica,2013,43(1):91-94.(in Chinese)

    [38]MOYA A,HOLMES E C,GONZÁLEZ-CANDELAS F.The population genetics and evolutionary epidemiology of RNA viruses.Nature Reviews Microbiology,2004,2(4):279-288.

This Article

ISSN:0578-1752

CN: 11-1328/S

Vol 51, No. 02, Pages 279-289

January 2018

Downloads:0

Share
Article Outline

摘要

  • 0 引言
  • 1 材料与方法
  • 2 结果
  • 3 讨论
  • 4 结论
  • 参考文献