1980s-2010s华北夏谷区主栽谷子品种SSR遗传多样性分析
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摘要
通过对20世纪80年代以来具有代表性的华北夏谷区审(鉴)定的20个主栽谷子品种进行SSR标记多态性分析,研究了华北地区育成谷子品种的遗传多样性。49对引物在20个谷子品种中扩增出具有多态性的条带,共检测出142个等位变异,平均每个位点检测出的等位变异数为2.96个。标记位点多态性信息含量(PIC)变幅为0.0904～0.6896,平均为0.4168。20份材料间的遗传距离变幅为0.0173～0.9000,聚类分析将其分成3个类群,其中谷丰1号自成一类,表明谷丰1号的遗传距离较其他品种大。不同年代谷子品种间遗传距离分析结果显示,各年代品种之间的平均遗传距离由大到小依次是1980s>1990s>2000s>2010s,表明随着年代的递进育成品种的遗传差异减小,亲缘关系增近。
The genetic diversity of 20 representative foxtail millet varieties,which were released in summer sowing region of North China since 1980 s,were analyzed using 49 pairs of SSR markers.These SSR markers unlocked 142 alleles with a mean of 2.96 alleles per locus.The polymorphism information content(PIC)ranged from 0.0904 to 0.6896,with an average of 0.4168.The mean genetic distance was 0.4045 with a range from 0.0173 to 0.9000.These foxtail millet varieties were classified into 3 groups based on SSR assay.The variety Gufeng No.1 formed an independent group,suggesting a higher genetic distance of this variety to others.By investigating the genetic distances of foxtail millet cultivars that were released in different decades,the higher genetic diversity was observed in older varieties(1980s>1990s>2000s>2010s),which indicated a constitutive drop of the genetic variation in foxtail millet cultivars in breeding over last few decades.
The genetic diversity of 20 representative foxtail millet varieties,which were released in summer sowing region of North China since 1980 s,were analyzed using 49 pairs of SSR markers.These SSR markers unlocked 142 alleles with a mean of 2.96 alleles per locus.The polymorphism information content(PIC)ranged from 0.0904 to 0.6896,with an average of 0.4168.The mean genetic distance was 0.4045 with a range from 0.0173 to 0.9000.These foxtail millet varieties were classified into 3 groups based on SSR assay.The variety Gufeng No.1 formed an independent group,suggesting a higher genetic distance of this variety to others.By investigating the genetic distances of foxtail millet cultivars that were released in different decades,the higher genetic diversity was observed in older varieties(1980s>1990s>2000s>2010s),which indicated a constitutive drop of the genetic variation in foxtail millet cultivars in breeding over last few decades.
引文
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[11]Kim E J,Sa K J,Park K C,Lee J K.Study of genetic diversity andrelationshipamongaccessionsoffoxtailmillet[Setaria italica(L.)P.Beauv.]in Korea,China and Pakistan using SSR markers.Genes Genomics,2012,34:529–538
[12]Lin H S,Liao G I,Chiang C Y,Kuoh C S,Chang S B.Genetic diversityinthefoxtailmillet(Setariaitalica)germplasmas determinedbyagronomictraitsandmicrosatellitemarkers.Australian Journal of Crop Sciences,2012,6:342–349
[13]Gupta S,Kumari K,Muthamilarasan M,Parida S K,Prasad M.Populationstructureandassociationmappingofyield contributingagronomictraitsinfoxtailmillet.PlantCell Reports,2014,33(6):881-893
[14]王晓宇,刁现民,王节之,王春芳,王根全,郝晓芬,梁增浩,王雪梅,赵芳芳.谷子SSR分子图谱的构建及主要农艺性状QTL定位.植物遗传资源学报,2013,14(5):871-878Wang X Y,Diao X M,Wang J Z,Wang C F,Wang G Q,Hao X F,Liang Z H,Wang X M,Zhao F F.Construction of genetic map and QTL analysis of some main agronomic traits in millet.Journal of Plant Genetic Resources,2013,14(5):871-878
[15]Fang X M,Dong K J,Wang X Q,Tian P,He J H,Ren R Y,ZhangL,LiuR,LiuX Y,LiM,HuangMZ,ZhangZH,Yang T Y.A high density genetic map and QTL for agronomic andyieldtraitsinFoxtailmillet[Setariaitalica(L.)P.Beauv.].BMC Genomics,2016,17:336-347
[16]Hisato M,Hiroki T,Yohei M,Ryohei T,Kenji F.Genetic analysis of NEKODE1 gene involved in panicle branching of foxtailmillet,Setariaitalica(L.)P.Beauv.,andmappingby using QTL-seq.Molecular Breeding,2016,36:59-66
[17]刘正理,程汝宏,张凤莲,夏雪岩,师志刚,侯升林.华北夏谷区主要谷子品种及其系谱演变与遗传基础分析.华北农学报,2006,21(Z2):103-109LiuZL,ChengRH,ZhangFL,XiaX Y,ShiZG,HouS L.Millet variety in Boreali_Sinica Summer Millets Region and its pedigree evolution and analysis on genetic foundation.Acta Agriculturae Boreali-Sinica.2016,21(Z2):103-109
[18]张晗,王雪梅,王东建,孙加梅,杨延兵,段丽丽,李华,宋国安,王晓宇,李汝玉.谷子基因组SSR信息分析和标记开发.分子植物育种,2013,11(1):30-36Zhang H,Wang X M,Wang D J,Sun J M,Yang Y B,Duan L L,Li H,Song G A,Wang X Y,Li R Y.Survey of SSR in foxtail milletgenomeanddevelopmentofSSRmarkers.Molecular Plant Breeding,2013,11(1):30-36
[19]Liu K J,Muse S V.PowerMarker:an integrated analysis environment for genetic marker analysis.Bioinformatics,2005,21:2128-2129
[20]Botstein D,White R L,Skolnick M,DavisR W.Construction of a genetic linkage map in man using restriction fragment length polymorphisms.American journal of human genetics,1980,32(3):314-331
[21]朱学海,张艳红,宋燕春,赵治海,刘志斋,石云素,黎裕,王天宇.基于SSR标记的谷子遗传多样性研究.植物遗传资源学报,2010,11(6):698-702Zhu X H,Zhang Y H,Song Y C,Zhao Z H,Liu Z Z,Shi Y S,Li Y,Wang T Y.Genetic diversity analysis of foxtail millet accessions revealed by SSR markers.Journal of Plant Genetic Resources,2010,11(6):698-702
[22]Jia X P,Zhang Z B,Liu Y H,Zhang C W,Shi Y S,Song Y C,Wang T Y,Li Y.Development and genetic mapping of SSR markers in foxtail millet[Setaria italica(L.)P.Beauv.].Theoretical and Applied Genetics,2009,118:821-829
[23]王姗姗,张宁,王凯玺,阮亚男,王红艳.中国辽西地区谷子品种遗传多样性的SSR分析.分子植物育种,2015,15(5):1091-1097Wang S S,Zhang N,Wang K X,Ruan Y N,Wang H Y.Genetic diversity of foxtail millet cultivars in western Liaoning province revealed by SSR markers.Molecular Plant Breeding,2015,15(5):1091-1097
[24]杨天育,牟平,孙万仓,何继红,董孔军.中国北部高原地区谷子品种遗传差异的SSR分析.西北植物学报,2010,30(9):1786-1791YangTY,MouP,SunWC,HeJH,DongKJ.Genetic variation of foxtail millet cultivars in north plateau region of China by SSR markers.Acta Boreali-occdentalia Sinica,2010,30(9):1786-1791
[25]丁银灯,胡相伟,聂石辉,王仙,冯国郡,耿洪伟,郭丁.谷子种质资源表型及SSR遗传多样性分析.植物遗传资源学报,2018,19(6):1210-1221Ding YD,HuX W,NieSH,WangX,FengGJ,GengH W,GuoD.AnalysisofphenotypictraitsandSSRgenetic diversity of foxtail millet germplasms.Journal of Plant Genetic Resources,2018,19(6):1210-1221
[2]Doust A N,Kellogg E A,Devos K M,Bennetzen J L.Foxtail millet:a sequence-driven grass model system.Plant Physiology,2009,149:137–141
[3]LiP,Brutnell TP.SetariaviridisandSetariaitalica,modelgeneticsystemsforthePanicoidgrasses.Journalof Experimental Botany,2011,62:3031–3037
[4]Bennetzen J L,Schmutz J,Wang H,Percifield R,Hawkins J,Pontaroli AC,EstepM,FengL,VaughnJN,GrimwoodJ,JenkinsJ,BarryK,LindquistE,HellstenU,DeshpandeS,Wang X,Wu X,Mitros T,Triplett J,Yang X,Ye C Y,MauroHerrera M,Wang L,Li P,Sharma M,Sharma R,Ronald P C,Panaud O,Kellogg E A,Brutnell T P,Doust A N,Tuskan G A,Rokhsar D,Devos K M.Reference genome sequence of the model plant Setaria.Nature Biotechnology,2012,30:555–561
[5]Zhang G Y,Liu X,Quan Z W,Cheng S F,Xu X,Pan S K,Xie M,Zeng P,Yue Z,Wang W L,Tao Y,Bian C,Han C L,Xia Q J,Peng X H,Cao R,Yang X H,Zhan D L,Hu J C,Zhang Y X,Li H N,Li H,Li N,Wang J Y,Wang C C,Wang R Y,Guo T,Cai Y J,Liu C Z,Xiang H T,Shi Q X,Huang P,Chen Q C,Li Y R,Wang J,Zhao Z H,Wang J.Genome sequence of foxtail millet(Setariaitalica)providesinsightsintograssevolution and biofuel potential.Nature Biotechnology,2012,30:549–554
[6]Sato K,Mukainari Y,Naito K,Fukunaga K.Construction of a foxtail millet linkage map and mapping spikelet-tipped bristles1(stb1)byusingtransposondisplaymarkersandsimple sequencerepeatmarkerswithgenomesequenceinformation.Molecular Breeding,2013,31:675–684
[7]Jia G Q,Huang X H,Zhi H,Zhao Y,Zhao Q,Li W J,Chai Y,Yang L F,Liu K Y,Lu H Y,Zhu C R,Lu Y Q,Zhou C C,Fan D L,Weng Q J,Guo Y L,Huang T,Zhang L,Lu T T,Feng Q,Hao H F,Liu H K,Lu P,Zhang N,Li Y H,Guo E H,Wang S J,Wang S Y,Liu J R,Zhang W F,Chen G Q,Zhang B J,Li W,Wang Y F,Li H Q,Zhao B H,Li J Y,Diao X M,Han B.Ahaplotypemapofgenomicvariationsandgenome-wide association studies of agronomic traits in foxtail millet(Setaria italica).Nature Genetics,2013,45:957–961
[8]Kumar P,Gupta V K,Misra A K,Modi D R,Pandey B K.Potential of molecular markers in plant biotechnology.Plant OMIC,2009,2:141–162
[9]Shahroodian S H,Azadfar D,Soltanloo H,Ramezanpour S S.Genetic variability in natural Iranian populations of Cupressus sempervirens var.horizontalis in Caspian Sea coastward assessed by SSR markers.Plant OMIC,2011,4:19–24
[10]Liu Z,Bai G,Zhang D,Znu C,Xia X,Cheng Z,Shi Z.Genetic diversity and population structure of elite foxtail millet(Setaria italica(L.)P.Beauv.)germplasm in China.Crop Science,2011,51:1655–1663
[11]Kim E J,Sa K J,Park K C,Lee J K.Study of genetic diversity andrelationshipamongaccessionsoffoxtailmillet[Setaria italica(L.)P.Beauv.]in Korea,China and Pakistan using SSR markers.Genes Genomics,2012,34:529–538
[12]Lin H S,Liao G I,Chiang C Y,Kuoh C S,Chang S B.Genetic diversityinthefoxtailmillet(Setariaitalica)germplasmas determinedbyagronomictraitsandmicrosatellitemarkers.Australian Journal of Crop Sciences,2012,6:342–349
[13]Gupta S,Kumari K,Muthamilarasan M,Parida S K,Prasad M.Populationstructureandassociationmappingofyield contributingagronomictraitsinfoxtailmillet.PlantCell Reports,2014,33(6):881-893
[14]王晓宇,刁现民,王节之,王春芳,王根全,郝晓芬,梁增浩,王雪梅,赵芳芳.谷子SSR分子图谱的构建及主要农艺性状QTL定位.植物遗传资源学报,2013,14(5):871-878Wang X Y,Diao X M,Wang J Z,Wang C F,Wang G Q,Hao X F,Liang Z H,Wang X M,Zhao F F.Construction of genetic map and QTL analysis of some main agronomic traits in millet.Journal of Plant Genetic Resources,2013,14(5):871-878
[15]Fang X M,Dong K J,Wang X Q,Tian P,He J H,Ren R Y,ZhangL,LiuR,LiuX Y,LiM,HuangMZ,ZhangZH,Yang T Y.A high density genetic map and QTL for agronomic andyieldtraitsinFoxtailmillet[Setariaitalica(L.)P.Beauv.].BMC Genomics,2016,17:336-347
[16]Hisato M,Hiroki T,Yohei M,Ryohei T,Kenji F.Genetic analysis of NEKODE1 gene involved in panicle branching of foxtailmillet,Setariaitalica(L.)P.Beauv.,andmappingby using QTL-seq.Molecular Breeding,2016,36:59-66
[17]刘正理,程汝宏,张凤莲,夏雪岩,师志刚,侯升林.华北夏谷区主要谷子品种及其系谱演变与遗传基础分析.华北农学报,2006,21(Z2):103-109LiuZL,ChengRH,ZhangFL,XiaX Y,ShiZG,HouS L.Millet variety in Boreali_Sinica Summer Millets Region and its pedigree evolution and analysis on genetic foundation.Acta Agriculturae Boreali-Sinica.2016,21(Z2):103-109
[18]张晗,王雪梅,王东建,孙加梅,杨延兵,段丽丽,李华,宋国安,王晓宇,李汝玉.谷子基因组SSR信息分析和标记开发.分子植物育种,2013,11(1):30-36Zhang H,Wang X M,Wang D J,Sun J M,Yang Y B,Duan L L,Li H,Song G A,Wang X Y,Li R Y.Survey of SSR in foxtail milletgenomeanddevelopmentofSSRmarkers.Molecular Plant Breeding,2013,11(1):30-36
[19]Liu K J,Muse S V.PowerMarker:an integrated analysis environment for genetic marker analysis.Bioinformatics,2005,21:2128-2129
[20]Botstein D,White R L,Skolnick M,DavisR W.Construction of a genetic linkage map in man using restriction fragment length polymorphisms.American journal of human genetics,1980,32(3):314-331
[21]朱学海,张艳红,宋燕春,赵治海,刘志斋,石云素,黎裕,王天宇.基于SSR标记的谷子遗传多样性研究.植物遗传资源学报,2010,11(6):698-702Zhu X H,Zhang Y H,Song Y C,Zhao Z H,Liu Z Z,Shi Y S,Li Y,Wang T Y.Genetic diversity analysis of foxtail millet accessions revealed by SSR markers.Journal of Plant Genetic Resources,2010,11(6):698-702
[22]Jia X P,Zhang Z B,Liu Y H,Zhang C W,Shi Y S,Song Y C,Wang T Y,Li Y.Development and genetic mapping of SSR markers in foxtail millet[Setaria italica(L.)P.Beauv.].Theoretical and Applied Genetics,2009,118:821-829
[23]王姗姗,张宁,王凯玺,阮亚男,王红艳.中国辽西地区谷子品种遗传多样性的SSR分析.分子植物育种,2015,15(5):1091-1097Wang S S,Zhang N,Wang K X,Ruan Y N,Wang H Y.Genetic diversity of foxtail millet cultivars in western Liaoning province revealed by SSR markers.Molecular Plant Breeding,2015,15(5):1091-1097
[24]杨天育,牟平,孙万仓,何继红,董孔军.中国北部高原地区谷子品种遗传差异的SSR分析.西北植物学报,2010,30(9):1786-1791YangTY,MouP,SunWC,HeJH,DongKJ.Genetic variation of foxtail millet cultivars in north plateau region of China by SSR markers.Acta Boreali-occdentalia Sinica,2010,30(9):1786-1791
[25]丁银灯,胡相伟,聂石辉,王仙,冯国郡,耿洪伟,郭丁.谷子种质资源表型及SSR遗传多样性分析.植物遗传资源学报,2018,19(6):1210-1221Ding YD,HuX W,NieSH,WangX,FengGJ,GengH W,GuoD.AnalysisofphenotypictraitsandSSRgenetic diversity of foxtail millet germplasms.Journal of Plant Genetic Resources,2018,19(6):1210-1221