玉米Suwan种质改良过程中的关键基因组区段发掘
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摘要
玉米Suwan种质抗性好、适应性强、籽粒品质优,在现代育种尤其是南方玉米育种中具有不可替代的作用。明确Suwan种质优良特性在改良过程中的遗传机制对我国南方玉米生态区的玉米生产具有重要意义。本研究以Suwan1(Suwan1C10)及其衍生群体(苏兰1号C0)不同改良世代为材料,利用包含5.6万个SNP标记的MaizeSNP50芯片对供试群体进行基因型鉴定。遗传分析发现:Suwan 1群体不同改良世代间的基因组差异片段较少,仅出现5个,其中4个出现在第11轮改良世代(Suwan 1 C11), 1个出现在第15轮改良世代(Suwan 1 C15);苏兰1号不同改良世代间的基因组差异片段相对较多,共有18个,其中8个在不同改良世代间稳定遗传; Suwan种质改良形成苏兰1号群体的过程中,共获得43个Lancaster特异性遗传片段,其中35个在苏兰1号不同改良世代间稳定遗传。全基因组关联分析共鉴定出16个与穗行数显著关联的QTN,分别位于第2、第3、第5、第6、第7、第8、第9染色体上,其中SYN25713和SYN36577位于苏兰1号群体的Lancaster特异性遗传片段内;共检测到13个控制穗长相关的QTN,分别位于第1、第2、第5、第7、第8、第9染色体上,其中PZE-105143697位于苏兰1号群体的Lancaster特异性遗传片段内。该结果为后续全基因组关联研究和分子标记辅助选择等提供了重要的理论依据。
Suwan germplasm with good resistance,strong adaptability and excellent grain quality has played an irreplaceable role in modern breeding,especially in the southern of China.It is important to clarify the genetic mechanism of Suwan germplasm.In this study,modified generations of Suwan 1(Suwan 1 C10) and its derived population(Suwan-Lancaster 1 C0) were used to be genotyped by using MaizeSNP50 chips containing about 56,000 SNP markers.There was a smaller genome differences among different improved generations for Suwan 1 population,with only five different inherited fragments identified,among which four appeared only in the 11 th improved generation(Suwan 1 C11),one appeared only in the 15 th improved generation(Suwan 1 C15).For Suwan-Lancaster1 population,among 18 different genetic fragments eight were stably inherited in different improved generations.A total of 43 specific genetic segments of Lancaster germplasm were obtained,among them 35 were stably inherited in different improved generations.Genome-wide association studies(GWAS) showed that 16 QTNs significantly associated with kernel row number were located on chromosomes 2,3,5,6,7,8,and 9,respectively,among them SYN25713 and SYN36577 were located in the Lancaster specific genetic fragment of the Suwan-Lancaster 1 population.A total of 13 QTNs related to ear length were located on chromosomes 1,2,5,7,8,and 9,respectively,among them PZE-105143697 was located in the Lancaster specific genetic fragment.These results provide an important theoretical basis for the subsequent genome-wide association study and molecular marker assisted selection.
Suwan germplasm with good resistance,strong adaptability and excellent grain quality has played an irreplaceable role in modern breeding,especially in the southern of China.It is important to clarify the genetic mechanism of Suwan germplasm.In this study,modified generations of Suwan 1(Suwan 1 C10) and its derived population(Suwan-Lancaster 1 C0) were used to be genotyped by using MaizeSNP50 chips containing about 56,000 SNP markers.There was a smaller genome differences among different improved generations for Suwan 1 population,with only five different inherited fragments identified,among which four appeared only in the 11 th improved generation(Suwan 1 C11),one appeared only in the 15 th improved generation(Suwan 1 C15).For Suwan-Lancaster1 population,among 18 different genetic fragments eight were stably inherited in different improved generations.A total of 43 specific genetic segments of Lancaster germplasm were obtained,among them 35 were stably inherited in different improved generations.Genome-wide association studies(GWAS) showed that 16 QTNs significantly associated with kernel row number were located on chromosomes 2,3,5,6,7,8,and 9,respectively,among them SYN25713 and SYN36577 were located in the Lancaster specific genetic fragment of the Suwan-Lancaster 1 population.A total of 13 QTNs related to ear length were located on chromosomes 1,2,5,7,8,and 9,respectively,among them PZE-105143697 was located in the Lancaster specific genetic fragment.These results provide an important theoretical basis for the subsequent genome-wide association study and molecular marker assisted selection.
引文
[1]陈泽辉.贵州玉米育种.贵阳:贵州科技出版社,2011.pp100-130.Chen Z H.Maize Breeding in Guizhou.Guiyang:Guizhou Science and Technology Publishing House,2011.pp 100-130(in Chinese).
[2]Vasal S K,Srinivasan G,Crossa J,Beck D L.Heterosis and combining ability of CIMMYT's subtropical and temperate earlymaturity maize germplasm.Crop Sci,1992,32:884-890.
[3]陈泽辉,祝云芳,王安贵,郭向阳,邬成.玉米Tuxpeno和Suwan种质的改良研究.贵州农业科学,2010,38(2):1-4.Chen Z H,Zhu Y F,Wang A G,Guo X Y,Wu C.Improvement of Tuxpeno and Suwan germplasm in maize.Guizhou Agric Sci,2010,38(2):1-4(in Chinese with English abstract).
[4]陈泽辉,高翔,祝云芳.Suwan与我国四大玉米种质的配合力和杂种优势分析.玉米科学,2005,13(1):5-9.Chen Z H,Gao X,Zhu Y F.Study on the combining ability and heterosis between Suwan and four major maize germplasm of China.J Maize Sci,2005,13(1):5-9(in Chinese with English abstract).
[5]胡学爱.玉米新品种--雅玉2号.农业科技通讯,1993,(8):39.Hu X A.New maize cultivars-Yayu No.2.Bull Agric Sci Technol,1993,(8):39(in Chinese).
[6]柏光晓,任洪.适宜西南山区的高产优质多抗玉米杂交种贵单8号选育研究.玉米科学,2007,15(增刊1):27-29.Bai G X,Ren H.Breeding study of high yield,good quality and high resistance corn hybrid vareity Guidan No.8.J Maize Sci,2007,15(suppl 1):27-29(in Chinese with English abstract).
[7]祝云芳,陈泽辉,任洪,王安贵,郭向阳.国审玉米新品种金玉506的选育及应用.农业科技通讯,2014,(9):176-178.Zhu Y F,Chen Z H,Ren H,Wang A G,Guo X Y.Breeding and application of a new country trial maize cultivars Jinyu 506.Bull Agric Sci Technol,2014,(9):176-178(in Chinese).
[8]黄吉美.会单4号制种技术.作物杂志,1996,(1):12.Huang J M.Seed production technology of Huidan No.4.Crops,1996,(1):12(in Chinese).
[9]兰进好,李新海,高树仁,张宝石,张世煌.不同生态环境下玉米产量性状QTL分析.作物学报,2005,31:1253-1259.Lan J H,Li X H,Gao S R,Zhang B S,Zhang S H.QTL analysis of yield components in maize under different environments.Acta Agron Sin,2005,31:1253-1259(in Chinese with English abstract).
[10]吴迅.玉米重要自交系的遗传特征鉴定与株型性状关联分析.四川农业大学博士学位论文,四川成都,2013.Wu X.Genetic Characterization of Important Maize Inbred Lines and Association Mapping of Plant Architecture-related Traits.PhD Dissertation of Sichuan Agricultural University,Chengdu,Sichuan,China,2013(in Chinese with English abstract).
[11]Yang C,Liu J,Rong T Z.Detection of quantitative trait loci for ear row number in F2 populations of maize.Genet Mol Res Gmr,2015,14:14229.
[12]杨文鹏,关琦,杨留启,王伟,张文龙,祝云芳,潘敏娜,沈建华,赵致.贵州70份玉米自交系的SSR标记遗传多样性及其杂种优势群分析.植物遗传资源学报,2011,12:241-248.Yang W P,Guan Q,Yang L Q,Wang W,Zhang W L,Zhu Y F,Pan M N,Shen J H,Zhao Z.Genetic diversity and heterotic group of 70 maize inbred lines in Guizhou by SSR marker.JPlant Genet Resour,2011,12:241-248(in Chinese with English abstract).
[13]闫飞燕,范继征,周锦国,程伟东,石达金,钟昌松,覃兰秋,孔祥林.12个不同玉米热带种质比例群体的产量配合力效应及杂种优势分析.西南农业学报,2011,24:471-477.Yan F Y,Fan J Z,Zhou J G,Cheng W D,Shi D J,Zhong C S,Qin L Q,Kong X L.Combining ability and heterosis of 12 different kinds of tropic maize populations.Southwest China J Agric Sci,2011,24:471-477(in Chinese with English abstract).
[14]番兴明,谭静,杨峻芸,刘峰,黄必华,黄云霄.外来热带、亚热带玉米自交系与温带玉米自交系产量配合力分析及其遗传关系的研究.中国农业科学,2002,35:743-749.Fan X M,Tan J,Yang J Y,Liu F,Huang B H,Huang Y X.Study on yield combining ability and genetic relationship between exotic tropical,subtropical maize inbreds and domestic temperate inbreds.Sci Agric Sin,2002,35:743-749(in Chinese with English abstract).
[15]Zhang X,Zhang H,Li L J,Lan H,Ren Z Y,Liu D,Wu L,Liu HL,Jaqueth J,Li B L,Pan G T,Gao S B.Characterizing the population structure and genetic diversity of maize breeding germplasm in Southwest China using genome-wide SNP markers.BMC Genomics,2016,17:697.
[16]陈泽辉,祝云芳,王安贵,郭向阳,赵丽,胡兴.玉米Tuxpeno-Reid和Suwan-Lancaster合成群体相互轮回选择效果及杂种优势研究.玉米科学,2013,(4):1-5.Chen Z H,Zhu Y F,Wang A G,Guo X Y,Zhao L,Hu X.Two maize populations of Tuxpeno-Reid and Suwan-Lancaster by reciprocal recurrent selection and the heterosis.J Maize Sci,2013,(4):1-5(in Chinese with English abstract).
[17]石云素.玉米种质资源描述规范和数据标准.中国农业出版社,2006.p 62.Shi Y S.Descriptors and Data Standard for Maize(Zea mays L.).Beijing:China Agriculture Press,2006.p 62(in Chinese).
[18]Publishing S.Base SAS 9.2 Procedures Guide:Statistical Procedures.SAS Publishing,2008.
[19]Wu X,Li Y,Shi Y,Song Y,Wang T,Huang Y,Li Y.Fine genetic characterization of elite maize germplasm using high-throughput SNP genotyping.Theor Appl Genet,2014,127:621-631.
[20]Bradbury P J,Zhang Z,Kroon D E,Casstevens T M,Ramdoss Y,Buckler E S.TASSEL:software for association mapping of complex traits in diverse samples.Bioinformatics,2007,23:2633-2635.
[21]陈泽辉.群体与数量遗传学.贵阳:贵州科技出版社,2009.pp28-53.Chen Z H.Population and Quantitative Genetics.Guiyang:Guizhou Science and Technology Publishing House,2009.pp 28-53(in Chinese).
[22]雍洪军,张芳军,张德贵,张晓聪,李明顺,潘光堂,张世煌,李新海,荣廷昭.10个玉米群体改良杂交种吉单261的育种利用分析.核农学报,2014,28:765-771.Yong H J,Zhang F J,Zhang D G,Zhang X C,Li M S,Pan G T,Zhang S H,Li X H,Rong Y Z.Analysis on breeding potential of ten populations to improve a Chinese maize hybrid‘Jidan 261’.JNucl Agric Sci,2014,28:765-771(in Chinese with English abstract).
[23]李芦江,陈文生,杨克诚,潘光堂,荣廷昭.控制双亲混合选择对2个玉米窄基群体主要性状的改良效果.中国农业科学,2010,43:4775-4786.Li L J,Chen W S,Yang K C,Pan G T,Rong T Z.Effects of biparental mass selection on two narrow-base maize populations.Sci Agric Sin,2010,43:4775-4786(in Chinese with English abstract).
[24]Lu M,Xie C X,Li X H,Hao Z F,Li M S,Weng J F,Zhang D G,Bai L,Zhang S H.Mapping of quantitative trait loci for kernel row number in maize across seven environments.Mol Breed,2011,28:143-152.
[25]Yan J B,Tang H,Huang Y Q,Zheng Y L,Li J S.Quantitative trait loci mapping and epistatic analysis for grain yield and yield components using molecular markers with an elite maize hybrid.Euphytica,2006,149:121-131.
[26]王辉,梁前进,胡小娇,李坤,黄长玲,王琪,何文昭,王红武,刘志芳.不同密度下玉米穗部性状的QTL分析.作物学报,2016,42:1592-1600.Wang H,Liang Q J,Hu X J,Li K,Huang C L,Wang Q,He W Z,Wang H W,Liu Z F.QTL mapping for ear architectural traits under three plant densities in maize.Acta Agron Sin,2016,42:1592-1600(in Chinese with English abstract).
[27]Zhou G,Zhu Q,Yang G,Huang J,Cheng S,Yue B,Zhang Z.qEL7.2 is a pleiotropic QTL for kernel number per row,ear length and ear weight in maize(Zea mays L.).Euphytica,2015,203:429-436.
[2]Vasal S K,Srinivasan G,Crossa J,Beck D L.Heterosis and combining ability of CIMMYT's subtropical and temperate earlymaturity maize germplasm.Crop Sci,1992,32:884-890.
[3]陈泽辉,祝云芳,王安贵,郭向阳,邬成.玉米Tuxpeno和Suwan种质的改良研究.贵州农业科学,2010,38(2):1-4.Chen Z H,Zhu Y F,Wang A G,Guo X Y,Wu C.Improvement of Tuxpeno and Suwan germplasm in maize.Guizhou Agric Sci,2010,38(2):1-4(in Chinese with English abstract).
[4]陈泽辉,高翔,祝云芳.Suwan与我国四大玉米种质的配合力和杂种优势分析.玉米科学,2005,13(1):5-9.Chen Z H,Gao X,Zhu Y F.Study on the combining ability and heterosis between Suwan and four major maize germplasm of China.J Maize Sci,2005,13(1):5-9(in Chinese with English abstract).
[5]胡学爱.玉米新品种--雅玉2号.农业科技通讯,1993,(8):39.Hu X A.New maize cultivars-Yayu No.2.Bull Agric Sci Technol,1993,(8):39(in Chinese).
[6]柏光晓,任洪.适宜西南山区的高产优质多抗玉米杂交种贵单8号选育研究.玉米科学,2007,15(增刊1):27-29.Bai G X,Ren H.Breeding study of high yield,good quality and high resistance corn hybrid vareity Guidan No.8.J Maize Sci,2007,15(suppl 1):27-29(in Chinese with English abstract).
[7]祝云芳,陈泽辉,任洪,王安贵,郭向阳.国审玉米新品种金玉506的选育及应用.农业科技通讯,2014,(9):176-178.Zhu Y F,Chen Z H,Ren H,Wang A G,Guo X Y.Breeding and application of a new country trial maize cultivars Jinyu 506.Bull Agric Sci Technol,2014,(9):176-178(in Chinese).
[8]黄吉美.会单4号制种技术.作物杂志,1996,(1):12.Huang J M.Seed production technology of Huidan No.4.Crops,1996,(1):12(in Chinese).
[9]兰进好,李新海,高树仁,张宝石,张世煌.不同生态环境下玉米产量性状QTL分析.作物学报,2005,31:1253-1259.Lan J H,Li X H,Gao S R,Zhang B S,Zhang S H.QTL analysis of yield components in maize under different environments.Acta Agron Sin,2005,31:1253-1259(in Chinese with English abstract).
[10]吴迅.玉米重要自交系的遗传特征鉴定与株型性状关联分析.四川农业大学博士学位论文,四川成都,2013.Wu X.Genetic Characterization of Important Maize Inbred Lines and Association Mapping of Plant Architecture-related Traits.PhD Dissertation of Sichuan Agricultural University,Chengdu,Sichuan,China,2013(in Chinese with English abstract).
[11]Yang C,Liu J,Rong T Z.Detection of quantitative trait loci for ear row number in F2 populations of maize.Genet Mol Res Gmr,2015,14:14229.
[12]杨文鹏,关琦,杨留启,王伟,张文龙,祝云芳,潘敏娜,沈建华,赵致.贵州70份玉米自交系的SSR标记遗传多样性及其杂种优势群分析.植物遗传资源学报,2011,12:241-248.Yang W P,Guan Q,Yang L Q,Wang W,Zhang W L,Zhu Y F,Pan M N,Shen J H,Zhao Z.Genetic diversity and heterotic group of 70 maize inbred lines in Guizhou by SSR marker.JPlant Genet Resour,2011,12:241-248(in Chinese with English abstract).
[13]闫飞燕,范继征,周锦国,程伟东,石达金,钟昌松,覃兰秋,孔祥林.12个不同玉米热带种质比例群体的产量配合力效应及杂种优势分析.西南农业学报,2011,24:471-477.Yan F Y,Fan J Z,Zhou J G,Cheng W D,Shi D J,Zhong C S,Qin L Q,Kong X L.Combining ability and heterosis of 12 different kinds of tropic maize populations.Southwest China J Agric Sci,2011,24:471-477(in Chinese with English abstract).
[14]番兴明,谭静,杨峻芸,刘峰,黄必华,黄云霄.外来热带、亚热带玉米自交系与温带玉米自交系产量配合力分析及其遗传关系的研究.中国农业科学,2002,35:743-749.Fan X M,Tan J,Yang J Y,Liu F,Huang B H,Huang Y X.Study on yield combining ability and genetic relationship between exotic tropical,subtropical maize inbreds and domestic temperate inbreds.Sci Agric Sin,2002,35:743-749(in Chinese with English abstract).
[15]Zhang X,Zhang H,Li L J,Lan H,Ren Z Y,Liu D,Wu L,Liu HL,Jaqueth J,Li B L,Pan G T,Gao S B.Characterizing the population structure and genetic diversity of maize breeding germplasm in Southwest China using genome-wide SNP markers.BMC Genomics,2016,17:697.
[16]陈泽辉,祝云芳,王安贵,郭向阳,赵丽,胡兴.玉米Tuxpeno-Reid和Suwan-Lancaster合成群体相互轮回选择效果及杂种优势研究.玉米科学,2013,(4):1-5.Chen Z H,Zhu Y F,Wang A G,Guo X Y,Zhao L,Hu X.Two maize populations of Tuxpeno-Reid and Suwan-Lancaster by reciprocal recurrent selection and the heterosis.J Maize Sci,2013,(4):1-5(in Chinese with English abstract).
[17]石云素.玉米种质资源描述规范和数据标准.中国农业出版社,2006.p 62.Shi Y S.Descriptors and Data Standard for Maize(Zea mays L.).Beijing:China Agriculture Press,2006.p 62(in Chinese).
[18]Publishing S.Base SAS 9.2 Procedures Guide:Statistical Procedures.SAS Publishing,2008.
[19]Wu X,Li Y,Shi Y,Song Y,Wang T,Huang Y,Li Y.Fine genetic characterization of elite maize germplasm using high-throughput SNP genotyping.Theor Appl Genet,2014,127:621-631.
[20]Bradbury P J,Zhang Z,Kroon D E,Casstevens T M,Ramdoss Y,Buckler E S.TASSEL:software for association mapping of complex traits in diverse samples.Bioinformatics,2007,23:2633-2635.
[21]陈泽辉.群体与数量遗传学.贵阳:贵州科技出版社,2009.pp28-53.Chen Z H.Population and Quantitative Genetics.Guiyang:Guizhou Science and Technology Publishing House,2009.pp 28-53(in Chinese).
[22]雍洪军,张芳军,张德贵,张晓聪,李明顺,潘光堂,张世煌,李新海,荣廷昭.10个玉米群体改良杂交种吉单261的育种利用分析.核农学报,2014,28:765-771.Yong H J,Zhang F J,Zhang D G,Zhang X C,Li M S,Pan G T,Zhang S H,Li X H,Rong Y Z.Analysis on breeding potential of ten populations to improve a Chinese maize hybrid‘Jidan 261’.JNucl Agric Sci,2014,28:765-771(in Chinese with English abstract).
[23]李芦江,陈文生,杨克诚,潘光堂,荣廷昭.控制双亲混合选择对2个玉米窄基群体主要性状的改良效果.中国农业科学,2010,43:4775-4786.Li L J,Chen W S,Yang K C,Pan G T,Rong T Z.Effects of biparental mass selection on two narrow-base maize populations.Sci Agric Sin,2010,43:4775-4786(in Chinese with English abstract).
[24]Lu M,Xie C X,Li X H,Hao Z F,Li M S,Weng J F,Zhang D G,Bai L,Zhang S H.Mapping of quantitative trait loci for kernel row number in maize across seven environments.Mol Breed,2011,28:143-152.
[25]Yan J B,Tang H,Huang Y Q,Zheng Y L,Li J S.Quantitative trait loci mapping and epistatic analysis for grain yield and yield components using molecular markers with an elite maize hybrid.Euphytica,2006,149:121-131.
[26]王辉,梁前进,胡小娇,李坤,黄长玲,王琪,何文昭,王红武,刘志芳.不同密度下玉米穗部性状的QTL分析.作物学报,2016,42:1592-1600.Wang H,Liang Q J,Hu X J,Li K,Huang C L,Wang Q,He W Z,Wang H W,Liu Z F.QTL mapping for ear architectural traits under three plant densities in maize.Acta Agron Sin,2016,42:1592-1600(in Chinese with English abstract).
[27]Zhou G,Zhu Q,Yang G,Huang J,Cheng S,Yue B,Zhang Z.qEL7.2 is a pleiotropic QTL for kernel number per row,ear length and ear weight in maize(Zea mays L.).Euphytica,2015,203:429-436.