水稻品种魔王谷粒形、剑叶性状和株高QTL定位
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摘要
以粳稻魔王谷和籼稻CO39配组衍生的280个重组自交系为材料, 2015年和2016年对其粒形、剑叶形态、株高性状进行了相关性分析和QTL检测。剑叶长分别与粒厚和株高存在极显著负相关和正相关,剑叶宽与粒宽存在极显著正相关。检测到17个粒形QTL,分布于第1、第2、第3、第4、第5、第6、第7、第9和第10染色体上,贡献率为3.51%～48.65%;其中,第3染色体RM6080-RM6283区间对粒长和千粒重兼具显著作用,第5染色体RM8211-RM3381区间同时影响粒宽和粒厚。检测到12个控制剑叶形态性状的QTL,分布于第1、第3、第4、第6、第7和第9染色体上,贡献率为4.26%～38.40%;有5个多效QTL区间,其中,第4染色体RM252-SFP4_6区间同时控制剑叶长、剑叶宽、剑叶面积和粒长,第9染色体RM257-RM3909区间同时影响剑叶面积和粒长。只检测到一个控制株高的QTL,位于第1染色体的RM6333-RM5536区间,是一个主效QTL,贡献率为28.76%。这些结果为进一步开展粒形、剑叶形态、株高基因的精细定位、克隆和分子辅助育种奠定了基础。
In this study, 280 recombinant inbred lines(RIL) derived from a cross between japonica rice Mowanggu and indica CO39 were used to analyse correlations and detect QTLs for grain shape, flag leaf morphology and plant height in 2015 and 2016. The flag leaf length was significantly negatively and positively correlated with grain thickness and plant height, respectively. And there was a significant positive correlation between flag leaf width and grain width. Here, we identified 17 QTLs for grain shape traits distributed on chromosomes 1, 2, 3, 4, 5, 6, 7, 9, and 10 respectively, which could explain 3.51%-48.65% of total phenotypic variance. Among of them, the region between markers RM6080 and RM6283 on chromosome 3 significantly influenced both grain length and thousand-grain weight, while RM8211-RM3381 interval on chromosome 5 influenced both grain width and grain thickness. On the other hand, 12 QTLs controlling the flag leaf traits were identified on chromosomes 1, 3, 4, 6, 7, and 9, respectively, which explained 4.26%-38.40% of the phenotypic variance. In addition, five QTL regions showing pleiotropic effects were identified. For example, the marker RM252-SFP4_6 interval on chromosome 4 could control flag leaf length, flag leaf width, flag leaf area and grain length; and the RM257-RM3909 interval on chromosome 9 was responsible for flag leaf area and grain length. Furthermore, there was a major QTL controlling plant height was identified in the interval of RM6333-RM5536 on chromosome 1, which explained 28.76% of the phenotypic variance. All these results provide a foundation for fine mapping, cloning and marker assisted selection of favorable genes related to grain shape, flag leaf traits and plant height.
In this study, 280 recombinant inbred lines(RIL) derived from a cross between japonica rice Mowanggu and indica CO39 were used to analyse correlations and detect QTLs for grain shape, flag leaf morphology and plant height in 2015 and 2016. The flag leaf length was significantly negatively and positively correlated with grain thickness and plant height, respectively. And there was a significant positive correlation between flag leaf width and grain width. Here, we identified 17 QTLs for grain shape traits distributed on chromosomes 1, 2, 3, 4, 5, 6, 7, 9, and 10 respectively, which could explain 3.51%-48.65% of total phenotypic variance. Among of them, the region between markers RM6080 and RM6283 on chromosome 3 significantly influenced both grain length and thousand-grain weight, while RM8211-RM3381 interval on chromosome 5 influenced both grain width and grain thickness. On the other hand, 12 QTLs controlling the flag leaf traits were identified on chromosomes 1, 3, 4, 6, 7, and 9, respectively, which explained 4.26%-38.40% of the phenotypic variance. In addition, five QTL regions showing pleiotropic effects were identified. For example, the marker RM252-SFP4_6 interval on chromosome 4 could control flag leaf length, flag leaf width, flag leaf area and grain length; and the RM257-RM3909 interval on chromosome 9 was responsible for flag leaf area and grain length. Furthermore, there was a major QTL controlling plant height was identified in the interval of RM6333-RM5536 on chromosome 1, which explained 28.76% of the phenotypic variance. All these results provide a foundation for fine mapping, cloning and marker assisted selection of favorable genes related to grain shape, flag leaf traits and plant height.
引文
[1]杨联松,白一松,张培江,许传万,胡兴明,王伍梅,佘德红,陈桂芝.谷粒形状与稻米品质相关性研究.杂交水稻,2001,16(4):48-50Yang L S,Bai Y S,Zhang P J,Xu C W,Hu X M,Wang W M,She D H,Chen G Z.Studies on the correlation between grain shape and grain quality in rice.Hybrid Rice,2001,16(4):48-50(in Chinese with English abstract)
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[8]Wang S K,Wu K,Yuan Q B,Liu X Y,Liu Z B,Lin X Y,Zeng R Z,Zhu H T,Dong G J,Qian Q,Zhang G Q,Fu X D.Control of grain size,shape and quality by OsSPL16 in rice.Nat Genet,2012,44:950
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[12]Sasaki A,Ashikari M,Ueguchi-Tanaka M,Itoh H,Nishimura A,Swapan D,Ishiyama K,Saito T,Kobayashi M,Khush G S,Kitano H,Matsuoka M.A mutant gibberellin-synthesis gene in rice.Nature,2002,416:701-702
[13]Spielmeyer W,Ellis M H,Chandler P M.Semidwarf(sd-1),“green revolution”rice,contains a defective gibberellin20-oxidase gene.Proc Natl Acad Sci USA,2002,99:9043-9048
[14]Monna L,Kitazawa N,Yoshino R,Suzuki J,Masuda H,Maehara Y,Tanji M,Sato M,Nasu S,Minobe Y.Positional cloning of rice semidwarfing gene,sd-1:rice“Green Revolution Gene”encodes a mutant enzyme involved in gibberellin synthesis.DNA Res,2002,9:11
[15]Sun P Y,Liu J L,Wang Y,Jiang N,Wang S H,Dai Y S,Gao J,Li Z Q,Pan S J,Wang D,Li W,Liu X L,Xiao Y H,Liu E M,Wang G L,Dai L Y.Molecular mapping of the blast resistance gene Pi49 in the durably resistant rice cultivar Mowanggu.Euphytica,2013,192:45-54
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[17]姚国新,李金杰,张强,胡广隆,陈超,汤波,张洪亮,李自超.利用4个姊妹近等基因系群体定位水稻粒重和粒形QTL.作物学报,2010,36:1310-1317Yao G X,Li J J,Zhang Q,Hu G L,Chen C,Tang B,Zhang H L,Li Z C.Mapping QTLs for grain weight and shape using four sister near isogenic lines of rice.Acta Agron Sin,2010,36:1310-1317(in Chinese with English abstract)
[18]黎毛毛,徐磊,任军芳,曹桂兰,余丽琴,贺浩华,韩龙植,高熙宗.粳稻粒形性状的数量性状基因座检测.中国农业科学,2009,42:2255-2261Li M M,Xu L,Ren J F,Cao G L,Xu L Q,He H H,Han L Z,Gao X Z.Identification of quantitative trait loci for grain traits in japonica rice.J Integr Agric,2009,42:2255-2261(in Chinese with English abstract)
[19]Redona E D,MacKill D J.Quantitative trait locus analysis for rice panicle and grain characteristics.Theor Appl Genet,1998,96:957-963
[20]邢永忠,谈移芳,徐才国,华金平,孙新立.利用水稻重组自交系群体定位谷粒外观性状的数量性状基因.植物学报,2001,43:840-845Xing Y Z,Tan Y F,Xu C G,Hua J P,Sun X L.Mapping quantitative trait loci for grain appearance traits of rice using a recombinant inbred line population.Acta Bot Sin,2001,43:840-845(in Chinese with English abstract)
[21]Wang E T,Wang J J,Zhu X D,Hao W,Wang L Y,Li Q,Zhang L X,He W,Lu B R,Lin H,Ma H,Zhang G Q,He Z H.Control of rice grain-filling and yield by a gene with a potential signature of domestication.Nat Genet,2008,40:1370-1374
[22]周立军,江玲,刘喜,陈红,陈亮明,刘世家,万建民.水稻千粒重和垩白粒率的QTL及其互作分析.作物学报,2009,35:255-261Zhou L J,Jiang L,Liu X,Chen H,Chen L M,Liu S J,Wan J M.QTL mapping and interaction analysis for 1000-grain weight and percentage of grains with chalkiness in rice.Acta Agron Sin,2009,35:255-261(in Chinese with English abstract)
[23]张亚东,张颖慧,董少玲,陈涛,赵庆勇,朱镇,周丽慧,姚姝,赵凌,于新,王才林.特大粒水稻材料粒型性状的QTL检测.中国水稻科学,2013,27:122-128Zhang Y D,Zhang Y H,Dong S L,Chen T,Zhao Q Y,Zhu Z,Zhou L H,Yao S,Zhao L,Yu X,Wang C L.Identification of QTL for rice grain traits based on an extra-large grain material.Chin J Rice Sci,2013,27:122-128(in Chinese with English abstract)
[24]董华林,张晨昕,曾波,孙文强,余四斌.利用野生稻高代回交群体分析水稻农艺性状QTL.华中农业大学学报,2009,28:645-650Dong H L,Zhang C X,Zeng B,Sun W Q,Yu S B.Identification of agronomic traits QTL in common wild rice advanced backcross population.J Huazhong Agric Univ,2009,28:645-650(in Chinese with English abstract)
[25]罗伟,胡江,孙川,陈刚,姜华,曾大力,高振宇,张光恒,郭龙彪,李仕贵,钱前.水稻抽穗期功能叶叶型相关性状遗传分析.分子植物育种,2008,6:853-860Luo W,Hu J,Sun C,Chen G,Jiang H,Zeng D L,Gao Z Y,Zhang G H,Guo L B,Li S G,Qian Q.Genetic analysis of related phenotypes of functional leaf in rice heading stage.Mol Plant Breed,2008,6:853-860(in Chinese with English abstract)
[26]姜树坤,张喜娟,黄成,邢亚南,郑旭,徐正进,陈温福.基于粳稻F2和F2:6群体的连锁图谱及剑叶性状QTL比较分析.中国水稻科学,2010,24:372-378Jiang S K,Zhang X J,Huang C,Xing Y N,Zheng X,Xu Z J,Chen W F.Comparison of genetic linkage map and QTLs controlling flag leaf traits based on F2 and F2:6 populations derived from japonica rice.Chin J Rice Sci,2010,24:372-378(in Chinese with English abstract)
[27]童汉华,梅捍卫,邢永忠,曹一平,余新桥,章善庆,罗利军.水稻生育后期剑叶形态和生理特性的QTL定位.中国水稻科学,2007,21:493-499Tong H H,Mei H W,Xing Y Z,Cao Y P,Yu X Q,Zhang S Q.Luo L J.QTL analysis for morphological and physiological characteristics of flag leaf at the late developmental stage in rice.Chin J Rice Sci,2007,21:493-499(in Chinese with English abstract)
[28]彭茂民,杨国华,张菁晶,安保光,李阳生.不同遗传背景下水稻剑叶形态性状的QTL分析.中国水稻科学,2007,21:247-252Peng M M,Yang G H,Zhang J J,An B G,Li Y S.QTL analysis for flag leaf morphological traits in rice Oryza sativa L.under different genetic backgrounds.Chin J Rice Sci,2007,21:247-252(in Chinese with English abstract)
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[30]欧阳杰,王楚桃,何光华,钟世良,李顺武,李贤勇.水稻灌浆中后期功能叶中叶绿素含量及其变化趋势与谷物产量关系研究.西南农业学报,2012,25:1201-1204Ou-Yang J,Wang C T,He G H,Zhong S L,Li S W,Li X Y.Study on relationship between different functional leaf chlorophyll content and its trends in mid and late period of rice filling and grain yield.Southwest China J Agric Sci,2012,25:1201-1204(in Chinese with English abstract)
[2]Fan C C,Xing Y Z,Mao H L,Lu T T,Han B,Xu C G,Li X H,Zhang Q F.GS3 major QTL for grain length and weight and minor QTL for grain width and thickness in rice,encode a putative transmembrane protein.Theor Appl Genet,2006,112:1164-1171
[3]Song X J,Huang W,Shi M,Zhu M Z,Lin H X.A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase.Nat Genet,2007,39:623-630
[4]Weng J F,Gu S H,Wan X Y,Gao H,Guo T,Su N,Lei C L,Zhang X,Cheng Z J,Guo X P,Wang J L,Jiang L,Zhai H Q,Wan J M.Isolation and initial characterization of GW5,a major QTL associated with rice grain width and weight.Cell Res,2008,18:1199
[5]Ayahiko S,Takeshi I,Kaworu E,Takeshi E,Hiromi K,Saeko K,Masahiro Y.Deletion in a gene associated with grain size increased yields during rice domestication.Nat Genet,2008,40:1023-1028
[6]Li Y B,Fan C C,Xing Y Z,Jiang Y H,Luo L J,Sun L,Shao D,Xu C J,Li X H,Xiao J H,He Y Q,Zhang Q F.Natural variation in GS5 plays an important role in regulating grain size and yield in rice.Nat Genet,2011,43:1266-1269
[7]Qi P,Lin Y S,Song X J,Shen J B,Huang W,Shan J X,Zhu M Z,Jiang L W,Gao J P,Lin H X.The novel quantitative trait locus GL3.1 controls rice grain size and yield by regulating CyclinT1;3.Cell Res,2012,22:1666-1680
[8]Wang S K,Wu K,Yuan Q B,Liu X Y,Liu Z B,Lin X Y,Zeng R Z,Zhu H T,Dong G J,Qian Q,Zhang G Q,Fu X D.Control of grain size,shape and quality by OsSPL16 in rice.Nat Genet,2012,44:950
[9]Ishimaru K,Hirotsu N,Madoka Y,Murakami N,Hara N,Onodera H,Kashiwagi T,Ujiie K,Shimizu B,Onishi A,Miyagawa H,Katoh E.Loss of function of the IAA-glucose hydrolase gene TGW6 enhances rice grain weight and increases yield.Nat Genet,2013,45:707
[10]Qi J,Qian Q,Bu Q Y,Li S Y,Chen Q,Sun J Q,Liang W X,Zhou Y H,Chu C C,Li X G,Ren F G,Klaus P,Zhao B R,Chen J F,Chen M S,Li C Y.Mutation of the rice narrow leaf1 gene,which encodes a novel protein,affects vein patterning and polar auxin transport.Plant Physiol,2008,147:1947-1959
[11]Cho S H,Yoo S C,Zhang H T,Devendra P,Koh H J,Hwang J Y,Kim G T,Paek N C.The rice narrow leaf2,and narrow leaf3,loci encode WUSCHEL-related homeobox 3A(OsWOX3A)and function in leaf,spikelet,tiller and lateral root development.New Phytol,2013,198:1071-1084
[12]Sasaki A,Ashikari M,Ueguchi-Tanaka M,Itoh H,Nishimura A,Swapan D,Ishiyama K,Saito T,Kobayashi M,Khush G S,Kitano H,Matsuoka M.A mutant gibberellin-synthesis gene in rice.Nature,2002,416:701-702
[13]Spielmeyer W,Ellis M H,Chandler P M.Semidwarf(sd-1),“green revolution”rice,contains a defective gibberellin20-oxidase gene.Proc Natl Acad Sci USA,2002,99:9043-9048
[14]Monna L,Kitazawa N,Yoshino R,Suzuki J,Masuda H,Maehara Y,Tanji M,Sato M,Nasu S,Minobe Y.Positional cloning of rice semidwarfing gene,sd-1:rice“Green Revolution Gene”encodes a mutant enzyme involved in gibberellin synthesis.DNA Res,2002,9:11
[15]Sun P Y,Liu J L,Wang Y,Jiang N,Wang S H,Dai Y S,Gao J,Li Z Q,Pan S J,Wang D,Li W,Liu X L,Xiao Y H,Liu E M,Wang G L,Dai L Y.Molecular mapping of the blast resistance gene Pi49 in the durably resistant rice cultivar Mowanggu.Euphytica,2013,192:45-54
[16]Mccouch S R,Cho Y G,Yano M,Paul E,Blinstrub M,Morishima H.Report on QTL nomenclature.Rice Genet Newsl,1997,14:11-13
[17]姚国新,李金杰,张强,胡广隆,陈超,汤波,张洪亮,李自超.利用4个姊妹近等基因系群体定位水稻粒重和粒形QTL.作物学报,2010,36:1310-1317Yao G X,Li J J,Zhang Q,Hu G L,Chen C,Tang B,Zhang H L,Li Z C.Mapping QTLs for grain weight and shape using four sister near isogenic lines of rice.Acta Agron Sin,2010,36:1310-1317(in Chinese with English abstract)
[18]黎毛毛,徐磊,任军芳,曹桂兰,余丽琴,贺浩华,韩龙植,高熙宗.粳稻粒形性状的数量性状基因座检测.中国农业科学,2009,42:2255-2261Li M M,Xu L,Ren J F,Cao G L,Xu L Q,He H H,Han L Z,Gao X Z.Identification of quantitative trait loci for grain traits in japonica rice.J Integr Agric,2009,42:2255-2261(in Chinese with English abstract)
[19]Redona E D,MacKill D J.Quantitative trait locus analysis for rice panicle and grain characteristics.Theor Appl Genet,1998,96:957-963
[20]邢永忠,谈移芳,徐才国,华金平,孙新立.利用水稻重组自交系群体定位谷粒外观性状的数量性状基因.植物学报,2001,43:840-845Xing Y Z,Tan Y F,Xu C G,Hua J P,Sun X L.Mapping quantitative trait loci for grain appearance traits of rice using a recombinant inbred line population.Acta Bot Sin,2001,43:840-845(in Chinese with English abstract)
[21]Wang E T,Wang J J,Zhu X D,Hao W,Wang L Y,Li Q,Zhang L X,He W,Lu B R,Lin H,Ma H,Zhang G Q,He Z H.Control of rice grain-filling and yield by a gene with a potential signature of domestication.Nat Genet,2008,40:1370-1374
[22]周立军,江玲,刘喜,陈红,陈亮明,刘世家,万建民.水稻千粒重和垩白粒率的QTL及其互作分析.作物学报,2009,35:255-261Zhou L J,Jiang L,Liu X,Chen H,Chen L M,Liu S J,Wan J M.QTL mapping and interaction analysis for 1000-grain weight and percentage of grains with chalkiness in rice.Acta Agron Sin,2009,35:255-261(in Chinese with English abstract)
[23]张亚东,张颖慧,董少玲,陈涛,赵庆勇,朱镇,周丽慧,姚姝,赵凌,于新,王才林.特大粒水稻材料粒型性状的QTL检测.中国水稻科学,2013,27:122-128Zhang Y D,Zhang Y H,Dong S L,Chen T,Zhao Q Y,Zhu Z,Zhou L H,Yao S,Zhao L,Yu X,Wang C L.Identification of QTL for rice grain traits based on an extra-large grain material.Chin J Rice Sci,2013,27:122-128(in Chinese with English abstract)
[24]董华林,张晨昕,曾波,孙文强,余四斌.利用野生稻高代回交群体分析水稻农艺性状QTL.华中农业大学学报,2009,28:645-650Dong H L,Zhang C X,Zeng B,Sun W Q,Yu S B.Identification of agronomic traits QTL in common wild rice advanced backcross population.J Huazhong Agric Univ,2009,28:645-650(in Chinese with English abstract)
[25]罗伟,胡江,孙川,陈刚,姜华,曾大力,高振宇,张光恒,郭龙彪,李仕贵,钱前.水稻抽穗期功能叶叶型相关性状遗传分析.分子植物育种,2008,6:853-860Luo W,Hu J,Sun C,Chen G,Jiang H,Zeng D L,Gao Z Y,Zhang G H,Guo L B,Li S G,Qian Q.Genetic analysis of related phenotypes of functional leaf in rice heading stage.Mol Plant Breed,2008,6:853-860(in Chinese with English abstract)
[26]姜树坤,张喜娟,黄成,邢亚南,郑旭,徐正进,陈温福.基于粳稻F2和F2:6群体的连锁图谱及剑叶性状QTL比较分析.中国水稻科学,2010,24:372-378Jiang S K,Zhang X J,Huang C,Xing Y N,Zheng X,Xu Z J,Chen W F.Comparison of genetic linkage map and QTLs controlling flag leaf traits based on F2 and F2:6 populations derived from japonica rice.Chin J Rice Sci,2010,24:372-378(in Chinese with English abstract)
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