Mapping QTLs Tolerant to Cold Stress in Rice Root by Chromosome Segment Substitution System

doi:10.7668/hbnxb.20191813

Abstract

Abstract: To analyze the genetic mechanism of rice root number under low temperature and detect the cold stress related QTL, a chromosome segment substitution line (CSSLs) population of japonica variety Nipponbare in the background of indica cultivar 9311 used as the materials. The CSSL lines were treated under 15℃ for 10 days and then restore 7 days at 25℃ temperature, the root number was measured and QTL for root number was detected. The result display Nipponbare average root number was 4.50;9311 average root number was 7.20.The two kind of rice variety had very difference obvious. CSSL lines average root number was 4.84 and exist transgressive segregation.A total of two major QTLs, qCSRN1.1 and qCSRN3, were detected for root number. The two QTLs were located 31.75-33.15 Mb on chromosome 1 and 32.2-32.7 Mb on chromsome 3, respectively.The LOD values of these QTLs were 4.91 and 2.86 respectively, and the phenotypic variation explained by these QTL were 16.27% and 9.06%, respectively. The positive allele of qCSRN1.1 was from Nipponbare while positive allele of qCSRN3 was from the 9311.Candidate gene analysis showed that there were 138 candidate genes in qCSRN1.1;68 genes were related to protein synthesis;42 genes were related to enzymatic synthesis;3 genes was transcription factor. qCSRN3 had 88 candidate genes;62 genes were related to protein synthesis;9 genes were related to enzymatic synthsis;3 genes was transcription factor.Furthermore, two QTLs epistatic QTLs were detected on chromosomes 1 and 9, their epistatic effected were-0.34 and-0.43;LOD values of these QTLs were 5.60 and 5.75.The results showed that in low temperature stress, the development of rice root number was quantitative trait and affected by QTL interaction. The localization of these root number QTLs laids a foundation for the cloning of root number genes and the analyzed of root number genetic mechanism under low temperature stress in future.

Key words: Rice, QTL, Root number, Cold stress, Chromosome

CLC Number:

S511.03
Q78

ZHANG Xiangyu, YU Meixia, TAN Jingai, WANG Peng, LI Caijing, WU Guangliang, CHENG Qin, WANG Yanning, JIANG Ningfei, HUANG Shiying, HE Haohua, BIAN Jianmin. Mapping QTLs Tolerant to Cold Stress in Rice Root by Chromosome Segment Substitution System[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2021, 36(3): 83-89. doi: 10.7668/hbnxb.20191813.

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References

[1] 杨川航,王开,杨航,周大宾,李建修.水稻耐寒育种研究进展[J].中国农学通报,2009,25(6):113-116.
Yang C H, Wang K, Yang H, Zhou D B, Li J X. Advances in breeding of cold-tolerance rice[J].Chinese Agricultural Science Bulletin,2009,25(6):113-116.
[2] 李香玲,冯跃华.水稻根系生长特性及其与地上部分关系的研究进展[J].中国农学通报,2015,31(6):1-6.
Li X L,Feng Y H.Research advance on relation of aerial part and root traits of rice[J]. Chinese Agricultural Science Bulletin,2015,31(6):1-6.
[3] 蔡志欢,张桂莲.水稻低温冷害研究进展[J].作物研究,2018,32(3):249-255.doi:10.16848/j.cnki.issn.1001-5280.2018.03.18.
Cai Z H,Zhang G L Research progress of low temperature and chilling injury of rice[J]. Crop Research,2018,32(3):249-255.
[4] 刘友发,常硕其,常天根,欧阳翔,邓启云,夏石头,朱新广.超级杂交稻Y两优2号耐冷性QTL定位与杂种优势分析[J].分子植物育种,2020,18(7):2233-2243.doi:10.13271/j.mpb.018.002233.
Liu Y F,Chang S Q,Chang T G,Ouyang X,Deng Q Y, Xia S T, Zhu X G. QTL mapping of cold tolerance and analysis of heterosis of super hybrid rice Y Liangyou 2[J]. Molecular Plant Breeding,2020,18(7):2233-2243.
[5] 王棋,范淑秀,郭江华,陈兆赫,梁银培,刘振宇,殷业超,王嘉宇.利用籼粳交RIL群体对水稻发芽期和苗期耐冷性的QTL分析[J].华北农学报,2019,34(1):83-88.doi:10.7668/hbnxb.201751291.
Wang Q, Fan S X, Guo J H, Chen Z H, Liang Y P, Liu Z Y, Yin Y C,Wang J Y. QTL analysis of cold tolerance at germination and seedling stages of rice[J]. Acta Agriculturae Boreali-Sinica,2019,34(1):83-88.
[6] 纪素兰,江玲,王益华,刘世家,刘喜,翟虎渠,吉村醇,万建民.水稻种子耐低温发芽力的QTL定位及上位性分析[J].作物学报,2008,34(4):551-556.doi:10.3321/j.issn:0496-3490.2008.04.003.
Ji S L,Jiang L, Wang Y H, Liu S J, Liu X, Zhai H Q,Yoshimura A, Wan J M.QTL and Epistasis for low temperature germinability in rice[J]. Acta Agronomica Sinica,2008,34(4):551-556.
[7] 林静,朱文银,张亚东,朱镇,赵凌,陈涛,赵庆勇,周丽慧,方先文,王艳平,王才林.利用染色体片段置换系定位水稻芽期耐冷性QTL[J].中国水稻科学,2010,24(3):233-236.doi:10.3969/j.issn.1001-7216.2010.03.004.
Lin J, Zhu W Y,,Zhang Y D,Zhu Z, Zhao L, Chen T, Zhao Q Y, Zhou L H, Fang X W,Wang Y P, Wang C L.Detection of quantitative trait loci for cold tolerance at the bud bursting stage by using chromosome segment substitution lines in rice (Oryza sativa)[J]. Chinese Journal of Rice Science 2010, 24(3):233-236.
[8] 严长杰,李欣,程祝宽,于恒秀,顾铭洪,朱立煌.利用分子标记定位水稻芽期耐冷性基因[J].中国水稻科学,1999,13(3):134-138.doi:10.16819/j.1001-7216.1999.03.002.
Yan C J,Li X,Cheng Z K,Yu H X,Gu M H,Zhu L H.Identifieation of QTL for cold tolerance at early seedling stage in rice[J]. Chinese Journal of Rice Science,1999,13(3):134-138.
[9] Liu W Q, Pan X W, Xiong H B,Huang F L,Duan Y H,Li Y C,Min J,Liu S X,Liu L C,Wei X C,Zhao W J,Li X X. QTL mapping and validation of a segment responsible for early-seedling cold tolerance in rice[J]. Euphytica,2019,216(1):7.doi:10.1007/s10681-019-2524-0.
[10] 陈亮,楼巧君,孙宗修,邢永忠,余新桥,罗利军.水稻低温发芽力的QTL定位[J].中国水稻科学,2006,20(2):159-164.doi:10.3321/j.issn:1001-7216.2006.02.008.
Chen L,Lou Q J,Sun Z X,Xing Y Z,Yu X Q,Luo L J.QTL Mapping of low temperature germinability in rice[J]. Chinese Journal of Rice Science,2006,20(2):159-164.
[11] 姜树坤,王立志,杨贤莉,李波,母伟杰,董世晨,车韦才,李忠杰,迟力勇,李明贤,张喜娟,姜辉,李锐,赵茜,李文华.基于高密度SNP遗传图谱的粳稻芽期耐低温QTL鉴定[J].作物学报,2020,46(8):1174-1184.doi:10.3724/SP.J.1006.2020.92066.
Jiang S K,Wang L Z, Yang X L, Li B,Mu W J, Dong S C, Che W C, Li Z J, Chi L Y, Li M X, Zhang X J, Jiang H, Li R, Zhao Q, Li W H.Detection of QTLs controlling cold tolerance at bud bursting stage by using a high-density SNP linkage map in japonica rice[J]. Acta Agronomica Sinica,2020,46(8):1174-1184.
[12] 韩龙植,张三元,乔永利,阮仁超,张俊国,曹桂兰,高熙宗.冷水胁迫下水稻幼苗期根系性状的QTL分析[J].作物学报,2005,31(11):1415-1421.doi:10.3321/j.issn:0496-3490.2005.11.005.
Han L Z,Zhang S Y, Qiao Y L, Ruan R C, Zhang J G, Cao G L,Gao X Z.QTL analysis of root traits at the seedling stage in rice under cold water irrigation[J]. Acta Agronomica Sinica,2005,31(11):1415-1421.
[13] 饶玉春,杨窑龙,黄李超,潘建伟,马伯军,钱前,曾大力.水稻耐冷胁迫的研究进展[J].分子植物育种,2013,11(3):443-450.doi:10.3969/mpb.011.000443.
Rao Y C,Yang Y L,Huang L C,Pan J W,Ma B J,Qian Q,Zeng D L.Research progress on cold stress in rice[J]. Molecular Plant Breeding,2013,11(3):443-450.
[14] 李太贵. 水稻开花期的低温对结实率的影响[J]. 作物学报, 1988, 14(1):66-70.
Li T G.Effect of low temperature on seed setting rate in flowering stage of rice[J]. Acta Agronomica Sinica,1988,14(1):66-70.
[15] McCouch S R. Gene nomenclature system for rice[J].Rice,2008, 1(1):72-84.doi:10.1007/s12284-008-9004-9.
[16] Chen X W,Chern M S, Canlas P E,Ruan D L,Jiang C Y, Ronald P C,David C B. An ATPase promotes autophosphorylation of the pattern recognition receptor XA21and inhibits XA21-mediated immunity[J]. Proceedings of the National Academy of Sciences of the United States of Armerica,2010,107(17):8029-8034.doi:10.1073/pnas.0912311107.
[17] Koide Y, Kawasaki A, Telebanco-Yanoria M J,Hairmansis A,Nguyet N T M,Bigirimana J,Fujita D,Kobayashi N,Fukuta Y.Development of pyramided lines with two resistance genes, Pish and Pib, for blast disease (Magnaporthe oryzae B. Couch) in rice (Oryza sativa L.)[J]. Plant Breeding, 2010, 129(6):670-675.doi:10.1111/j.1439-0523.2010.01781.x.
[18] Yuan Y X,Zhong S H, Li Q,Zhu Z R,Lou Y G,Wang L Y,Wang J J,Wang M Y,Li Q L,Yang D L,He Z H. Functional analysis of rice NPR1-like genes reveals that OsNPR1/NH1is the rice orthologue conferring disease resistance with enhanced herbivore susceptibility[J]. Plant Biotechnology Journal, 2007, 5(2):313-324.doi:10.1111/j.1467-7652.2007.00243.x.
[19] Todaka D, Nakashima K, Maruyama K,Kidokoro S,Osakabe Y,Ito Y,Matsukura S,Fujita Y,Yoshiwara K,Takagi M O,Kojima M,Sakakibara H,Yamaguchi-Shinozaki K,Shinozaki K Y. Rice phytochrome-interacting factor-like protein OsPIL1functions as a key regulator of internode elongation and induces a morphological response to drought stress[J]. Proceedings of the National Academy of Sciences of the United States of America, 2012, 109(39):15947-15952.doi:10.1073/pnas.1207324109.
[20] Wang S T,Sun X L, Hoshino Y, Yu Y,Jia B,Sun Z W,Sun M Z,Duan X B,Zhu Y M. MicroRNA319positively regulates cold tolerance by targeting OsPCF6and OsTCP21in rice (Oryza sativa L.)[J]. PLoS One, 2014, 9(3):e91357.doi:10.1371/journal.pone.0091357.
[21] Zhang Z S, Xu Y Y,Xie Z W,Li X Y,He Z H,Peng X X.Association-dissociation of glycolate oxidase with catalase in rice:a potential switch to modulate intracellular H₂O₂ levels[J]. Molecular Plant, 2016, 9(5):737-748.doi:10.1016/j.molp.2016.02.002.
[22] Guo T, Lu Z Q, Shan J X, Ye W W,Dong N Q,Lin H X. ERECTA1acts upstream of the OsMKKK10- OsMKK4- OsMPK6cascade to control spikelet number by regulating cytokinin metabolism in rice[J]. The Plant Cell, 2020,32(9):2763-2779.doi:10.1105/tpc.20.00351.
[23] 章怡兰,林雪,吴仪,李梦佳,张晟婕,路梅,饶玉春,王跃星.水稻根系遗传育种研究进展[J].植物学报,2020,55(3):382-393.doi:10.11983/CBB20021.
Zhang Y L, Lin X, Wu Y,Li M J, Zhang S J, Lu M,Rao Y C,Wang Y X.Research progress on genetics and breeding of rice roots[J]. Chinese Bulletin of Botany,2020,55(3):382-393.
[24] Andaya V, Mackill D. QTLs conferring cold tolerance at the booting stage of rice using recombinant inbred lines from a japonica×indica cross[J]. Theoretical and Applied Genetics, 2003, 106(6):1084-1090.doi:10.1007/s00122-002-1126-7.
[25] Ranawake A L, Nakamura C. Cold tolerance of an inbred line population of rice (Oryza sativa L.) at different growth stages[J]. Tropical Agricultural Research & Extension,2012,14(2):25-33.doi:10.4038/tare.V14i2.4838.

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