甘蓝型油菜角果数突变体基因的定位及候选基因分析

doi:10.3724/SP.J.1006.2022.04281

Abstract

Abstract:

The silique number is one of the important components of yield per plant in oilseed rape (Brassica napus L.) and the exploitation and utilization of its excellent alleles are essential to increase yield. More than hundreds of silique number QTLs have been mapped in oilseed rape, but they are difficult to be fine-mapped or cloned because of their moderate and unstable effects. A oilseed rape mutant (No.7931) was detected in previous study and it had few siliques at mature stage due to the stop growth after differentiation about 10 flowers on the top of inflorescence. A F₂ segregating population consisting of 3400 individuals was constructed using this mutant and another more-silique lines No.73290. Among them, we performed BSA-seq on 30 individuals with extreme more- or less-siliques and detected three associated intervals of 0-1.1 Mb, 4.7-6.2 Mb, and 11.5-12.4 Mb on the C02 chromosome. These genomic intervals contained a total of 522 annotated genes in the reference genome DarmorV8.1, among which 235 genes had functional annotation and SNP/InDel variation. At the early stage of flower bud differentiation, the shoot apical meristems of two parents were subjected to RNA-seq, and a total of 8958 differentially expressed genes (DEGs) were detected. These DEGs were significantly enriched into 20 pathways, including carbohydrate metabolism, translation, and amino acid metabolism (highly associated with flower bud differentiation) and so on, among which 99 were located in the associated intervals. By the integration of gene functional annotation as well as sequence and expression variation analysis, a total of nine candidate genes (BnaC02g00490.1D2, BnaC02g01030.1D2, BnaC02g01120.1D2, BnaC02g00270.1D2, BnaC02g02670.1D2, BnaC02g08680.1D2, BnaC02g08890.1D2, BnaC02g09480.1D2, and BnaC02g10490.1D2) were identified, which were mainly involved in the maintenance of inflorescence meristems and the regulation of flower development. The above results lay the foundation for the following fine-mapping and cloning of the silique number mutant gene in oilseed rape.

Key words: Brassica napus L., Brassica napus L., silique number mutant, silique number mutant, flower bud differentiation, flower bud differentiation, BSA-seq, BSA-seq, RNA-seq, RNA-seq

ZHAO Gai-Hui, LI Shu-Yu, ZHAN Jie-Peng, LI Yan-Bin, SHI Jia-Qin, WANG Xin-Fa, WANG Han-Zhong. Mapping and candidate gene analysis of silique number mutant in Brassica napus L.[J].Acta Agronomica Sinica, 2022, 48(1): 27-39.

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References 48

[1]	刘成, 冯中朝, 肖唐华, 马晓敏, 周广生, 黄凤洪, 李加纳, 王汉中. 我国油菜产业发展现状、潜力及对策. 中国油料作物学报, 2019, 41:485-489.
	刘成, 冯中朝, 肖唐华, 马晓敏, 周广生, 黄凤洪, 李加纳, 王汉中. 我国油菜产业发展现状、潜力及对策. 中国油料作物学报, 2019, 41:485-489.
	Liu C, Feng Z C, Xiao T H, Ma X M, Zhou G S, Huang F H, Li J N, Wang H Z. Development, potential and adaptation of Chinese rapeseed industry. Chin J Oil Crop Sci, 2019, 41:485-489 (in Chinese with English abstract).
	Liu C, Feng Z C, Xiao T H, Ma X M, Zhou G S, Huang F H, Li J N, Wang H Z. Development, potential and adaptation of Chinese rapeseed industry. Chin J Oil Crop Sci, 2019, 41:485-489 (in Chinese with English abstract).
[2]	王汉中. 以新需求为导向的油菜产业发展战略. 中国油料作物学报, 2018, 40:613-617.
	王汉中. 以新需求为导向的油菜产业发展战略. 中国油料作物学报, 2018, 40:613-617.
	Wang H Z. New-demand oriented oilseed rape industry developing strategy. Chin J Oil Crop Sci, 2018, 40:613-617 (in Chinese with English abstract).
	Wang H Z. New-demand oriented oilseed rape industry developing strategy. Chin J Oil Crop Sci, 2018, 40:613-617 (in Chinese with English abstract).
[3]	范成明, 田建华, 胡赞民, 王珏, 吕慧颖, 葛毅强, 魏珣, 邓向东, 张蕾颖, 杨维才. 油菜育种行业创新动态与发展趋势. 植物遗传资源学报, 2018, 19:447-454.
	范成明, 田建华, 胡赞民, 王珏, 吕慧颖, 葛毅强, 魏珣, 邓向东, 张蕾颖, 杨维才. 油菜育种行业创新动态与发展趋势. 植物遗传资源学报, 2018, 19:447-454.
	Fan C M, Tian J H, Hu Z M, Wang J, Lyu H Y, Ge Y Q, Wei X, Deng X D, Zhang L Y, Yang W C. Advances of oilseed rape breeding. J Plant Genet Resour, 2018, 19:447-454 (in Chinese with English abstract).
	Fan C M, Tian J H, Hu Z M, Wang J, Lyu H Y, Ge Y Q, Wei X, Deng X D, Zhang L Y, Yang W C. Advances of oilseed rape breeding. J Plant Genet Resour, 2018, 19:447-454 (in Chinese with English abstract).
[4]	宋稀, 刘凤兰, 郑普英, 张学昆, 陆光远, 付桂萍, 程勇. 高密度种植专用油菜重要农艺性状与产量的关系分析. 中国农业科学, 2010, 43:1800-1806.
	宋稀, 刘凤兰, 郑普英, 张学昆, 陆光远, 付桂萍, 程勇. 高密度种植专用油菜重要农艺性状与产量的关系分析. 中国农业科学, 2010, 43:1800-1806.
	Song X, Liu F L, Zheng P Y, Zhang X K, Lu G Y, Fu G P, Cheng Y. Correlation analysis between agronomic traits and yield of rapeseed (Brassica napus L.) for high-density. Sci Agric Sin, 2010, 43:1800-1806 (in Chinese with English abstract).
	Song X, Liu F L, Zheng P Y, Zhang X K, Lu G Y, Fu G P, Cheng Y. Correlation analysis between agronomic traits and yield of rapeseed (Brassica napus L.) for high-density. Sci Agric Sin, 2010, 43:1800-1806 (in Chinese with English abstract).
[5]	俞琦英, 赵伟明. 油菜区域试验产量性状及其稳定性分析. 浙江农业学报, 2010, 22:337-340.
	俞琦英, 赵伟明. 油菜区域试验产量性状及其稳定性分析. 浙江农业学报, 2010, 22:337-340.
	Yu Q Y, Zhao W M. Analysis of yield characters and its stability in rape regional trial of Zhejiang province. Acta Agric Zhejiangensis, 2010, 22:337-340 (in Chinese with English abstract).
	Yu Q Y, Zhao W M. Analysis of yield characters and its stability in rape regional trial of Zhejiang province. Acta Agric Zhejiangensis, 2010, 22:337-340 (in Chinese with English abstract).
[6]	张芳. 我国油菜品种审定管理与育种趋势研究. 中国农业科学院硕士学位论文,北京, 2012.
	张芳. 我国油菜品种审定管理与育种趋势研究. 中国农业科学院硕士学位论文,北京, 2012.
	Zhang F. Management of Rapeseed and Breeding Trend in China. MS Thesis of Chinese Academy of Agricultural Sciences, Beijing,China, 2012 (in Chinese with English abstract).
	Zhang F. Management of Rapeseed and Breeding Trend in China. MS Thesis of Chinese Academy of Agricultural Sciences, Beijing,China, 2012 (in Chinese with English abstract).
[7]	张锦芳, 周贤琼, 蒲晓斌, 李浩杰, 蒋梁材. 高产、双低杂交油菜产量构成因素与产量的相关分析. 西南农业学报, 2008, 27:939-941.
	张锦芳, 周贤琼, 蒲晓斌, 李浩杰, 蒋梁材. 高产、双低杂交油菜产量构成因素与产量的相关分析. 西南农业学报, 2008, 27:939-941.
	Zhang J F, Zhou X Q, Pu X B, Li H J, Jiang L C. Correlation analysis between yield components and yield per plant of high yield rapeseed hybrid. Southwest China J Agric Sci, 2008, 27:939-941 (in Chinese with English abstract).
	Zhang J F, Zhou X Q, Pu X B, Li H J, Jiang L C. Correlation analysis between yield components and yield per plant of high yield rapeseed hybrid. Southwest China J Agric Sci, 2008, 27:939-941 (in Chinese with English abstract).
[8]	Li S Y, Zhu Y Y, Rajeev K V, Zhan J P, Zheng X X, Shi J Q, Wang X F, Wang H Z. A systematic dissection of the mechanisms underlying the natural variation of silique number in rapeseed (Brassica napus L.) germplasm. Plant Biotechnol J, 2020, 18:568-580.
	Li S Y, Zhu Y Y, Rajeev K V, Zhan J P, Zheng X X, Shi J Q, Wang X F, Wang H Z. A systematic dissection of the mechanisms underlying the natural variation of silique number in rapeseed (Brassica napus L.) germplasm. Plant Biotechnol J, 2020, 18:568-580.
[9]	李少钦, 王健胜, 张文学, 李殿荣, 郑磊, 田建华. 甘蓝型油菜优良亲本对杂种后代产量性状的遗传效应分析. 中国油料作物学报, 2011, 33:545-549.
	李少钦, 王健胜, 张文学, 李殿荣, 郑磊, 田建华. 甘蓝型油菜优良亲本对杂种后代产量性状的遗传效应分析. 中国油料作物学报, 2011, 33:545-549.
	Li S Q, Wang J S, Zhang W X, Li D R, Zheng L, Tian J H. Genetic analysis for hybrid yield traits using elite parents of Brassica napus L. Chin J Oil Crop Sci, 2011, 33:545-549 (in Chinese with English abstract).
	Li S Q, Wang J S, Zhang W X, Li D R, Zheng L, Tian J H. Genetic analysis for hybrid yield traits using elite parents of Brassica napus L. Chin J Oil Crop Sci, 2011, 33:545-549 (in Chinese with English abstract).
[10]	郦美娟, 顾菊生. 油菜品种的产量和品质性状的稳定性分析. 浙江农业学报, 1989, 1(1):1-7.
	郦美娟, 顾菊生. 油菜品种的产量和品质性状的稳定性分析. 浙江农业学报, 1989, 1(1):1-7.
	Li M J, Gu J S. Stability analysis on the yield and quality of the rape varieties. Acta Agric Zhejiangensis, 1989, 1(1):1-7 (in Chinese with English abstract).
	Li M J, Gu J S. Stability analysis on the yield and quality of the rape varieties. Acta Agric Zhejiangensis, 1989, 1(1):1-7 (in Chinese with English abstract).
[11]	王俊生, 张文学, 田建华, 李殿荣. 紧凑型油菜数量性状的遗传与杂种优势研究. 西北农业学报, 2006, 15(3):31-36.
	王俊生, 张文学, 田建华, 李殿荣. 紧凑型油菜数量性状的遗传与杂种优势研究. 西北农业学报, 2006, 15(3):31-36.
	Wang J S, Zhang W X, Tian J H, Li D R. Study on inheritance and heterosis of plant-type traits in compact rapeseed lines. Acta Agric Boreali-Occident Sin, 2006, 15(3):31-36 (in Chinese with English abstract).
	Wang J S, Zhang W X, Tian J H, Li D R. Study on inheritance and heterosis of plant-type traits in compact rapeseed lines. Acta Agric Boreali-Occident Sin, 2006, 15(3):31-36 (in Chinese with English abstract).
[12]	张书芬. 甘蓝型油菜重要农艺和品质性状的杂种优势及遗传分析. 华中农业大学博士学位论文,湖北武汉, 2005.
	张书芬. 甘蓝型油菜重要农艺和品质性状的杂种优势及遗传分析. 华中农业大学博士学位论文,湖北武汉, 2005.
	Zhang S F. Heterosis and Genetic Analysis of Important Agronomic and Quality Characters in Brassica napus L. PhD Dissertation of Huazhong Agricultural University, Wuhan, Hubei, Chin, 2005 (in Chinese with English abstract).
	Zhang S F. Heterosis and Genetic Analysis of Important Agronomic and Quality Characters in Brassica napus L. PhD Dissertation of Huazhong Agricultural University, Wuhan, Hubei, Chin, 2005 (in Chinese with English abstract).
[13]	高必军. 甘蓝型油菜napin基因启动子的克隆与几个重要农艺性状的初步QTL定位. 四川农业大学博士学位论文,四川成都, 2007.
	高必军. 甘蓝型油菜napin基因启动子的克隆与几个重要农艺性状的初步QTL定位. 四川农业大学博士学位论文,四川成都, 2007.
	Gao B J. Cloning of the napin Gene Promoter and Preliminary QTL of some Agronomical Import Traits in Brassica napus. PhD Dissertation of Sichuan Agricultural University, Chengdu, Sichuan,China, 2007 (in Chinese with English abstract).
	Gao B J. Cloning of the napin Gene Promoter and Preliminary QTL of some Agronomical Import Traits in Brassica napus. PhD Dissertation of Sichuan Agricultural University, Chengdu, Sichuan,China, 2007 (in Chinese with English abstract).
[14]	Radoev M, Becker H C, Ecke W. Genetic analysis of heterosis for yield and yield components in rapeseed (Brassica napus L.) by quantitative trait locus mapping. Genetics, 2008, 179:1547-1558.
	Radoev M, Becker H C, Ecke W. Genetic analysis of heterosis for yield and yield components in rapeseed (Brassica napus L.) by quantitative trait locus mapping. Genetics, 2008, 179:1547-1558.
[15]	Ding G D, Zhao Z K, Liao Y, Hu Y F, Shi L, Xu F S. Quantitative trait loci for seed yield and yield-related traits, and their responses to reduced phosphorus supply in Brassica napus. Ann Bot, 2012, 109:747-759.
	Ding G D, Zhao Z K, Liao Y, Hu Y F, Shi L, Xu F S. Quantitative trait loci for seed yield and yield-related traits, and their responses to reduced phosphorus supply in Brassica napus. Ann Bot, 2012, 109:747-759.
[16]	孙美玉, 华玮, 刘静, 王新发, 刘贵华, 王汉中. 甘蓝型油菜主花序有效角果数QTL定位. 中国油料作物学报, 2013, 35:1-7.
	孙美玉, 华玮, 刘静, 王新发, 刘贵华, 王汉中. 甘蓝型油菜主花序有效角果数QTL定位. 中国油料作物学报, 2013, 35:1-7.
	Sun M Y, Hua W, Liu J, Wang X F, Liu G H, Wang H Z. QTLs for effective silique number of main inflorescence on rapeseed (Brassica napus L.). Chin J Oil Crop Sci, 2013, 35:1-7 (in Chinese with English abstract).
	Sun M Y, Hua W, Liu J, Wang X F, Liu G H, Wang H Z. QTLs for effective silique number of main inflorescence on rapeseed (Brassica napus L.). Chin J Oil Crop Sci, 2013, 35:1-7 (in Chinese with English abstract).
[17]	Shi J Q, Zhan J P, Yang Y H, Ye J, Huang S M, Li R Y, Wang X F, Wang H Z. Linkage and regional association analysis reveal two new tightly-linked major-QTLs for pod number and seed number per pod in rapeseed (Brassica napus L.). Sci Rep, 2015, 5:389-452.
	Shi J Q, Zhan J P, Yang Y H, Ye J, Huang S M, Li R Y, Wang X F, Wang H Z. Linkage and regional association analysis reveal two new tightly-linked major-QTLs for pod number and seed number per pod in rapeseed (Brassica napus L.). Sci Rep, 2015, 5:389-452.
[18]	耿鑫鑫, 曾焕, 黄伊雪, 徐飞. 甘蓝型油菜主花序有效角果数QTL定位和候选基因筛选. 江苏农业科学, 2019, 47(7):38-41.
	耿鑫鑫, 曾焕, 黄伊雪, 徐飞. 甘蓝型油菜主花序有效角果数QTL定位和候选基因筛选. 江苏农业科学, 2019, 47(7):38-41.
	Geng X X, Zeng H, Huang Y X, Xu F. QTL mapping and candidate gene screening for effective pod number of main inflorescence ofBrassica napus L. Jiangsu Agric Sci, 2019, 47(7):38-41 (in Chinese with English abstract).
	Geng X X, Zeng H, Huang Y X, Xu F. QTL mapping and candidate gene screening for effective pod number of main inflorescence ofBrassica napus L. Jiangsu Agric Sci, 2019, 47(7):38-41 (in Chinese with English abstract).
[19]	严贤诚, 陈立凯, 罗玉花, 罗文龙, 王慧, 郭涛, 陈志强. 水稻花器官数目突变体mf2的鉴定和基因定位. 作物学报, 2018, 44:169-176.
	严贤诚, 陈立凯, 罗玉花, 罗文龙, 王慧, 郭涛, 陈志强. 水稻花器官数目突变体mf2的鉴定和基因定位. 作物学报, 2018, 44:169-176.
	Yan X C, Chen L K, Luo Y H, Luo W L, Wang H, Guo T, Chen Z Q. Identification and gene mapping of a floral organ number mutant mf2 in rice(Oryza sativa). Acta Agron Sin, 2018, 44:169-176 (in Chinese with English abstract).
	Yan X C, Chen L K, Luo Y H, Luo W L, Wang H, Guo T, Chen Z Q. Identification and gene mapping of a floral organ number mutant mf2 in rice(Oryza sativa). Acta Agron Sin, 2018, 44:169-176 (in Chinese with English abstract).
[20]	Galli M, Gallavotti A. Expanding the regulatory network for meristem size in plants. Trends Genet, 2016, 32:372-383.
	Galli M, Gallavotti A. Expanding the regulatory network for meristem size in plants. Trends Genet, 2016, 32:372-383.
[21]	Tanaka W, Hirano H Y. Antagonistic action of TILLERS ABSENT1 and FLORAL ORGAN NUMBER2 regulates stem cell maintenance during axillary meristem development in rice. New Phytol, 2020, 225:974-984.
	Tanaka W, Hirano H Y. Antagonistic action of TILLERS ABSENT1 and FLORAL ORGAN NUMBER2 regulates stem cell maintenance during axillary meristem development in rice. New Phytol, 2020, 225:974-984.
[22]	刘爽. 番茄心室形成研究进展. 农学学报, 2018, 8(12):63-66.
	刘爽. 番茄心室形成研究进展. 农学学报, 2018, 8(12):63-66.
	Liu S. Research advances of tomato locule formation. J Agric, 2018, 8(12):63-66 (in Chinese with English abstract).
	Liu S. Research advances of tomato locule formation. J Agric, 2018, 8(12):63-66 (in Chinese with English abstract).
[23]	Sunok M, Jung K H, LeeD F, Lee D Y, Jinwon L, Kyungsook A, Gynheung A. The rice FON1 gene controls vegetative and reproductive development by regulating shoot apical meristem size. Mol Cells, 2006, 21:147-52.
	Sunok M, Jung K H, LeeD F, Lee D Y, Jinwon L, Kyungsook A, Gynheung A. The rice FON1 gene controls vegetative and reproductive development by regulating shoot apical meristem size. Mol Cells, 2006, 21:147-52.
[24]	Liu C, Zhou Y, Zhang X C, Zhang J Y, Zhou Z Q, Weng G F, Wang Z H. Natural variation in the THICK TASSEL DWARF1 (TD1) gene in the regulation of maize(Zea mays L.) ear-related traits. Breed Sci, 2019, 69:323-331.
	Liu C, Zhou Y, Zhang X C, Zhang J Y, Zhou Z Q, Weng G F, Wang Z H. Natural variation in the THICK TASSEL DWARF1 (TD1) gene in the regulation of maize(Zea mays L.) ear-related traits. Breed Sci, 2019, 69:323-331.
[25]	Fumio T S, Zhuang Y, Jackson D. The fasciated ear2 gene encodes a leucine-rich repeat receptor-like protein that regulates shoot meristem proliferation in maize. Genes Dev, 2001, 15:2755-2766.
	Fumio T S, Zhuang Y, Jackson D. The fasciated ear2 gene encodes a leucine-rich repeat receptor-like protein that regulates shoot meristem proliferation in maize. Genes Dev, 2001, 15:2755-2766.
[26]	刘洪岩, 岳淑婷, 张琳, 赵文静, 包颖. 影响番茄果实大小相关基因的研究进展. 曲阜师范大学学报(自然科学版), 2018, 44(2):81-85.
	刘洪岩, 岳淑婷, 张琳, 赵文静, 包颖. 影响番茄果实大小相关基因的研究进展. 曲阜师范大学学报(自然科学版), 2018, 44(2):81-85.
	Liu H Y, Yue S T, Zhang L, Zhao W J, Bao Y. Research progresses on related genes of affecting fruit size in tomato. J Qufu Nor Univ(Nat Sci), 2018, 44(2):81-85 (in Chinese with English abstract).
	Liu H Y, Yue S T, Zhang L, Zhao W J, Bao Y. Research progresses on related genes of affecting fruit size in tomato. J Qufu Nor Univ(Nat Sci), 2018, 44(2):81-85 (in Chinese with English abstract).
[27]	Hyten D L, Smith J R, Frederick R D, Tucker M L, Cregan P B. Bulked segregant analysis using the golden gate assay to locate the Rpp3 locus that confers resistance to soybean rust in soybean. Crop Sci, 2009, 49:265-271.
	Hyten D L, Smith J R, Frederick R D, Tucker M L, Cregan P B. Bulked segregant analysis using the golden gate assay to locate the Rpp3 locus that confers resistance to soybean rust in soybean. Crop Sci, 2009, 49:265-271.
[28]	Zou C, Wang P X, Xu Y B. Bulked sample analysis in genetics, genomics and crop improvement. Plant Biotechnol J, 2016, 14:1941-1955.
	Zou C, Wang P X, Xu Y B. Bulked sample analysis in genetics, genomics and crop improvement. Plant Biotechnol J, 2016, 14:1941-1955.
[29]	王楚彪, 卢万鸿, 林彦, 罗建中. 转录组测序的发展和应用. 桉树科技, 2018, 35(4):20-26.
	王楚彪, 卢万鸿, 林彦, 罗建中. 转录组测序的发展和应用. 桉树科技, 2018, 35(4):20-26.
	Wang C B, Lu W H, Lin Y, Luo J Z. Development and application of transcriptome sequencing. Euct Sci Technol, 2018, 35(4):20-26 (in Chinese with English abstract).
	Wang C B, Lu W H, Lin Y, Luo J Z. Development and application of transcriptome sequencing. Euct Sci Technol, 2018, 35(4):20-26 (in Chinese with English abstract).
[30]	Gao J, Dai G X, Zhou W Y, Liang H F, Huang J, Qing D J, Chen W W, Wu H, Yang X H, Li D, Deng G F. Mapping and identifying a candidate gene Plr4, a recessive gene regulating purple leaf in rice, by using bulked segregant and transcriptome analysis with next-generation sequencing. Int J Mol Sci, 2019, 20:4335.
	Gao J, Dai G X, Zhou W Y, Liang H F, Huang J, Qing D J, Chen W W, Wu H, Yang X H, Li D, Deng G F. Mapping and identifying a candidate gene Plr4, a recessive gene regulating purple leaf in rice, by using bulked segregant and transcriptome analysis with next-generation sequencing. Int J Mol Sci, 2019, 20:4335.
[31]	Sunggil K, Cheol W K, Minkyu P, Doil C. Identification of candidate genes associated with fertility restoration of cytoplasmic male-sterility in onion (Allium cepa L.) using a combination of bulked segregant analysis and RNA-seq. Theor Appl Genet, 2015, 128:2289-2299.
	Sunggil K, Cheol W K, Minkyu P, Doil C. Identification of candidate genes associated with fertility restoration of cytoplasmic male-sterility in onion (Allium cepa L.) using a combination of bulked segregant analysis and RNA-seq. Theor Appl Genet, 2015, 128:2289-2299.
[32]	Li H, Bob H, Wysoker A, Tim F, Jue R, Nils H, Gabor M, Richard D. The sequence alignment/map format and SAMtools. bioinformatics. Bioinformatics, 2009, 25:2078-2079.
	Li H, Bob H, Wysoker A, Tim F, Jue R, Nils H, Gabor M, Richard D. The sequence alignment/map format and SAMtools. bioinformatics. Bioinformatics, 2009, 25:2078-2079.
[33]	McKenna A, Hanna M, Banks M, Sivachenko A, Cibulskis K, Kernytsky A, Garimella K, Altshuler D, Gabriel S, DePristo M A. The genome analysis toolkit: a map reduce framework for analyzing next-generation DNA sequencing data. Genome Res, 2010, 20:1297-1303.
	McKenna A, Hanna M, Banks M, Sivachenko A, Cibulskis K, Kernytsky A, Garimella K, Altshuler D, Gabriel S, DePristo M A. The genome analysis toolkit: a map reduce framework for analyzing next-generation DNA sequencing data. Genome Res, 2010, 20:1297-1303.
[34]	Trapnell C, Williams B A, Pertea G, Mortazavi A, Kwan G, Marijke J B, Salzberg S L, Lior P. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol, 2010, 28:511-515.
	Trapnell C, Williams B A, Pertea G, Mortazavi A, Kwan G, Marijke J B, Salzberg S L, Lior P. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol, 2010, 28:511-515.
[35]	Simon A, Paul P, Huber T, Wolf G. HTSeq: a Python framework to work with high-throughput sequencing data. Bioinformatics, 2015, 31:166-169.
	Simon A, Paul P, Huber T, Wolf G. HTSeq: a Python framework to work with high-throughput sequencing data. Bioinformatics, 2015, 31:166-169.
[36]	苏倩, 吴洁, 杜佳慧, 杨凡, 袁濮玉, 刘松柏, 邱秀芹. 荧光定量PCR对FEN1敲低细胞株转录组测序结果的验证. 重庆医学, 2019, 48:2528-2531.
	苏倩, 吴洁, 杜佳慧, 杨凡, 袁濮玉, 刘松柏, 邱秀芹. 荧光定量PCR对FEN1敲低细胞株转录组测序结果的验证. 重庆医学, 2019, 48:2528-2531.
	Su Q, Wu J, Du J H, Yang F, Yuan P Y, Liu S B, Qiu X Q. Verification of transcriptome sequencing of FEN1 knockdown cell line by real-time quantitative PCR. Chongqing Med J, 2019, 48:2528-2531 (in Chinese with English abstract).
	Su Q, Wu J, Du J H, Yang F, Yuan P Y, Liu S B, Qiu X Q. Verification of transcriptome sequencing of FEN1 knockdown cell line by real-time quantitative PCR. Chongqing Med J, 2019, 48:2528-2531 (in Chinese with English abstract).
[37]	张尧锋, 张冬青, 余华胜, 林宝刚, 华水金, 丁厚栋, 傅鹰. 基于极端混合池(BSA)全基因组重测序的甘蓝型油菜有限花序基因定位. 中国农业科学, 2018, 51:3029-3039.
	张尧锋, 张冬青, 余华胜, 林宝刚, 华水金, 丁厚栋, 傅鹰. 基于极端混合池(BSA)全基因组重测序的甘蓝型油菜有限花序基因定位. 中国农业科学, 2018, 51:3029-3039.
	Zhang Y F, Zhang D Q, Yu H S, Lin B G, Hua S J, Ding H D, Fu Y. Location and mapping of the determinate growth habit of Brassica napus by bulked segregant analysis (BSA) using whole genome re-sequencing. Sci Agric Sin, 2018, 51:3029-3039.
	Zhang Y F, Zhang D Q, Yu H S, Lin B G, Hua S J, Ding H D, Fu Y. Location and mapping of the determinate growth habit of Brassica napus by bulked segregant analysis (BSA) using whole genome re-sequencing. Sci Agric Sin, 2018, 51:3029-3039.
[38]	Kaur H, Banga S S. Discovery and mapping of Brassica juncea Sdt 1 gene associated with determinate plant growth habit. Theor Appl Genet, 2015, 128:235-245.
	Kaur H, Banga S S. Discovery and mapping of Brassica juncea Sdt 1 gene associated with determinate plant growth habit. Theor Appl Genet, 2015, 128:235-245.
[39]	Li K X, Yao Y M, Xiao L, Zhao Z G, Guo S M, Du D Z. Fine mapping of the Brassica napus Bnsdt1 gene associated with determinate growth habit. Theor Appl Genet, 2018, 131:193-208.
	Li K X, Yao Y M, Xiao L, Zhao Z G, Guo S M, Du D Z. Fine mapping of the Brassica napus Bnsdt1 gene associated with determinate growth habit. Theor Appl Genet, 2018, 131:193-208.
[40]	Shannon S. A mutation in the Arabidopsis TFL1 gene affects inflorescence meristem development. Plant Cell, 1991, 3:877-892.
	Shannon S. A mutation in the Arabidopsis TFL1 gene affects inflorescence meristem development. Plant Cell, 1991, 3:877-892.
[41]	Long J A, Ohno C, Smith Z R, Meyerowitz E M. TOPLESS regulates apical embryonic fate in Arabidopsis. Science, 2006, 312:1520-1523.
	Long J A, Ohno C, Smith Z R, Meyerowitz E M. TOPLESS regulates apical embryonic fate in Arabidopsis. Science, 2006, 312:1520-1523.
[42]	Krizek B A, Ivory C. Blakley, Ho Y Y, Loraine A E. The Arabidopsis transcription factor AINTEGUMENTA orchestrates patterning genes and auxin signaling in the establishment of floral growth and form. Plant J, 2020, 103:752-768.
	Krizek B A, Ivory C. Blakley, Ho Y Y, Loraine A E. The Arabidopsis transcription factor AINTEGUMENTA orchestrates patterning genes and auxin signaling in the establishment of floral growth and form. Plant J, 2020, 103:752-768.
[43]	万薇, 余坤江, 叶波涛, Aimal N K, 王天娅, 杨仁芹, 林树春, 田恩堂. TFL1相关基因调控植物花序发育的分子机制. 植物生理学报, 2020, 56:367-372.
	万薇, 余坤江, 叶波涛, Aimal N K, 王天娅, 杨仁芹, 林树春, 田恩堂. TFL1相关基因调控植物花序发育的分子机制. 植物生理学报, 2020, 56:367-372.
	Wan W, Yu K J, Ye B T, Aimal N K, Wang T Y, Yang R Q, Lin S C, Tian E T. Molecular mechanism of TFL1 related genes regulating plant inflorescence development. J Plant Physiol, 2020, 56:367-372.
	Wan W, Yu K J, Ye B T, Aimal N K, Wang T Y, Yang R Q, Lin S C, Tian E T. Molecular mechanism of TFL1 related genes regulating plant inflorescence development. J Plant Physiol, 2020, 56:367-372.
[44]	Sriboon S, Li H T, Guo C C, Senkhamwong T, Cheng D, Liu K D. Knock-out of TERMINAL FLOWER 1 genes altered flowering time and plant architecture in Brassica napus. BMC Genet, 2020, 21:627-348.
	Sriboon S, Li H T, Guo C C, Senkhamwong T, Cheng D, Liu K D. Knock-out of TERMINAL FLOWER 1 genes altered flowering time and plant architecture in Brassica napus. BMC Genet, 2020, 21:627-348.
[45]	Ledger S, Strayer C, Ashton F, Kay S A, Putterill J. Analysis of the function of two circadian-regulated CONSTANS-LIKE genes. Plant J, 2001, 26:15-22
	Ledger S, Strayer C, Ashton F, Kay S A, Putterill J. Analysis of the function of two circadian-regulated CONSTANS-LIKE genes. Plant J, 2001, 26:15-22
[46]	Song H R, Song J D, Cho J N, Amasino R M, Noh Y S. The RNA binding protein ELF9 directly reduces suppressor of overexpression of CO1 transcript levels in Arabidopsis, possibly via nonsensemediated mRNA decay. Plant Cell, 2009, 21:1195-1211.
	Song H R, Song J D, Cho J N, Amasino R M, Noh Y S. The RNA binding protein ELF9 directly reduces suppressor of overexpression of CO1 transcript levels in Arabidopsis, possibly via nonsensemediated mRNA decay. Plant Cell, 2009, 21:1195-1211.
[47]	Wiszniewski A A G, Bussell J D, Smith S M. Knockout of the two evolutionarily conserved peroxisomal 3-ketoacyl-CoA thiolases in Arabidopsis recapitulates the abnormal inflorescence meristem 1 phenotype. J Exp Bot, 2014, 65:6723-6733.
	Wiszniewski A A G, Bussell J D, Smith S M. Knockout of the two evolutionarily conserved peroxisomal 3-ketoacyl-CoA thiolases in Arabidopsis recapitulates the abnormal inflorescence meristem 1 phenotype. J Exp Bot, 2014, 65:6723-6733.
[48]	Tan L M, Liu R, Gu B W, Zhang C J, Luo J Y, Guo J, Wang Y H, Chen L X, Du X, Li S S, Shao C R, Su Y N, Cai X W, Lin R N, Li L, Chen S, He X J. Dual recognition of H3K4me3 and DNA by the ISWI component ARID5 regulates the floral transition inArabidopsis. Plant Cell, 2020, 32:2178-2195.
	Tan L M, Liu R, Gu B W, Zhang C J, Luo J Y, Guo J, Wang Y H, Chen L X, Du X, Li S S, Shao C R, Su Y N, Cai X W, Lin R N, Li L, Chen S, He X J. Dual recognition of H3K4me3 and DNA by the ISWI component ARID5 regulates the floral transition inArabidopsis. Plant Cell, 2020, 32:2178-2195.

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亲本 Parent	主花序花器官数目 FNm	主花序角果数 SNm	株高 PH
No.7931	8.33±1.24	7.67±0.94	154.3±2.06
No.73290	199.3±1.24	93.67±2.49	150.4±1.57
t检验值t-test value	5.45E-09	6.91E-07	0.0170

亲本 Parent	主花序花器官数目 FNm	主花序角果数 SNm	株高 PH
No.7931	8.33±1.24	7.67±0.94	154.3±2.06
No.73290	199.3±1.24	93.67±2.49	150.4±1.57
t检验值t-test value	5.45E-09	6.91E-07	0.0170

基因 Gene	正向引物 Forward primer (5°-3°)	反向引物 Reverse primer (5°-3°)
BnaA02G0314300ZS	CCGACACGCTTCAGAAGGTC	AGAGATCCCGCTTCGACTCC
BnaC03G0027000ZS	TGAGAACACGCCGGTCAAAG	CCTCGCGTTCTCTCTCTCCA
BnaC03G0100100ZS	CTGATGGCCGTAGAGCATGC	AGCCATCTCCTGTTGTTGCA
BnaC03G0091000ZS	TCCCACTCTACCCTGCACTG	GACGTTGTTCACATTCGCGC
BnaC02G0283700ZS	ACAACATGGCCCTGGAAACTG	CTTGGAGGCGGATGATCGTT
BnaC02G0139700ZS	CGGCGGAGGTACAGACATTT	TCGTCATGATGAGCCTCTCCT
BnaC02G0175400ZS	GCGCCTCGTATCCATTCTCG	CCTGAAGTTGTGGCGAGCTT
BnaA01G0077800ZS	CCACCGTCATGTCTTCCTTCC	ACGAGTTGGAAGTGTGCGTT
BnaA01G0061200ZS	GGGAACGGCTTAGATGGTGC	TTGCTAGTACCAGGGCTGCT
BnaC02G0013900ZS	CATTGGCTCGTCATGAACATC	TTCACGAGTGTTGAACTGATCC
BnaC02G0159100ZS	CTGTCACTGGAAACCACCCG	TCAATCGACCATGGCAAGCA
BnaA01G0009100ZS	TCTGCTCTGAACGCGACCAA	ACCAGCCAAAGAACCAGGGT
BnaA01G0037200ZS	TCCTCAACTGTGCCGACATGT	AAAGCCGTCGTCAATCTCGC
BnaC05G0266700ZS	AGACTACGTGAAGCAGCCGA	CTCCAGCTTCCGACCAGTCT
BraActin	CTGGAATTGCTGACCGTATGAG	ATCTGTTGGAAAGTGCTGAGGG

基因 Gene	正向引物 Forward primer (5°-3°)	反向引物 Reverse primer (5°-3°)
BnaA02G0314300ZS	CCGACACGCTTCAGAAGGTC	AGAGATCCCGCTTCGACTCC
BnaC03G0027000ZS	TGAGAACACGCCGGTCAAAG	CCTCGCGTTCTCTCTCTCCA
BnaC03G0100100ZS	CTGATGGCCGTAGAGCATGC	AGCCATCTCCTGTTGTTGCA
BnaC03G0091000ZS	TCCCACTCTACCCTGCACTG	GACGTTGTTCACATTCGCGC
BnaC02G0283700ZS	ACAACATGGCCCTGGAAACTG	CTTGGAGGCGGATGATCGTT
BnaC02G0139700ZS	CGGCGGAGGTACAGACATTT	TCGTCATGATGAGCCTCTCCT
BnaC02G0175400ZS	GCGCCTCGTATCCATTCTCG	CCTGAAGTTGTGGCGAGCTT
BnaA01G0077800ZS	CCACCGTCATGTCTTCCTTCC	ACGAGTTGGAAGTGTGCGTT
BnaA01G0061200ZS	GGGAACGGCTTAGATGGTGC	TTGCTAGTACCAGGGCTGCT
BnaC02G0013900ZS	CATTGGCTCGTCATGAACATC	TTCACGAGTGTTGAACTGATCC
BnaC02G0159100ZS	CTGTCACTGGAAACCACCCG	TCAATCGACCATGGCAAGCA
BnaA01G0009100ZS	TCTGCTCTGAACGCGACCAA	ACCAGCCAAAGAACCAGGGT
BnaA01G0037200ZS	TCCTCAACTGTGCCGACATGT	AAAGCCGTCGTCAATCTCGC
BnaC05G0266700ZS	AGACTACGTGAAGCAGCCGA	CTCCAGCTTCCGACCAGTCT
BraActin	CTGGAATTGCTGACCGTATGAG	ATCTGTTGGAAAGTGCTGAGGG

油菜基因编号 B. napus ID	拟南芥基因名 Name of A. thaliana	拟南芥基因编号 A. thaliana ID	位置Position (Mb)	基因注释 Gene annotation	序列差异 Sequence difference	差异表达基因 Differential expressed genes
BnaC02g00490.1D2	FLC	AT5g10140	0.208	K盒区和MADS转录因子家族蛋白 K-box region and MADS-box transcription factor family protein	有Yes	是No
BnaC02g01030.1D2	TPR1	AT1G80490	0.465	TPL相关的基因1 TOPLESS-related 1	无No	否No
BnaC02g01120.1D2	AGAL2	AT5G08370	0.493	α-半乳糖苷酶2 Alpha-galactosidase 2	无No	否No
BnaC02g00270.1D2	AIL6	AT5G10510	0.996	类ANT基因6 AINTEGUMENTA-LIKE 6	有Yes	否No
BnaC02g02670.1D2	TFL1	AT5G03840	1.10	磷脂酰乙醇胺结合蛋白 Phosphatidylethanolamine-binding-protein	无No	是Yes
BnaC02g08680.1D2	COL1	AT5G15850	4.83	类CO基因1 CONSTANS-like 1	有Yes	否No
BnaC02g08890.1D2	ELF9	AT5G16260	4.96	RNA结合(RRM/RBD/RNP基序)家族蛋白RNA binding (RRM/RBD/RNP motifs) family protein	有Yes	否No
BnaC02g09480.1D2	AIM1	AT4G29010	5.23	烯酰辅酶A水合酶/异构酶家族 Enoyl-CoA hydratase/isomerase family	有Yes	否No
BnaC02g10490.1D2	CHR17	AT5G18620	5.97	染色质重塑因子17 Chromatin remodeling factor 17	无No	是Yes

Mapping and candidate gene analysis of silique number mutant in Brassica napus L.

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