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作物学报 ›› 2023, Vol. 49 ›› Issue (10): 2621-2632.doi: 10.3724/SP.J.1006.2023.34022

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

大豆百粒重稳定QTL qSW20-1定位及对产量和品质的影响

孙建强1,2(), 洪慧龙1,2, 张勇3, 谷勇哲2, 高华伟2, 周雅2, 曹杰2, 祁航2, 赵权2, 包立高4, 陈庆山1, 邱丽娟1,2()   

  1. 1东北农业大学农学院, 黑龙江哈尔滨 150030
    2农作物基因资源与遗传改良国家重大科学工程 / 农业农村部种质资源利用重点实验室 / 中国农业科学院作物科学研究所, 北京 100081
    3黑龙江省农业科学院克山分院, 黑龙江齐齐哈尔 161606
    4内蒙古自治区农牧业技术推广中心, 内蒙古呼和浩特 010018
  • 收稿日期:2023-02-04 接受日期:2023-04-17 出版日期:2023-10-12 网络出版日期:2023-04-26
  • 通讯作者: 邱丽娟, E-mail: qiulijuan@caas.cn
  • 作者简介:孙建强, E-mail: 1209506464@qq.com **同等贡献
  • 基金资助:
    本研究由国家重点研发计划项目(2021YFD1201600)

Mapping of stable QTL qSW20-1 for 100-seed weight and its effect on yield and quality in soybean

SUN Jian-Qiang1,2(), HONG Hui-Long1,2, ZHANG Yong3, GU Yong-Zhe2, GAO Hua-Wei2, ZHOU Ya2, CAO Jie2, QI Hang2, ZHAO Quan2, BAO Li-Gao4, CHEN Qing-Shan1, QIU Li-Juan1,2()   

  1. 1College of Agriculture, Northeast Agricultural University, Harbin 150030, Heilongjiang, China
    2National Key Facility for Gene Resources and Genetic Improvement / Key Laboratory of Crop Germplasm Utilization, Ministry of Agriculture and Rural Affairs / Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
    3Keshan Branch of Heilongjiang Academy of Agricultural Sciences, Qiqihar 161606, Heilongjiang, China
    4Agriculture and Animal Husbandry Technology Promotion Center of Inner Mongolia Autonomous Region, Hohhot 010018, Inner Mongolia, China
  • Received:2023-02-04 Accepted:2023-04-17 Published:2023-10-12 Published online:2023-04-26
  • Contact: E-mail: qiulijuan@caas.cn
  • About author:**Contributed equally to this work
  • Supported by:
    National Key Research and Development Program of China(2021YFD1201600)

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摘要：

籽粒重量是大豆产量构成的关键因素之一, 克隆主要数量性状基因座(QTL)中控制种子重量的关键基因对提高大豆产量具有重要意义。本研究以齐黄34×东生16构建的325个重组自交系(RIL)为材料, 利用SLAF-seq构建了高密度遗传连锁图谱, 总图距为2945.26 cM, 平均图距为0.47 cM, 结合3个环境百粒重表型, 检测到11个与百粒重相关的QTL。其中, 环境稳定的QTL为qSW20-1, 可解释9.73%~18.10%的表型变异。该QTL的大粒等位基因可显著增加单株粒数和单株粒重, 但对蛋白含量和脂肪含量2个品质性状无不利影响, 区间大小为435.42 kb, 包含36个基因, 通过基因注释和表达模式分析, 预测5个候选基因。本研究结果为大豆增产基因挖掘和分子设计育种奠定了坚实的基础。

关键词: 大豆, 百粒重, SLAF图谱, QTL定位

Abstract:

Seed weight is one of the key factors of soybean yield. Cloning the key genes controlling seed weight in major quantitative trait loci (QTL) is of great significance to improve soybean yield. In this study, a high-density genetic linkage map was constructed by SLAF-seq using 325 recombinant inbred lines (RILs) constructed by Qihuang 34 × Dongsheng 16 as the experimental materials. The total map distance was 2945.26 cM, and the average map distance was 0.47 cM. Combined with three environmental 100-seed weight phenotypes, 11 QTL related to 100-seed weight were detected. Among them, the QTL with stable environment was qSW20-1, which explaining 9.73%-18.10% of phenotypic variation. The large grain allele of the QTL could significantly increase the number of seed per plant and seed weight per plant, but there was no adverse effect on the two quality traits of protein content and fat content. The interval size was 435.42 kb, containing 36 genes. Five candidate genes were predicted by gene annotation and expression pattern analysis. The results of this study laid a solid foundation for soybean yield-increasing gene mining and molecular design breeding.

Key words: soybean, 100-seed weight, SLAF map, QTL mapping

表1

齐黄34×东生16重组自交系及亲本的百粒重性状表型"

环境
Environment		 亲本Parents 重组自交系RIL
齐黄34
Qihuang 34		 东生16
Dongsheng 16		 均值
Mean		 标准差
SD		 最大值
Max.		 最小值
Min.		 峰度
Skewness		 偏度
Kurtosis		 变异系数
CV (%)
2021_CP 27.97±0.20 16.59±0.16 23.97 3.69 35.79 10.65 0.00 0.41 15.40
2022_SY 32.67±0.69 27.38±1.68 29.71 3.68 40.40 19.73 0.12 -0.15 12.40
2022_CP 29.48±2.22 22.63±1.29 25.64 2.78 35.30 16.58 0.77 0.09 10.83
BLUP 29.69±1.01 22.55±0.43 26.44 2.22 33.57 20.10 0.16 0.12 8.38

图1

齐黄34×东生16重组自交系及亲本的百粒重表型分布特征 垂直箭头表示两亲本表型。曲线代表密度图。"

图2

大豆高密度遗传图谱及与参考基因组共线性分析 A: SLAF标记分布在20条染色体上。每个连锁组中的黑条代表映射的SLAF-seq标记。连锁群编号显示在X轴上, 遗传距离显示在Y轴上(cM为单位)。B: 横坐标是各连锁群的遗传距离; 纵坐标是每个连锁群的物理长度, 它分散了基因组和遗传图谱共线性中标记的形式。不同的颜色代表不同的染色体或连锁群。"

表2

高密度遗传图谱基本信息统计"

连锁群
Linkage group		 标记数
No. of markers		 总图距
Map distance
(cM)		 平均图距
Average map distance (cM)		 间距<5 cM
Gaps<5 cM
(%)		 最大间距
Max. gap
(cM)
Gm01 348 145.08 0.42 100.00 4.54
Gm02 372 156.70 0.42 99.46 5.56
Gm03 365 167.92 0.46 99.18 7.46
Gm04 309 140.07 0.45 99.03 7.28
Gm05 183 160.41 0.88 98.35 5.38
Gm06 211 145.65 0.69 99.05 8.32
Gm07 371 161.22 0.44 99.46 9.49
Gm08 255 125.88 0.50 100.00 4.00
Gm09 357 133.83 0.38 99.72 5.50
Gm10 455 123.76 0.27 99.56 7.94
Gm11 131 122.39 0.94 96.92 10.95
Gm12 133 128.10 0.97 97.73 14.34
Gm13 243 125.73 0.52 99.17 10.69
Gm14 224 148.46 0.67 99.55 11.70
Gm15 625 167.77 0.27 99.36 7.90
Gm16 390 192.55 0.49 99.23 7.58
Gm17 345 148.67 0.43 98.84 6.76
Gm18 283 142.60 0.51 100.00 4.43
Gm19 484 152.16 0.32 99.79 6.31
Gm20 213 156.31 0.74 99.06 5.82
总计Total 6297 2945.26 0.47 99.17 14.34

图3

齐黄34×东生16群体中定位到的11个百粒重相关QTL"

表3

3个环境中及BLUP数据鉴定百粒重的数量性状位点(QTL)"

位点
QTL		 环境
Environment		 染色体
Chr.		 标记区间
Flanking marker		 遗传区间
Genetic interval (cM)		 标记物理位置(a4)
Physical position of markers (a4)		 阈值
LOD		 表型贡献率
PVE (%)		 加性效应
Add		 已报道的区间
Reported QTLs
qSW6-1 2021_CP 6 Marker857319-Marker851862 43.5-44.5 28822155-35028781 4.18 4.01 -0.66 a [29], [30]
qSW6-2 2022_SY 6 Marker870421-Marker829649 90.5-95.5 10214058-12141974 6.05 5.39 -0.80 a [31]
BLUP 6 Marker870421-Marker829649 90.5-95.5 10214058-12141974 3.61 3.23 -0.37 a [31]
qSW7-1 2022_SY 7 Marker2815425-Marker2794476 91.5-94.5 6672130-7004632 5.61 5.03 0.76 b [32]
qSW7-2 2022_CP 7 Marker2748563-Marker2730119 87.5-88.5 7479038-7542682 10.81 9.33 0.90 b [32]
qSW12-1 2022_CP 12 Marker5062944-Marker4965351 49.5-50.5 18776850-21043651 3.71 3.06 0.51 b 新位点New
qSW13-1 2022_SY 13 Marker3590403-Marker3588064 85.5-87.5 36310106-36606816 5.74 5.05 -0.77 a [33]
qSW15-1 2021_CP 15 Marker4129867-Marker3915380 28.5-29.5 24348758-26925946 5.50 5.62 0.77 b [34]
BLUP 15 Marker4129867-Marker3915380 28.5-29.5 24348758-26925946 7.30 6.89 0.53 b [34]
qSW15-2 2022_SY 15 Marker4103818-Marker3854574 25.5-26.5 43842763-44130443 6.70 5.99 0.83 b 新位点New
qSW17-1 2021_CP 17 Marker5995186-Marker5989688 80.5-86.5 7982531-8957550 3.15 3.14 -0.57 a [35]
qSW18-1 2022_CP 18 Marker4315158-Marker4223583 65.5-68.5 12642699-14065422 5.09 4.28 -0.61 a 新位点New
qSW20-1 2021_CP 20 Marker2521089-Marker2536819 38.5-39.5 35867412-36014827 13.78 14.26 -1.23 a [36]
2022_SY 20 Marker2377057-Marker2521089 36.5-38.5 35579408-36014827 18.06 18.10 -1.45 a [36]
2022_CP 20 Marker2377057-Marker2521089 35.5-38.5 35579408-36014827 10.85 9.73 -0.92 a [36]
BLUP 20 Marker2416012-Marker2448322 39.5-40.5 35916231-35920512 19.87 19.04 -0.89 a [36]

表4

3个环境中及BLUP数据鉴定百粒重的上位性QTL"

环境
Environment		 上位性QTL
Epi-QTL		 染色体
Chromosome		 位置1
Position1		 标记区间
Flanking markers		 上位性QTL
Epi-QTL		 染色体
Chr.		 位置2
Position2		 标记区间2
Flanking markers2		 阈值
LOD		 表型贡献率
PVE (%)
2022_SY Epi-qSW3-1 3 60 Marker2065303-Marker2142542 Epi-qSW12-1 12 5 Marker4944242-Marker5028286 5.75 6.0603

图4

主要数量性状位点(QTL) qSW20-1的遗传图谱及其对齐黄34×东生16群体百粒重性状的影响 A: qSW20-1的遗传图谱; 遗传图谱的区间用黑色部分表示。B: 区间基因型与百粒重表型相关性分析, DS16和QH34分别代表齐黄34和东生16的等位基因。****为P < 0.0001。"

图5

qSW20-1对齐黄34×东生16群体其他性状的影响 各环境下, qSW20-1对齐黄34×东生16群体单株粒重(A)、单株粒数(B)、蛋白含量(C)和脂肪含量(D)的影响。DS16和QH34分别代表齐黄34和东生16的等位基因; *、**、****分别为P < 0.05, P < 0.01, P < 0.0001; ns表示无显著差别。"

附表1

定位区间内候选基因"

基因名称
Gene name		 推测功能
Putative function
Glyma.20G114400 无注释 No annatation
Glyma.20G114500 二氢硫辛酰胺转乙酰酶 Dihydrolipoamide acetyltransferase
Glyma.20G114600 糖脂转移蛋白相关 Glycolipid transfer protein related
Glyma.20G114700 紫外线切除修复蛋白RAD23 UV excision repair protein RAD23
Glyma.20G114800 无注释 No annatation
Glyma.20G114900 无注释 No annatation
Glyma.20G114933 酸性N端SPT6 Acidic N-terminal SPT6
Glyma.20G114966 无注释 No annatation
Glyma.20G115000 PPR重复序列(PPR) PPR repeat (PPR)
Glyma.20G115100 Kow结构域转录因子1 Kow domain transcription factor 1
Glyma.20G115200 无注释 No annatation
Glyma.20G115300 DNA结合/转录因子 DNA binding/transcription factor
Glyma.20G115500 3-酮酰基辅酶a合酶5相关 3-ketoacyl-co a synthase 5
Glyma.20G115600 B-box锌指 B-box zinc finger
Glyma.20G115700 LOB结构域-包含蛋白42 LOB domain-containing protein 42
Glyma.20G115800 无注释 No annatation
Glyma.20G115900 无注释 No annatation
Glyma.20G116000 无注释 No annatation
Glyma.20G116100 50S核糖体蛋白L15, 叶绿体 50S ribosomal protein L15, chloroplast
Glyma.20G116200 锌指蛋白JAGGED相关 Zinc finger protein JAGGED related
Glyma.20G116300 蛋白质ISTR-1, 同功型A Protein ISTR-1, Isoform A
Glyma.20G116400 磷脂酶相关的//α/β-水解酶样蛋白 Phospholipase-related//α/β-hydrolase-like protein
Glyma.20G116500 腺苷酸异戊烯转移酶1, 叶绿体相关 Isopentene adenylate transferase 1, chloroplast correlation
Glyma.20G116600 VQ基序(VQ) VQ motif (VQ)
Glyma.20G116700 无注释 No annatation
Glyma.20G116800 单链核酸内切酶Single-stranded-nucleate endonuclease
Glyma.20G116900 酰转移酶 Acyltransferase
Glyma.20G117000 MYB样DNA结合蛋白MYB//MYB转录因子 MYB-like DNA binding protein MYB//MYB transcription factor
Glyma.20G117100 tRNA合成酶I类(E和Q), 催化结构域(tRNA-synt_1c) tRNA synthetases class I (E and Q), catalytic domain (tRNA-synt_1c)
Glyma.20G117150 谷氨酰胺-tRNA合成酶, 非特异性RNA结合区第1部分( tRNA_synt_1c_R1)
Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1 (tRNA_synt_1c_R1)
Glyma.20G117200 无注释 No annatation
Glyma.20G117300 BAX抑制剂相关//未命名的亚家族 BAX inhibitor related//unnamed subfamily
Glyma.20G117400 无注释 No annatation
Glyma.20G117500 棉纤维表达蛋白(DUF761) Cotton fibre expressed protein (DUF761)
Glyma.20G117600 半胱氨酸-TRNA合成酶//半胱氨酸-TRNA连接酶 Cysteine-TRNA synthetase//cysteine-TRNA ligase
Glyma.20G117700 无注释 No annatation

图6

种子发育时期大豆百粒重相关候选基因特异性表达分析 数据信息来源于SoyBase中大豆参考基因组Wm82.a2.v1提供的RNA-Seq。"

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