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作物学报 ›› 2019, Vol. 45 ›› Issue (1): 37-45.doi: 10.3724/SP.J.1006.2019.84042

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

基于SNP遗传图谱定位甘蓝型油菜分枝角度QTL

汪文祥1(),储文1,梅德圣1,成洪涛1,朱琳琳2,付丽1,胡琼1,刘佳1,*()   

  1. 中国农业科学院油料作物研究所 / 农业农村部油料作物生物学与遗传育种重点实验室, 湖北武汉 430062
    南漳县植保站, 湖北襄阳 441500
  • 收稿日期:2018-03-22 接受日期:2018-08-20 出版日期:2018-09-09 网络出版日期:2018-09-09
  • 通讯作者: 刘佳
  • 基金资助:
    本研究由中国农业科学院科技创新工程(Group No. 118);国家农业现代产业技术体系建设专项(CARS-12);湖北省科技创新工程和国家自然科学基金项目资助(31471535);湖北省科技创新工程和国家自然科学基金项目资助(31771842)

Quantitative trait loci mapping for branch angle and candidate gene screening in Brassica napus L.

Wen-Xiang WANG1(),Wen CHU1,De-Sheng MEI1,Hong-Tao CHENG1,Lin-Lin ZHU2,Li FU1,Qiong HU1,Jia LIU1,*()   

  1. 1 Oil Crops Research Institute, Chinese Academy of Agricultural Sciences / Key Laboratory of Biology and Genetic Improvement of Oil Crops of the Ministry of Agriculture and Rural Affairs, Wuhan 430062, Hubei, China
    2 Plant Protection Station of Nanzhang, Xiangyang 441500, Hubei, China
  • Received:2018-03-22 Accepted:2018-08-20 Published:2018-09-09 Published online:2018-09-09
  • Contact: Jia LIU
  • Supported by:
    This study was supported by the Science and Technology Innovation Project of Chinese Academy of Agricultural Sciences(Group No. 118);the China Agriculture Research System(CARS-12);the Hubei Agricultural Science and Technology Innovation Center, and the National Natural Science Foundation of China(31471535);the Hubei Agricultural Science and Technology Innovation Center, and the National Natural Science Foundation of China(31771842)

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摘要：

分枝角度是油菜株型的重要性状, 与油菜的耐密植性密切相关。本研究利用油菜分枝角差异显著的育种亲本材料1098B (分枝角小)和R2 (分枝角大)杂交获得F1, 通过小孢子培养获得含163份株系的DH群体。以油菜60K SNP芯片进行DH群体基因分型, 构建高密度遗传图谱, 并利用QTL Cartographer 2.5对2个环境下油菜顶端分枝角和基部分枝角进行QTL分析。结果表明, 构建的高密度遗传图谱覆盖甘蓝型油菜19条染色体, 包含9521个多态性SNP标记, 1442个簇(bin), 覆盖基因组长度为2544.07 cM, 相邻簇(bin)之间平均距离为1.76 cM。在此图谱基础上采用复合区间作图法(CIM), 在2个环境下检测到17个分枝角度QTL, 分别位于A01、A02、A03、A06、A09、C02、C03、C04、C06和C08染色体上, 单个QTL解释的表型变异为6.39%~21.78%。用比较基因组方法与拟南芥分枝角度同源基因区间比对, 鉴定出其中6个QTL的12个候选基因。其中位于A03连锁群QTL在2年的试验中被重复检测到, 根据物理位置和基因组信息推测VAMP714为分枝角度的候选基因。这些QTL和候选基因将为油菜分枝角度的遗传改良提供有用的信息。

关键词: 甘蓝型油菜, 分枝角度, 60K SNP芯片, QTL位点, 候选基因

Abstract:

Branch angle is an important agronomic trait of plant architecture. In this study, 163 lines of a DH population derived from a cross between 1019B (compact type) and R2 (loose type) were genotyped by using 60K SNP array and a high-density genetic linkage map was constructed with 1442 bins inclusive of 9521 SNP markers to detect quantitative trait loic (QTL) for basal branch angle and top branch angle. The genetic map contained 19 lingkage groups with a total length of 2544.07 cM and an average distance between adjacent bin-markers of 1.76 cM. Totally, 17 QTL for branch angle were detected on chromosomes A01, A02, A03, A06, A09, C02, C03, C04, C06, and C08, respectively. The phenotypic variation accounted by a single locus was from 6.36% to 21.78%. Twelve candidate genes of branch angle were found underlying six QTL by comparing with homologous genes in Arabidopsis. Candidate gene VAMP714 was close to the peak position of A03 QTL confidence interval, which was identified on chromosome A03 in both environments. These QTL and candidate genes provide useful information for the genetic modification of rapeseed branch angle.

Key words: oilseed rape, branch angle, 60K SNP array, QTL mapping, candidate gene

表1

亲本及DH群体分枝角度性状两年的表型分析"

年份
Year		 性状
Trait		 亲本 Parent Pt-test DH群体 DH population
1019B (o) R2 (o) 范围
Range (o)		 均值
Mean (o)		 标准差
SD		 变异系数
CV		 偏度
Skewness		 峰度
Kurtosis
2014 BBA 28.13±5.45 42.34±4.43 6.09E-03 26.17-50.22 36.46 5.23 14.35 -0.777 -0.085
TBA 36.32±5.46 46.65±4.08 1.47E-02 22.98-56.37 37.74 5.41 14.33 0.515 0.080
2015 BBA 27.90±3.50 37.72±2.25 1.44E-05 20.76-45.64 32.68 5.54 16.94 -0.201 0.150
TBA 38.75±6.30 47.66±6.10 2.46E-03 26.30-63.99 40.43 6.70 16.57 1.364 0.625

图1

油菜1019B×R2 DH群体分枝角度性状(BBA和TBA)两年的频率分布图"

表2

在2014年和2015年甘蓝型油菜DH群体分枝角度性状的相关系数"

2015BBA 2014TBA 2015TBA
2014BBA 0.411** 0.542** 0.353**
2015BBA 0.432** 0.586**
2014TBA 0.362**

图2

SNP标记簇在连锁群上分布图 纵坐标显示甘蓝型油菜基因组19个连锁群中的每一个SNP簇的遗传距离。"

表3

2个环境中检测到的顶端分枝角和基部分枝角QTL"

年份
Year		 性状
Trait		 数量性状位点
QTL		 染色体
Chromosome		 位置
Position		 置信区间
Confidence interval		 阈值
LOD		 加性效应
Additive		 贡献率
R2(%)
2014 BBA qBBA.A02.1 A02 4.0 0-24.0 3.7 2.15 15.10
qBBA.A03.1 A03 11.1 7.9-15.0 2.8 1.74 9.31
qBBA.C08.1 C08 8.4 0-11.4 2.8 -1.94 8.85
2015 BBA qBBA.A01.1 A01 34.0 32.5-35.4 2.8 1.70 8.07
qBBA.A03.2 A03 11.8 10.2-14.9 3.9 2.03 11.79
qBBA.C03.1 C03 101.7 99.7-103.6 3.9 -2.12 12.66
2014 TBA qTBA.A06.1 A06 90.4 87.2-91.4 2.9 -1.44 8.20
qTBA.A09.1 A09 87.0 82.0-90.2 6.9 -2.35 21.78
qTBA.C03.1 C03 146.0 144.2-148.5 4.3 -1.79 12.73
qTBA.C08.1 C08 8.4 0-11.4 3.0 -1.69 8.78
2015 TBA qTBA.A03.1 A03 17.6 14.9-18.8 0.2 1.85 8.28
qTBA.A09.2 A09 3.1 0.9-4.2 4.1 -2.14 11.08
qTBA.C02.1 C02 47.3 45.8-49.2 2.8 1.61 6.39
qTBA.C02.2 C02 54.8 53.4-57.5 3.2 1.83 8.07
qTBA.C02.3 C02 65.5 64.5-71.6 2.8 1.65 6.43
qTBA.C04.1 C04 1.6 0-5.7 3.9 -2.13 10.24
qTBA.C06.1 C06 80.3 79.7-92.2 4.1 5.20 11.00

图3

甘蓝型油菜顶端分枝角和基部分枝角QTL在连锁群上分布图"

表4

在甘蓝型油菜分枝角QTL置信区间比对获得的候选基因"

性状
Trait		 名称
Name		 物理区间
Physical interval		 预测基因
Gene prediction		 拟南芥相关基因 Related genes in A. thaliana 参考文献Reference
基因名 Gene name 登录号 Accession number
BBA qBBA.A01.1 2,992,973-3,391,055 BnaA01g06910D ARF16 AT4G30080 Shen et al.[22]
qBBA.A03.1 3,256,156-4,877,684 BnaA03g08500D VAMP714 AT5G22360 Sun et al.[19]
TBA qTBA.A09.2 963,282-1,890,151 BnaA09g02390D ABCB19/PGP19 AT3G28860 Sun et al.[19]
BnaA09g02480D EXPA5 AT3G29030 Sun et al.[19]
qTBA.C03.1 26,692 780-33,111,760 BnaC03g46000D GH3-10, DFL2 AT4G03400 Shen et al.[22]
BnaC03g46010D GH3-10, DFL2 AT4G03400 Shen et al.[22]
BnaC03g46450D SAUR8 AT2G16580 Shen et al.[22]
BnaC03g46960D SAUR42 AT2G28085 Shen et al.[22]
qTBA.C04.1 1563-990,575 BnaC04g00310D WRK23 AT2G47260 Li et al.[21]
BnaC04g00780D TAC1 AT2G46640 Li et al.[21]
qTBA.C06.1 27,360,890-32,410,130 BnaC06g29230D IAR1 AT1G68100 Li et al.[21]
BnaC06g31170D IAR4 AT1G24180 Li et al.[21]
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