Crops ›› 2021, Vol. 37 ›› Issue (6): 36-45.doi: 10.16035/j.issn.1001-7283.2021.06.006

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Detection of QTL for Root Length and Bud Length at Germination Stage in Low Temperature Using CSSLs in Rice (Oryza sativa)

Yu Meixia1(), Deng Haodong1(), Tan Jing’ai1, Song Guiting1, Wu Guangliang1, Chen Liping1, Liu Ruiqi1, Zhou Andong1, He Haohua1,2, Bian Jianmin1,2()   

  1. 1Key Laboratory of Crop Physiology, Ecology and Genetic Breeding (Jiangxi Agricultural University), Ministry of Education/Jiangxi Province, Nanchang 330045, Jiangxi, China
    2Jiangxi Super Rice Engineering Technology Research Center, Nanchang 330045, Jiangxi, China
  • Received:2020-12-14 Revised:2021-01-01 Online:2021-12-15 Published:2021-12-16
  • Contact: Bian Jianmin E-mail:1873831573@qq.com;1303051137@qq.com;jmbian81@126.com

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Abstract:

The growth and development of roots and shoots have an important influence on yield. In order to explore the quantitative trait loci (QTL) affecting root length and bud length in bud bursting period under different temperature treatments, the chromosome segment substitution lines (CSSLs) population of 9311 (recipient)/Nipponbare (donor) used as the experimental materials. The germinated seeds were treated at 15℃ for seven days and then recovery grew at 25℃ for seven days. During the recovered period, 10 seeds were randomly selected to measure root length and bud length. After the treatments, the QTL associated with root length and bud length were detected by the CSSLs population. Under 15℃ treatments, nine QTLs affecting root length were detected, the range of contribution rates was 8.65%-24.35%. qRL15T7.2, and qRL15T10.3 were repeatedly detected at different periods of root growth; nine QTL affecting the bud length at 15℃ were detected, and the explained phenotypic variations were from 1.73% to 28.89%, qBL15T6, qBL15T7, qBL15T9, and qBL15T10 were repeatedly detected at different periods of bud growth; Under 25℃ treatments, nine QTL affecting the root length were located, the range of contribution rates was 1.73%-28.89%, qRL25T7, qRL25T9.3, qRL25T10, and qRL25T12 were repeatedly detected; five QTL affecting bud length were detected, and the contribution rates were 0.58%-38.26%, only qBL25T3.3 was repeatedly detected at different periods of bud growth. Four recombination bin markers were located on chromosomes 2, 7, 9, 10, also affected different traits at the same temperature or different traits at different temperatures. The results showed that the QTL affecting root length and bud length were different under different treatments. The results suggest that the genetic mechanism of controlling the growth of roots and buds at the bud stage of rice under low temperature may be different from under normal temperature.

Key words: Rice, Root length, Bud length, QTL, CSSLs

Table 1

The bin marker numbers and genetic distance between adjacent bins Mb"

染色体
Chromosome		 标记数目
Number
of marker		 平均距离
Mean
distance		 最小距离
Minimum
distance		 最大距离
Maximum
distance
1 68 0.64 0.10 3.40
2 64 0.56 0.10 2.90
3 59 0.62 0.10 3.45
4 69 0.52 0.10 4.70
5 47 0.64 0.10 3.60
6 37 0.82 0.10 12.85
7 52 0.57 0.10 2.30
8 34 0.84 0.15 8.90
9 33 0.68 0.15 1.85
10 59 0.40 0.10 1.00
11 76 0.38 0.10 2.50
12 57 0.47 0.10 2.95

Fig.1

Graphical genotypes of the CSSLs Black indicates genotypes for Nipponbare, white indicates genotypes for 9311"

Table 2

Phenotype analysis of root length and bud length under two temperatures of their parents and CSSL population"

温度
Temperature		 性状
Trait		 生长天数
Growth
day (d)		 亲本Parents CSSL群体CSSL population
9311
(cm)		 日本晴
Nipponbare (cm)		 均值
Mean (cm)		 标准误
Standard error		 偏度
Skewness		 峰度
Kurtosis		 最小值
Minimum (cm)		 最大值
Maximum (cm)
15°C 根长 1 2.27 1.62** 2.54 1.03 0.55 -0.38 0.58 4.90
2 2.69 2.00* 3.57 1.12 0.27 -0.78 1.18 5.97
3 2.95 2.43 4.33 1.23 0.02 -0.67 1.23 6.93
4 2.87 2.33 4.87 1.28 -0.13 -0.60 1.46 7.81
5 2.70 2.43 5.34 1.28 -0.68 1.54 0.00 8.08
6 2.60 2.33 5.89 1.33 -1.06 2.46 0.00 8.48
7 2.73 2.51 6.21 1.39 -1.12 2.74 0.00 9.41
芽长 1 2.45 2.01 1.66 0.59 0.95 -0.37 0.90 3.16
2 3.07 3.08 2.92 0.48 -0.16 -0.11 1.67 3.88
3 3.38 3.40 3.93 0.46 -1.39 3.55 2.05 4.87
4 3.59 3.46 4.50 0.48 -1.53 5.40 2.41 5.60
5 3.67 4.29 4.75 0.63 -4.01 27.71 0.00 5.85
6 3.69 5.25** 5.04 0.71 -2.87 23.19 0.00 7.66
7 4.13 5.53** 5.56 0.91 -1.37 12.57 0.00 9.07
25°C 根长 1 0.43 0.00** 0.40 0.33 0.32 -1.21 0.00 1.07
2 1.40 0.28** 1.83 0.90 0.05 -1.11 0.20 3.62
3 2.74 1.61** 3.18 1.17 -0.06 -0.92 0.92 5.70
4 3.75 2.49** 3.96 1.14 -0.31 -0.79 1.47 6.21
5 4.50 3.88 4.75 1.22 -0.44 -0.77 2.08 6.94
6 5.49 4.60 5.24 1.17 -0.62 -0.22 1.87 7.28
7 6.26 5.71 5.74 1.13 -0.46 -0.42 2.64 7.81
芽长 1 0.20 0.00 0.25 0.15 4.44 25.49 0.08 1.18
2 0.82 0.25 0.81 0.29 2.48 10.67 0.39 2.33
3 1.40 0.73* 1.58 0.43 0.68 0.32 0.90 3.06
4 2.44 1.02** 2.29 0.54 0.27 -0.69 1.19 3.77
5 3.09 2.06** 3.14 0.63 0.44 0.92 1.62 5.55
6 3.72 2.76** 3.76 0.61 -0.08 -0.48 2.26 5.12
7 4.02 3.68 4.19 0.56 -0.55 0.27 2.43 5.29

Fig.2

Phenotypic distribution of CSSL population at 15℃ and 25℃"

Table 3

QTL mapping for root length and bud length under two temperatures using CSSL population at different stages of sprout growth"

温度
Temperature		 性状
Trait		 生长天数
Growth day (d)		 染色体
Chromosome		 QTL 连锁标记
Linkage marker		 LOD值
LOD value		 加性效应
Additive effect		 贡献率
Contribution rate (%)
15°C 根长 1 2 qRL15T2.1 chr2-bin113 3.07 0.69 11.42
7 7 qRL15T7.1 chr7-bin385 3.23 -1.15 8.66
4 qRL15T7.2 chr7-bin387 2.66 -1.03 8.68
6 3.84 -1.25 11.92
3 qRL15T7.3 chr7-bin393 3.01 -0.75 9.58
1 10 qRL15T10.1 chr10-bin501 2.75 -0.61 10.17
4 qRL15T10.2 chr10-bin504 4.08 -1.16 13.73
3 qRL15T10.3 chr10-bin505 4.41 -1.28 14.46
6 5.36 -1.50 17.17
7 qRL15T10.4 chr10-bin507 8.27 -2.21 24.36
5 qRL15T10.5 chr10-bin510 4.12 -1.12 15.61
芽长 1 1 qBL15T1 chr1-bin11 5.24 0.66 17.05
1 2 qBL15T2 chr2-bin113 3.59 0.41 11.08
3 3 qBL15T3.1 chr3-bin135 4.51 -0.86 13.82
3 qBL15T3.2 chr3-bin154 2.79 -0.47 8.22
5 6 qBL15T6 chr6-bin339 25.36 2.31 19.50
6 16.24 1.92 14.72
2 7 qBL15T7 chr7-bin393 2.70 -0.30 10.60
3 5.55 -0.35 17.37
4 3.67 -0.35 13.69
5 8 qBL15T8 chr8-bin425 3.68 0.69 1.73
6 9 qBL15T9 chr9-bin448 3.27 0.61 2.22
7 2.96 0.95 11.54
4 10 qBL15T10 chr10-bin507 2.57 -0.43 8.55
5 31.09 -2.22 26.92
6 27.73 -2.19 28.90
25°C 根长 4 1 qRL25T1 chr1-bin52 2.93 -0.92 6.03
5 7 qRL25T7 chr7-bin345 3.07 -0.73 6.04
6 3.56 -0.94 10.76
5 8 qRL25T8.1 chr8-bin415 2.56 -1.06 5.22
4 qRL25T8.2 chr8-bin430 5.13 -1.25 11.08
6 9 qRL25T9.1 chr9-bin439 2.83 -0.72 8.43
5 qRL25T9.2 chr9-bin448 4.37 -1.16 9.24
2 qRL25T9.3 chr9-bin459 3.32 -0.68 10.24
3 3.31 -0.93 12.82
4 5.84 -0.96 12.80
5 4.28 -0.82 9.03
4 10 qRL25T10 chr10-bin495 4.47 -0.83 9.51
5 5.84 -0.98 12.74
6 3.10 -0.81 9.28
4 12 qRL25T12 chr12-bin599 3.11 -0.95 6.43
5 4.47 -1.18 9.48
芽长 1 3 qBL25T3.1 chr3-bin136 45.91 -0.46 29.14
1 qBL25T3.2 chr3-bin138 51.60 0.47 38.26
1 qBL25T3.3 chr3-bin147 21.86 0.46 7.53
2 7.17 0.77 25.74
3 2.70 0.75 10.59
5 qBL25T3.4 chr3-bin186 3.52 1.22 13.60
1 11 qBL25T11 chr11-bin596 2.59 0.06 0.58

Fig.3

Distribution of QTL related root length and bud length on genetic map under two temperature treatments of CSSL population"

Table 4

Chromosomal markers corresponding to regions with pleiotropic effects on traits"

染色体
Chromosome		 连锁标记
Linkage
marker		 物理位置
Physical location
(Mb)		 影响性状Affected trait
15℃ 25℃
2 bin113 19.75~20.75 根长、芽长
7 bin393 28.25~28.70 根长、芽长
9 bin448 11.15~12.45 芽长 根长
10 bin507 15.75~17.20 根长、芽长
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