Welcome to Acta Agronomica Sinica，

Acta Agronomica Sinica ›› 2019, Vol. 45 ›› Issue (8): 1200-1207.doi: 10.3724/SP.J.1006.2019.84173

• CROP GENETICS & BREEDING · GERMPLASM RESOURCES · MOLECULAR GENETICS • Previous Articles     Next Articles

Identification of QTL related to seed size in peanut (Arachis hypogaea L.)

ZENG Xin-Ying1,2,GUO Jian-Bin2,ZHAO Jiao-Jiao2,CHEN Wei-Gang2,QIU Xi-Ke2,HUANG Li2,LUO Huai-Yong2,ZHOU Xiao-Jing2,JIANG Hui-Fang2,*(),HUANG Jia-Quan1,*()   

  1. 1 Institute of Tropical Agriculture and Forestry, Hainan University/Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, Haikou 571003, Hainan, China
    2 Oil Crops Research Institute of Chinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture and Rural Affairs, Wuhan 430062, Hubei, China
  • Received:2018-12-18 Accepted:2019-04-15 Online:2019-08-12 Published:2019-07-16
  • Contact: Hui-Fang JIANG,Jia-Quan HUANG E-mail:peanutlab@oilcrops.cn;jqhuang@163.com
  • Supported by:
    This study was supported by the National Natural Science Foundation of China(31461143022);This study was supported by the National Natural Science Foundation of China(31761143005);This study was supported by the National Natural Science Foundation of China(31571713);This study was supported by the National Natural Science Foundation of China(31801403);This study was supported by the National Natural Science Foundation of China(31871666);the Crop Germplasm Resources Protection Project(2017NWB033);the Plant Germplasm Resources Sharing Platform(NICGR2017-36);the China Agriculture Research System(CARS-13-种质资源评价)

RichHTML354

24

PDF

386

Abstract:

Seed size-related traits are the direct factors determining the yield of peanut. To identify the QTL related to seed size-related traits, a recombinant inbred lines (RIL) population (188 progenies) derived from Zhonghua 16 × J11 was used in this study. A genetic linkage map of 947.3 cM in length was constructed, containing 21 linkage groups and 289 SSR markers. Seed size-related traits showed extensive variations in two years’ phenotyping. Between most of the traits with significant correlation. Based on the genetic map, we detected 66 QTL with the explained phenotypic variance (PVE) of 3.23%-33.01% were detected using the WinCart 2.5 software. The number of QTL for seed length (SL), seed width (SW), ratio of seed length to width (LWR) and hundred seed weight (HSW) were 18, 16, 18, and 14, respectively. Notably, the A05A1500-A05A1530 interval on Chromosome A05 harbored three QTL, i.e. qSLA05.1 and qSLA05.2 for SL and qHSWA05.1 for HSW, and the A06B135-A06B113 interval on B06 harbored three QTL as well, i.e. qSWB06.2 and qSWB06.4 for SW and qHSWB06.4 for HSW. These stable and major QTL pave a way for fine mapping of peanut yield-related traits and molecular breeding.

Key words: peanut, genetic mapping, seed size, QTL

Table 1

Statistical analysis of phenotypic traits related to kernels in parents and RIL populations"

年份 Year 性状
Trait		 亲本Parent RIL群体 RIL population
P1 P2 最大值 Max 最小值 Min 平均值 Mean 标准差 SD 变异系数 CV (%) 峰度 Kurtosis 偏度 Skewness
2017 籽仁长 Seed length (mm) 16.85 11.45 18.48 10.84 14.20 1.52 10.73 0.10 0.33
籽仁宽 Seed width (mm) 10.64 8.50 11.80 8.39 9.85 0.62 6.34 -0.24 0.13
百仁重 Hundred seed weight (g) 79.27 32.49 88.49 34.84 59.04 10.39 17.59 0.17 0.28
籽仁长/宽 LWR 1.58 1.35 1.96 1.16 1.45 0.14 9.80 0.31 0.42
2018 籽仁长 Seed length (mm) 17.35 11.08 18.75 10.43 14.59 1.56 10.66 -0.41 0.20
籽仁宽 Seed width (mm) 11.84 8.00 11.35 8.22 9.85 0.59 6.03 -0.23 0.01
百仁重 Hundred seed weight (g) 97.78 33.67 88.24 34.51 62.84 10.49 17.25 -0.04 0.42
籽仁长/宽 LWR 1.48 1.39 1.87 1.14 1.50 0.14 9.63 -0.45 0.11

Fig. 1

Frequency distributions of seed length, seed width, hundred seed weight, and ratio of seed length to width (LWR) in 2017 and 2018"

Fig. 2

Correlationship between seed size-related traits LWR: ratio of seed length to width; SW: seed width; SL: seed length; HSW: hundred seed weight."

Table 2

Analysis of variance of size related traits for peanut kernels"

性状
Trait		 变异项
Variable		 自由度
df		 平方和
SS		 均方
MS		 F值
F-value		 P值
P-value
籽仁长 SL 环境 Environment 1 12.663 12.663 24.956 <0.001
基因型 Genotype 187 788.117 4.215 8.306 <0.001
籽仁宽SW 环境 Environment 1 0.00902 0.00902 0.0564 0.813
基因型 Genotype 187 108.58 0.581 3.627 <0.001
百仁重HSW 环境 Environment 1 1262.256 1262.256 36.178 <0.001
基因型 Genotype 187 35,453.375 189.59 5.434 <0.001
籽仁长宽比LWR 环境 Environment 1 0.164 0.164 35.522 <0.001
基因型 Genotype 187 6.787 0.0363 7.874 <0.001

Fig. 3

Genetic map of peanut"

Table 3

Distribution of SSR markers on the genetic map"

染色体
Chromosome		 长度
Distance		 标记数量
Number of markers		 标记密度
Marker
density
A01 25.95 5 5.19
A02 28.21 11 2.56
A03 46.69 8 5.84
A04a 4.91 4 1.23
A04b 34.12 3 11.37
A05 49.10 13 3.78
A06 64.61 4 16.15
A07 50.62 7 7.23
A08 48.31 5 9.66
A09 79.29 10 7.93
A10 53.13 33 1.61
B01 34.23 12 2.85
B02 42.82 25 1.71
B03 79.83 13 6.14
B04 55.15 13 4.24
B05 36.07 16 2.25
B06 84.17 38 2.21
B07 36.75 29 1.27
B08 29.24 16 1.83
B09 17.12 12 1.43
B10 46.99 12 3.92
合计 Total 947.30 289 3.28

Table 4

QTL repeatedly detected in different environment"

染色体
Chromosome		 年份与性状
Year and trait		 QTL名称
QTL name		 标记区间
Markers interval		 LOD值
LOD value		 贡献率
PVE (%)		 加性效应值
Additive effect
A05 2017 SL qSLA05.2 A05A1500-A05A1530 18.20 33.01 0.8823
2018 SL qSLA05.5 (44.83-46.83 cM) 21.92 32.66 0.8944
2017 HSW qHSWA05.1 11.61 19.67 4.6552
2018 HSW qHSWA05.2 A05A1053-A05A1150 12.55 18.99 4.8211
2017 LWR qLWRA05.1 (32.47-36.25 cM) 7.07 11.03 0.0488
2018 LWR qLWRA05.3 8.42 12.28 0.0516
B06 2017 SL qSLB06.1 A06B467-A06B552 2.72 3.60 0.2951
2018 SL qSLB06.3 (66.2-72.09 cM) 3.87 3.95 0.3124
2017 SW qSWB06.2 A06B135-A06B113 8.53 14.27 0.2376
2018 SW qSWB06.4 (40.82-42.95 cM) 7.64 12.23 0.2273
2018 HSW qHSWB06.4 5.56 7.12 3.1744

Fig. 4

QTL co-localization intervals on A05 and B06"

[1] Gomes R L F, Lopes  C A . Correlations and path analysis in peanut. Crop Breed Appl Biotechnol, 2005,5:105-112.
doi: 10.12702/1984-7033
[2] Selvaraj M G, Narayana M, Schubert A M, Ayers J L, Baring M R, Burow M D . Identification of QTLs for pod and kernel traits in cultivated peanut by bulked segregant analysis. Electron J Biotechnol, 2009,12:13.
[3] Getahun A, Yang X L, He M J, Cui S L, Mu G J, Liu L F . Advances of genetic map construction and QTL mapping in peanut. J Peanut Sci, 2017,46:1-10.
[4] Wilson J N, Chopra R, Baring M R, Selvaraj M G, Simpson C E, Chagoya J, Burow M D . Advanced backcross quantitative trait loci (QTL) analysis of oil concentration and oil quality traits in peanut ( Arachis hypogaea L.). Tropical Plant Biol, 2017,10:1-17.
[5] Wang M L, Khera P, Pandey M K, Wang H, Qiao L X, Feng S P, Tonnis B, Barkley N A, Pinnow D, Holbrook C C, Culbreath A K, Varshney R K, Guo B Z . Genetic mapping of QTLs controlling fatty acids provided insights into the genetic control of fatty acid synthesis pathway in peanut (Arachis hypogaea L.). PLoS One, 2015,10:e0119454.
[6] Khedikar Y P, Gowda M V C, Sarvamangala C, Patgar K V, Upadhyaya H D, Varshney R K . A QTL study on late leaf spot and rust revealed one major QTL for molecular breeding for rust resistance in groundnut (Arachis hypogaea L.). Theor Appl Genet, 2010,121:971-984.
[7] Pandey M K, Wang H, Khera P, Vishwakarma M K, Kale S M, Culbreath A K, Holbrook C C, Wang X J, Varshney R K, Guo B Z . Genetic dissection of novel QTLs for resistance to leaf spots and tomato spotted wilt virus in peanut (Arachis hypogaea L.). Front Plant Sci, 2017,8:25.
[8] Luo H Y, Xu Z J, Li Z D, Li X P, Lv J W, Ren X P, Huang L, Zhou X J, Chen Y N, Yu J Y, Chen W G, Lei Y, Liao B S, Jiang H F . Development of SSR markers and identification of major quantitative trait loci controlling shelling percentage in cultivated peanut (Arachis hypogaea L.). Theor Appl Genet, 2017,130:1635-1648.
[9] Chen Y N, Ren X P, Zheng Y L, Zhou X J, Huang L, Yan L Y, Jiao Y Q, Chen W G, Huang S M, Wan L Y, Lei Y, Liao B S, Huai D X, Wei W H, Jiang H F . Genetic mapping of yield traits using RIL population derived from Fuchuan Dahuasheng and ICG6375 of peanut (Arachis hypogaea L.). Mol Breed, 2017,37:17.
[10] Shirasawa K, Koilkonda P, Aoki K, Hirakawa H, Tabata S, Watanabe M, Hasegawa M, Kiyoshima H, Suzuki S, Kuwata C, Naito Y, Kuboyama T, Nakaya A, Sasamoto S, Watanabe A, Kato M, Kawashima K, Kishida Y, Kohara M, Kurabayashi A, Takahashi C, Tsuruoka H, Wada T, Isobe S . In silico polymorphism analysis for the development of simple sequence repeat and transposon markers and construction of linkage map in cultivated peanut. BMC Plant Biol, 2012,12:80.
[11] Ravi K, Vadez V, Isobe S, Mir R R, Guo Y, Nigam S N, Gowda M V C, Radhakrishnan T, Bertioli D J, Knapp S J, Varshney R K . Identification of several small main-effect QTLs and a large number of epistatic QTLs for drought tolerance related traits in groundnut (Arachis hypogaea L.). Theor Appl Genet, 2011,122:1119-1132.
[12] 王传堂, 黄粤, 杨新道, 姜勇, 张建成, 陈殿绪, 闵平, 禹山林 . 改良CTAB法和高盐低pH值法提取花生DNA的效果. 花生学报, 2002,31:20-23.
Wang C T, Huang Y, Yang X D, Jiang Y, Zhang J C, Chen D X, Min P, Yu S L . Isolation of DNA from peanut: comparison between modified CTAB and high salt, low pH methods. Peanut Sci, 2002,31:20-23 (in Chinese with English abstract).
[13] Chen W G, Jiao Y Q, Cheng L Q, Huang L, Liao B S, Tang M, Ren X P, Zhou X J, Chen Y N, Jiang H F . Quantitative trait locus analysis for pod- and kernel-related traits in the cultivated peanut (Arachis hypogaea L.). BMC Genet, 2016,17:25.
[14] Luo H Y, Ren X P, Li Z D, Xu Z J, Li X P, Huang L, Zhou X J, Chen Y N, Chen W G, Lei Y, Liao B S, Pandey M K, Varshney R K, Guo B Z, Jiang X G, Liu F, Jiang H F . Co-localization of major quantitative trait loci for pod size and weight to a 3.7 cM interval on chromosome A05 in cultivated peanut (Arachis hypogaea L.). BMC Genomics, 2017,18:58.
[15] Luo H Y, Guo J B, Ren X P, Chen W G, Huang L, Zhou X J, Chen Y N, Liu N, Xiong F, Lei Y, Liao B S, Jiang H F . Chromosomes A07 and A05 associated with stable and major QTLs for pod weight and size in cultivated peanut (Arachis hypogaea L.). Theor Appl Genet, 2017,131:267-282.
[16] 李振动, 李新平, 黄莉, 任小平, 陈玉宁, 周小静, 廖伯寿, 姜慧芳 . 栽培种花生荚果大小相关性状QTL定位. 作物学报, 2015,41:1313-1323.
Li Z D, Li X P, Huang L, Ren X P, Chen Y L, Zhou X J, Liao B S, Jiang H F . Mapping of QTLs for pod size related traits in cultivated peanut (Arachis hypogaea L.). Acta Agron Sin, 2015,41:1313-1323 (in Chinese with English abstract).
[1] Zheng Yu-Zhen, Qi Fei-Yan, Sun Zi-Qi, Liu Hua, Qin Li, Shi Lei, Wang Juan, Wang Meng-Meng, Han Suo-Yi, Xu Jing, Miao Li-Juan, Huang Bing-Yan, Dong Wen-Zhao, Zheng Zheng, Zhang Xin-You. QTL mapping of total very long-chain fatty acids and seven fatty acid components in peanut seeds [J]. Acta Agronomica Sinica, 2026, 52(6): 1646-1657.
[2] Lu Yi-Chu, Li Zhen-Ying, Mai Chun-Hai, Zhao Xiao-Rui, Wang Li-Xiang. Positively regulating role of the key evening complex gene AhLUX1 in peanut nodulation [J]. Acta Agronomica Sinica, 2026, 52(6): 1658-1668.
[3] Liu Chang-You, Wang Shen, Shi Hui-Ying, Shen Ying-Chao, Sun Lei, Wang Yan, Zhang Zhi-Xiao, Su Qiu-Zhu, Tian Jing, Fan Bao-Jie. QTL mapping for bruchid resistance in an adzuki bean distant hybridization population using rice bean genetic resources [J]. Acta Agronomica Sinica, 2026, 52(3): 936-944.
[4] Yu Tian-Yi, Wang Chun-Xiao, Xiao Li, Zhong Zhao-Di, Wang Xuan-Cang, Zhao Yong, Lu Ya, Wu Yue, Wu Zheng-Feng. Response of nitrogen accumulation, yield, and quality characteristics of peanut varieties with different nodulation traits to nitrogen fertilizer application rate [J]. Acta Agronomica Sinica, 2026, 52(3): 881-894.
[5] Zhang Sheng-Zhong, Li Guo-Wei, Ge Li-Jiang, Wang Fei-Fei, Hu Xiao-Hui, Miao Hua-Rong, Li Yan, Zhong Wen, Chen Jing. Screening and QTL mapping for mechanical shelling damage related traits in peanut [J]. Acta Agronomica Sinica, 2026, 52(2): 644-652.
[6] Wang Fei-Fei, Zhang Sheng-Zhong, Yang Gui-Hua, Miao Hua-Rong, Hu Xiao-Hui, Zhang Ze-Lin, Liu Sha-Sha, Qiao Li-Xian, Shan Shi-Hua, Chen Jing. Comprehensive evaluation of salt tolerance and identification of elite salt-tolerant germplasm in 331 peanut accessions at seedling stage [J]. Acta Agronomica Sinica, 2026, 52(1): 279-294.
[7] Jin Xin-Xin, Song Ya-Hui, Su Qiao, Yang Yong-Qing, Wang Jin. Growth and dry matter production characteristics of high-yielding, high-oil, and high oleic acid peanut varieties [J]. Acta Agronomica Sinica, 2026, 52(1): 191-201.
[8] Chi Xiao-Yuan, Liu Qing, Zhang Jun, Zhao Xu-Hong, Li Mei, Yu Tian-Yi, Pan Li-Juan, Xu Jing, Jiang Xiao, Yin Xiang-Zhen, Ma Jun-Qing, Chen Na. Field evaluation of salt-alkaline tolerance and trait correlation analysis in different peanut varieties (lines) [J]. Acta Agronomica Sinica, 2026, 52(1): 85-98.
[9] Sun Chen-Shuo, Zhang Yue, Tian Ze-Kai, Yan Li-Ying, Kang Yan-Ping, Chen Yu-Ning, Wang Xin, Huai Dong-Xin, Wang Qian-Qian, Jiang Hui-Fang, Luo Huai-Yong, Huang Li, Liao Bo-Shou, Wang Zhi-Hui, Lei Yong. Genetic differentiation of peg strength and analysis of major influencing factors in peanut germplasm [J]. Acta Agronomica Sinica, 2026, 52(1): 118-130.
[10] ZHANG Fei-Fei, HE Wan-Long, JIAO Wen-Juan, BAI Bin, GENG Hong-Wei, CHENG Yu-Kun. Meta-analysis of stripe rust resistance-associated traits and candidate gene identification in wheat [J]. Acta Agronomica Sinica, 2025, 51(8): 2111-2127.
[11] WAN Shu-Bo, ZHANG Jia-Lei, GAO Hua-Xin, WANG Cai-Bin. Advances and prospects of high-yield peanut cultivation in China [J]. Acta Agronomica Sinica, 2025, 51(7): 1703-1711.
[12] HU Meng, SHA Dan, ZHANG Sheng-Rui, GU Yong-Zhe, ZHANG Shi-Bi, LI Jing, SUN Jun-Ming, QIU Li-Juan, LI Bin. QTL mapping and candidate gene screening for branch number in soybean [J]. Acta Agronomica Sinica, 2025, 51(7): 1747-1756.
[13] SHAO Shun-Wei, CHEN Zhuo, LAN Zhen-Dong, CAI Xing-Kui, ZOU Hua-Fen, LI Chen-Xi, TANG Jing-Hua, ZHU Xi, ZHANG Yu, DONG Jian-Ke, JIN Hui, SONG Bo-Tao. QTL mapping of tuber eye depth based on BSA-seq technique [J]. Acta Agronomica Sinica, 2025, 51(7): 1725-1735.
[14] YANG Hai-Yang, WU Lin-Xuan, LI Bo-Wen, SHI Han-Feng, YUAN Xi-Long, LIU Jin-Zhao, CAI Hai-Rong, CHEN Shi-Yi, GUO Tao, WANG Hui. OsWRI3, identified based on QTL mapping, regulates seed shattering in rice [J]. Acta Agronomica Sinica, 2025, 51(7): 1712-1724.
[15] GUO Teng-Da, CUI Meng-Jie, CHEN Lin-Jie, HAN Suo-Yi, GUO Jing-Kun, WU Chen-Di, FU Liu-Yang, HUANG Bing-Yan, DONG Wen-Zhao, ZHANG Xin-You. Cloning and expression analysis of the phosphatidylinositol transfer protein AhSFH gene in peanuts responsive to Aspergillus flavus infection [J]. Acta Agronomica Sinica, 2025, 51(6): 1489-1500.
Viewed
Full text


Abstract

Cited
  Shared   
  Discussed   
No Suggested Reading articles found!
Add: No. 80 Xueyuan South Rd, Beijing 100081, P. R. China E-mail: zwxb301@caas.cn
Supported by Beijing Magtech Co.Ltd