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Acta Agronomica Sinica ›› 2020, Vol. 46 ›› Issue (9): 1380-1387.doi: 10.3724/SP.J.1006.2020.94200

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

Association analysis of dormancy QTL in tetraploid potato via candidate gene markers

LI Jing-Cai1,2(), WANG Qiang-Lin3, SONG Wei-Wu4, HUANG Wei1, XIAO Gui-Lin1, WU Cheng-Jin4, GU Qin2, SONG Bo-Tao1,*()   

  1. 1 College of Horticulture and Forestry Sciences, Huazhong Agricultural University / Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs / Key Laboratory of Horticultural Plant Biology, Ministry of Education, Wuhan 430070, Hubei, China
    2 College of Biology and Agricultural Resources, Huanggang Normal University / Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains / Hubei Key Laboratory of Economic Forest Germplasm Improvement and Resources Comprehensive Utilization, Huanggang 438000, Hubei, China
    3 Huanggang Modern Agriculture Exhibition and Information Center, Huanggang 438000, Hubei, China
    4 Academy of Agricultural Sciences of Enshi Tujia and Miao Autonomous Prefecture, Enshi 445000, Hubei, China
  • Received:2019-12-18 Accepted:2020-03-24 Online:2020-09-12 Published:2020-04-17
  • Contact: Bo-Tao SONG E-mail:lijingcai@hgnu.edu.cn;songbotao@mail.hzau.edu.cn
  • Supported by:
    China Agriculture Research System (Potato)(CARS-09-P07);Natural Science Foundation of Hubei Province(2017CFB547);Innovative Training Program for College Students of the Ministry of Education(201510514006)

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Abstract:

Dormancy is one of the prominent and important potato (Solanum tuberosum L.) tuber traits. Identifying the key genes regulated potato tuber dormancy and revealing its molecular mechanism to select potato varieties with desirable dormancy length are crucial to solve the economic losses and food safety issues due to the unsuitable dormancy length in potato industry. Previously, six additive dormancy QTLs were mapped in a linkage population of diploid potato. This study aimed to verify these QTLs in tetraploid potato breeding germplasm. Based on the candidate gene markers linked to the dormancy QTLs, we used a mixed linear model (MLM), taking the population structure and genetic relationship (Q+K) into account to conduct the association analysis of potato tuber dormancy in a natural tetraploid potato population St-hzau. The candidate gene markers S199_300 and GWD (derived from α-glucan water dikinase gene) linked to QTL DorB5.3 on chromosome 5 showed significant association with potato tuber dormancy (P < 0.05), which explained 7.8% and 3.2% of the phenotypic variation, respectively. The two markers could increase the dormancy length by 7.1 d and 4.5 d, respectively, revealing that the main effect of dormancy QTL DorB5.3 in the linkage population of diploid potato was also significant in the natural tetraploid potato population St-hzau. So the stability of DorB5.3 was validated in the association analysis, showing that the candidate gene marker strategy is an effective strategy in QTL association analysis of potato tuber dormancy. The major dormancy QTL DorB5.3 and corresponding linkage markers verified in this study could be directly used in potato dormancy breeding. According to the results, it could be proposed that GWD might play a role in controlling reducing-sugar content and dormancy of potato tuber, indicating a mechanism crosstalk between potato tuber dormancy and reducing-sugar content.

Key words: Solanum tuberosum, dormancy, QTL, candidate gene, association analysis

Table 1

Planting and harvest dates of potato association population St-hzau in three environments"

环境
Environment		 地点
Location		 种植日期
Planting date		 收获日期
Harvest date
I 武汉Wuhan 2015-01-15 2015-05-20
II 武汉Wuhan 2016-01-22 2016-06-04
III 长阳Changyang 2016-03-10 2016-07-20

Table 2

Marker primers for candidate genes"

引物名称a
Primer name a		 染色体
Chr.		 连锁QTL
Linked QTL		 上游引物
Forward primer (5°-3°)		 下游引物
Reverse primer (5°-3°)		 退火温度
Annealing
temperature (℃)
S199 Chr05 DorB5.3 TGCCTACTGCCCAAAACATT ACTGGCTGGGAAGCATACAC 55
GWD Chr05 DorB5.3 TCCATCCTGAGACTGGAGATAC ACTTGTACTGCAGGACTGGAAG 60
G6pt Chr05 DorB5.3 GGCTCACACAATTGGTCATGTG CCAAGATTGCAATAGCAGCACC 60
s1939 Chr05 DorB5.3 TGAGATACTTTGTGTGCTCC AAATTGGTTTTCCAGATTGA 56
STI058 Chr05 DorB5.3 CAAGCACGTTACAACAAGCAA TTGAAGCATCACATACACAAACA 60-54
FK Chr06 DorB6.3 GCTTTGGCGTTCGTGACTCTAC AGTGGTGTCAACAGTCTTCACG 60
S1711 Chr06 DorE6.17 TTCTTCAGGGTCCTCTTTCGG AGTGCTTCCTCGCATGGGATT 67
S1614 Chr06 DorE6.17, DorE6.19 TCGTGGGTCAAGGTTGTTCAT ATGGTGGATTAGACCTAGTTGCTG 65
Dpe-P Chr04 DorE4.6 CACTACTTTTCAATCTCCTATCCC GCATAGTCACGAACTTTTTTCC 56
α-Glu Chr04 DorE4.6 ACCAAGCTGTGGTTAACCAGAG GCAGTTGCGAATAACTGTGGCA 60
Ppe Chr03 DorB3.17 TCCGTCCATCCTTTCTGCTAAC AACTCCACCATCAACTTCAATC 57

Fig. 1

Phenotypic distributions of potato tuber dormancy in the association population St-hzau In the figure, I, II, and III correspond to the three field environments listed in Table 1, respectively."

Table 3

Dormancy length of potato tubers in the three environments"

环境a
Environment a		 块茎发芽起始日期
First sprouting date		 平均值
Mean		 标准差
Standard deviation		 方差
Variance		 偏度
Skewness		 峰度
Kurtosis
I 2015-07-01 86.413 21.032 432.721 0.077 0.843
II 2016-07-10 68.000 12.000 134.400 0.181 -0.783
III 2016-08-26 85.963 15.647 240.295 0.382 -0.456

Fig. 2

Population structure of St-hzau The association population St-hzau was divided into three sub-populations."

Fig. 3

Candidate gene markers and potato tuber dormancy QTL Chr04E on the top of the first group indicates chromosome 4 of the maternal parent ED25 (E) and Chr03B indicates chromosome 3 of the paternal parent S. berthaultii acc. CW2-1 (B). The unit of the scale on the far left is cM for linkage groups. Chromosomes without dormancy QTL were omitted and they could be found in the research of Xiao et al. [23] The markers are on the right and locations of dormancy QTLs are on the left of the groups. Significant markers on Chr05B associated with tuber dormancy in potato association population St-hzau are highlighted by [*]. Other candidate gene markers are underlined."

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