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| Genome-wide Association Analysis of Maize (Zea mays) Grain Quality Related Traits Based on Four Test Cross Populations |
| GUO Jin-Jie1, *, LIU Wen-Si1, *, ZHENG Yun-Xiao1, LIU Han2, ZHAO Yong-Feng1, ZHU Li-Ying, JIA Xiao-Yan1, CHEN Jing-Tang1, ** |
1 College of Agronomy, Hebei Agricultural University/Hebei Sub-center of National Maize Improvement Center/Key Laboratory for Crop Germplasm Resources of Hebei, Baoding 071000, China;
2 National Maize Improvement Center of China/State Key Laboratory of Agrobiotechnology/China Agricultural University, Beijing 100193, China |
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Abstract Hybrids are used in maize (Zea mays) production.Based on natural populations, recombination inbred line (RIL), doubled haploid (DH), F2, backcrossing (BC) and other traditional loci or regions can only reflect the contemporary genetic effects of F1 indirectly.The genetic effects of F1 could be studied directly by locating the genetic loci or regions of hybrids that control the target traits.In this study, 100 maize inbred lines with rich genetic background were used as female parents, and four lines, Mo17, E28, Zheng58, and Chang7-2 were used as test parents.According to the NCⅡ experiment, 400 hybrids (100 females×4 males) were constructed.Statistical analysis and genome-wide association study (GWAS) of grain quality-related traits, protein (Pro) content, oil content , and lysine (Lys) content, in 4 test cross populations were performed.The kernel quality traits were significant differences in F1, because of the influence of 4 different genetic background test parents.The results showed that the Pro content in the test cross populations with pollens from E28 (E28s) and Chang7-2 (Chang7-2s) was significantly higher than other populations (P<0.05); the oil content in the test cross population with pollens from E28 was significantly higher than other populations (P<0.05); Lys content in the test cross population with pollens from Mo17 (Mo17s) was significantly higher than other populations (P<0.05).For Pro, Oil, and Lys, 2, 5, and 17 significantly associated SNPs were detected in Mo17s, respectively.The phenotype variation range that can be explained by a single locus was 1.99%~21.83%, 1.15%~16.83%, 1.48%~29.91%.And in populations of E28s, Chang7-2s, and Zheng58s, the correspondingly detected SNP loci associated Pro/Oil/Lys were 11/7/54, 8/8/6, and 38/79/11, respectively.The phenotype variation range that can be explained by a single locus was 1.15%~38.60%/4.01%~26.35%/0.25%~46.10%, 7.32%~34.63%/1.25%~8.08%/2.53%~18.64% and 1.07%~61.14%/1.00%~31.04%/1.02%~21.15%, respectively.The total shared SNPs detected for Pro, Oil, and Lys were 7, 2 for Pro, 4 for Oil, and 1 for Lys.The phenotype variation range that could be explained by a single locus was 0.12%~2.51%, 3.18%~11.59%, 0.25%~14.63%.These 7 SNPs were located on the Chr1, Chr4, Chr5, Chr6, Chr9, Chr10 and donated 6 candidate genes.The candidate genes were GRMZM2G143817, GRMZM2G446313, GRMZM2G146346, GRMZM2G104920, GRMZM2G083886, GRMZM2G148400, respectively.These results provided informative references for loci mining associated with maize kernel quality-related traits via QTL mapping or GWAS pathways, and also provided practical references for kernel quality improvement in maize breeding procedures.
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Received: 13 November 2018
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Corresponding Authors:
chenjingtang@126.com
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