AI Chat Paper
Note: Please note that the following content is generated by AMiner AI. SciOpen does not take any responsibility related to this content.
{{lang === 'zh_CN' ? '文章概述' : 'Summary'}}
{{lang === 'en_US' ? '中' : 'Eng'}}
Chat more with AI
Powered by AMiner. Clicking this button will take you away from SciOpen.
Home The Crop Journal Article
PDF (1.1 MB)
Cite
EndNote(RIS) BibTeX
Collect
Submit Manuscript AI Chat Paper
Show Outline
Outline
Show full outline
Hide outline
Outline
Show full outline
Hide outline
Research paper | Open Access

Genome-wide association study of vitamin E in sweet corn kernels

Yingni Xiaoa,1, Yongtao Yua,1, Gaoke Lia,1, Lihua Xiea,b, Xinbo Guob, Jiansheng Lic, Yuliang Lia, Jianguang Hua( )
Crop Research Institute, Guangdong Academy of Agricultural Sciences, Key Laboratory of Crops Genetics and Improvement of Guangdong Province, Guangzhou 510640, Guangdong, China
School of Food Science and Engineering, South China University of Technology, Guangzhou 510641, Guangdong, China
National Maize Improvement Center of China, Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing 100193, China

1 These authors contributed equally to this work.

Peer review under responsibility of Crop Science Society of China and Institute of Crop Science, CAAS.

Show Author Information

Abstract

Vitamin E, consisting of tocopherols and tocotrienols, serves as a lipid-soluble antioxidant in sweet corn kernels, providing nutrients to both plants and humans. Though the key genes involved in the vitamin E biosynthesis pathway have been identified in plants, the genetic architecture of vitamin E content in sweet corn kernels remains largely unclear. In the present study, an association panel of 204 inbred lines of sweet corn was constructed. Seven compounds of vitamin E were quantified in sweet corn kernels at 28 days after pollination. A total of 119 loci for vitamin E were identified using a genome-wide association study based on genotyping by sequencing, and a genetic network of vitamin E was constructed. Candidate genes identified were involved mainly in RNA regulation and protein metabolism. The known gene ZmVTE4, encoding γ-tocopherol methyltransferase, was significantly associated with four traits (α-tocopherol, α-tocotrienol, the α/γ-tocopherol ratio, and the α/γ-tocotrienol ratio). The effects of two causative markers on ZmVTE4 were validated by haplotype analysis. Finally, two elite cultivars (Yuetian 9 and Yuetian 22) with a 4.5-fold increase in the sum of α- and γ-tocopherols were developed by marker-assisted selection, demonstrating the successful biofortification of sweet corn. Three genes (DAHPS, ADT2, and cmu2) involved in chorismate and tyrosine synthesis were significantly associated with the α/γ-tocotrienol ratio. These results shed light on the genetic architecture of vitamin E and may accelerate the nutritional improvement of sweet corn.

Keywords

GBSMarker-assisted selectionGenome-wide association studySweet cornVitamin E

References

[1]

D. DellaPenna, B.J. Pogson, Vitamin synthesis in plants: tocopherols and carotenoids, Annu. Rev. Plant Biol. 57 (2006) 711–738.
Crossref Google Scholar
[2]

S. Péter, A. Friedel, F.F. Roos, A. Wyss, M. Eggersdorfer, K. Hoffmann, P. Weber, A systematic review of global alpha-tocopherol status as assessed by nutritional intake levels and blood serum concentrations, Int, J. Vitam Nutr. Res. 14 (2016) 1–21.
Google Scholar
[3]

M.E. Wright, K.A. Lawson, S.J. Weinstein, P. Pietinen, P.R. Taylor, J. Virtamo, D. Albanes, Higher baseline serum concentrations of vitamin E are associated with lower total and cause-specific mortality in the alpha-tocopherol, beta-carotene cancer prevention study, Am. J. Clin. Nutr. 84 (2006) 1200–1207.
Crossref Google Scholar
[4]
D. DellaPenna, L. Mène-Saffrané, Chapter 5 — Vitamin E, in: F.Rébeilléand, R. Douce (Eds.), Advances in Botanical Research, Elsevier, Amsterdam, the Netherlands 2011, pp. 179–227.
Crossref
[5]

A. Kamal-Eldin, L.A. Appelqvist, The chemistry and antioxidant properties of tocopherols and tocotrienols, Lipids 31 (1996) 671–701.
Crossref Google Scholar
[6]

S.R. Norris, X. Shen, D. DellaPenna, A decade of progress in understanding vitamin E synthesis in plants, J. Plant Physiol. 162 (2005) 729–737.
Crossref Google Scholar
[7]

S.R. Norris, X. Shen, D. DellaPenna, Complementation of the Arabidopsis pds1 mutation with the gene encoding p-hydroxyphenylpyruvate dioxygenase, Plant Physiol. 117 (1998) 1317–1323.
Crossref Google Scholar
[8]

E.B. Cahoon, S.E. Hall, K.G. Ripp, T.S. Ganzke, W.D. Hitz, S.J. Coughlan, Metabolic redesign of vitamin E biosynthesis in plants for tocotrienol production and increased antioxidant content, Nat. Biotechnol. 21 (2003) 1082–1087.
Crossref Google Scholar
[9]

Z. Cheng, S. Sattler, H. Maeda, Y. Sakuragi, D.A. Bryant, D. DellaPenna, Highly divergent methyltransferases catalyze a conserved reaction in tocopherol and plastoquinone synthesis in cyanobacteria and photosynthetic eukaryotes, Plant Cell 15 (2003) 2343–2356.
Crossref Google Scholar
[10]

D. Shintani, D. DellaPenna, Elevating the vitamin E content of plants through metabolic engineering, Science 282 (1998) 2098–2100.
Crossref Google Scholar
[11]

H.E. Valentin, K. Lincoln, F. Moshiri, P.K. Jensen, Q. Qi, T.V. Venkatesh, B. Karunanandaa, S.R. Baszis, S.R. Norris, B. Savidge, K.J. Gruys, R.L. Last, The Arabidopsis vitamin E pathway gene5-1 mutant reveals a critical role for phytol kinase in seed tocopherol biosynthesis, Plant Cell 18 (2006) 212–224.
Crossref Google Scholar
[12]

K. vom Dorp, G. Holzl, C. Plohmann, M. Eisenhut, M. Abraham, A.P. Weber, A.D. Hanson, P. Dormann, Remobilization of phytol from chlorophyll degradation is essential for tocopherol synthesis and growth of Arabidopsis, Plant Cell 27 (2015) 2846–2859.
Crossref Google Scholar
[13]

H. Li, Z. Peng, X. Yang, W. Wang, J. Fu, J. Wang, Y. Han, Y. Chai, T. Guo, N. Yang, J. Liu, M.L. Warburton, Y. Cheng, X. Hao, P. Zhang, J. Zhao, Y. Liu, G. Wang, J. Li, J. Yan, Genome-wide association study dissects the genetic architecture of oil biosynthesis in maize kernels, Nat. Genet. 45 (2013) 43–50.
Crossref Google Scholar
[14]

X. Wang, H. Wang, S. Liu, A. Ferjani, J. Li, J. Yan, X. Yang, F. Qin, Genetic variation in ZmVPP1 contributes to drought tolerance in maize seedlings, Nat. Genet. 48 (2016) 1233–1241.
Crossref Google Scholar
[15]

Q. Yang, Z. Li, W. Li, L. Ku, C. Wang, J. Ye, K. Li, N. Yang, Y. Li, T. Zhong, J. Li, Y. Chen, J. Yan, X. Yang, M. Xu, CACTA-like transposable element in ZmCCT attenuated photoperiod sensitivity and accelerated the postdomestication spread of maize, Proc. Natl. Acad. Sci. U. S. A. 110 (2013) 16969–16974.
Crossref Google Scholar
[16]

C.H. Diepenbrock, C.B. Kandianis, A.E. Lipka, M. Magallanes-Lundback, B. Vaillancourt, E. Gongora-Castillo, J.G. Wallace, J. Cepela, A. Mesberg, P.J. Bradbury, D.C. Ilut, M. Mateos-Hernandez, J. Hamilton, B.F. Owens, T. Tiede, E.S. Buckler, T. Rocheford, C.R. Buell, M.A. Gore, D. DellaPenna, Novel loci underlie natural variation in vitamin E levels in maize grain, Plant Cell 29 (2017) 2374–2392.
Crossref Google Scholar
[17]

Q. Li, X. Yang, S. Xu, Y. Cai, D. Zhang, Y. Han, L. Li, Z. Zhang, S. Gao, J. Li, J. Yan, Genome-wide association studies identified three independent polymorphisms associated with alpha-tocopherol content in maize kernels, PLoS One 7 (2012) e36807.
Crossref Google Scholar
[18]

A.E. Lipka, M.A. Gore, M. Magallanes-Lundback, A. Mesberg, H. Lin, T. Tiede, C. Chen, C.R. Buell, E.S. Buckler, T. Rocheford, D. DellaPenna, Genome-wide association study and pathway-level analysis of tocochromanol levels in maize grain, G3-Genes Genomes Genet. 3 (2013) 1287–1299.
Crossref Google Scholar
[19]

H. Wang, S. Xu, Y. Fan, N. Liu, W. Zhan, H. Liu, Y. Xiao, K. Li, Q. Pan, W. Li, M. Deng, J. Liu, M. Jin, X. Yang, J. Li, Q. Li, J. Yan, Beyond pathways: genetic dissection of tocopherol content in maize kernels by combining linkage and association analyses, Plant Biotechnol. J. 16 (2018) 1464–1475.
Crossref Google Scholar
[20]
W.F. Tracy, Sweet corn, in: A.R. Hallauer (Ed.), SpecialtyCorns, CRC Press, Boca Raton, Florida, USA 2000, pp. 167–210.
[21]

L. Xie, Y. Yu, J. Mao, H. Liu, J.G. Hu, T. Li, X. Guo, R.H. Liu, Evaluation of biosynthesis, accumulation and antioxidant activityof vitamin, E in sweet corn (Zea mays L.) during kernel development, Int. J. Mol. Sci. 18 (2017) 2780.
Crossref Google Scholar
[22]

M. Baseggio, M. Murray, M. Magallanes-Lundback, N. Kaczmar, J. Chamness, E.S. Buckler, M.E. Smith, D. DellaPenna, W.F. Tracy, M.A. Gore, Genome-wide association and genomic prediction models of tocochromanols in fresh sweet corn kernels, Plant Genome 11 (2018) 180038.
Crossref Google Scholar
[23]
D.M. Bates, lme4: Mixed-effects modeling with R, Springer, New York (in preparation), http://lme4.r-forge.r-project.org/book/.
[24]

S. Knapp, W. Stroup, W. Ross, Exact confidence intervals for heritability on a progeny mean basis, Crop Sci. 25 (1985) 192–194.
Crossref Google Scholar
[25]

M.G. Murray, W.F. Thompson, Rapid isolation of high molecular weight plant DNA, Nucleic Acids Res. 8 (1980) 4321–4325.
Crossref Google Scholar
[26]

R.J. Elshire, J.C. Glaubitz, Q. Sun, J.A. Poland, K. Kawamoto, E.S. Buckler, S.E. Mitchell, A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species, PLoS One 6 (2011) e19379.
Crossref Google Scholar
[27]

H. Sonah, M. Bastien, E. Iquira, A. Tardivel, G. Legare, B. Boyle, E. Normandeau, J. Laroche, S. Larose, M. Jean, F. Belzile, An improved genotyping by sequencing (GBS) approach offering increased versatility and efficiency of SNP discovery and genotyping, PLoS One 8 (2013) e54603.
Crossref Google Scholar
[28]

B.L. Browning, S.R. Browning, Genotype imputation with millions of reference samples, Am. J. Hum. Genet. 98 (2016) 116–126.
Crossref Google Scholar
[29]

P. Cingolani, A. Platts, L.L. Wang, M. Coon, T. Nguyen, L. Wang, S.J. Land, X. Lu, D.M. Ruden, A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3, Fly (Austin) 6 (2012) 80–92.
Crossref Google Scholar
[30]

C.C. Chang, C.C. Chow, L.C. Tellier, S. Vattikuti, S.M. Purcell, J.J. Lee, Second-generation PLINK: rising to the challenge of larger and richer datasets, GigaScience 4 (2015) 7.
Crossref Google Scholar
[31]

J.B. Endelman, J.L. Jannink, Shrinkage estimation of the realized relationship matrix, G3-Genes Genomes Genet. 2 (2012) 1405–1413.
Crossref Google Scholar
[32]

P.J. Bradbury, Z. Zhang, D.E. Kroon, T.M. Casstevens, Y. Ramdoss, E.S. Buckler, TASSEL: software for association mapping of complex traits in diverse samples, Bioinformatics 23 (2007) 2633–2635.
Crossref Google Scholar
[33]

J. Yang, S.H. Lee, M.E. Goddard, P.M. Visscher, GCTA: a tool for genome-wide complex trait analysis, Am. J. Hum. Genet. 88 (2011) 76–82.
Crossref Google Scholar
[34]

X. Yang, S. Gao, S. Xu, Z. Zhang, B.M. Prasanna, L. Li, J. Li, J. Yan, Characterization of a global germplasm collection and its potential utilization for analysis of complex quantitative traits in maize, Mol. Breed. 28 (2011) 511–526.
Crossref Google Scholar
[35]

P. Shannon, A. Markiel, O. Ozier, N.S. Baliga, J.T. Wang, D. Ramage, T. Ideker, Cytoscape: a software environment for integrated models of biomolecular interaction networks, Genome Res. 13 (2003) 2498–2504.
Crossref Google Scholar
[36]

M.G. Stacey, S. Koh, J. Becker, G. Stacey, AtOPT3, a member of the oligopeptide transporter family, is essential for embryo development in Arabidopsis, Plant Cell 14 (2002) 2799–2811.
Crossref Google Scholar
[37]

Y.F. Tsay, C.C. Chiu, C.B. Tsai, C.H. Ho, P.K. Hsu, Nitrate transporters and peptide transporters, FEBS Lett. 581 (2007) 2290–2300.
Crossref Google Scholar
[38]

S.C. Hunter, E.B. Cahoon, Enhancing vitamin E in oilseeds: unraveling tocopherol and tocotrienol biosynthesis, Lipids 42 (2007) 97–108.
Crossref Google Scholar
[39]

R.M. Romero, M.F. Roberts, J.D. Phillipson, Chorismate mutase in microorganisms and plants, Phytochemistry 40 (1995) 1015–1025.
Crossref Google Scholar
[40]

H. Maeda, N. Dudareva, The shikimate pathway and aromatic amino acid biosynthesis in plants, Annu. Rev. Plant Biol. 63 (2012) 73–105.
Crossref Google Scholar
[41]
C.H. Foyer, A. Trebst, G. Noctor, Signaling and integration ofdefense functions of tocopherol, ascorbate and glutathione, in: B. Demmig-Adams, W.W.I.I.I. Adams, A.K. Mattoo (Eds.), Photoprotection, Photoinhibition, Gene Regulation, and Environment, Springer, Dordrecht, the Netherlands 2008, pp. 241–268.
Crossref
[42]

M.J. Bae, Y.S. Kim, I.S. Kim, Y.H. Choe, E.J. Lee, Y.H. Kim, H.M. Park, H.S. Yoon, Transgenic rice overexpressing the Brassica juncea gamma-glutamylcysteine synthetase gene enhances tolerance to abiotic stress and improves grain yield under paddy field conditions, Mol. Breed. 31 (2013) 931–945.
Crossref Google Scholar
[43]

M.J. Aranzana, S. Kim, K. Zhao, E. Bakker, M. Horton, K. Jakob, C. Lister, J. Molitor, C. Shindo, C. Tang, C. Toomajian, B. Traw, H. Zheng, J. Bergelson, C. Dean, P. Marjoram, M. Nordborg, Genome-wide association mapping in Arabidopsis thaliana identifies previously known genes responsible for variation in flowering time and pathogen resistance, PLoS Genet. 1 (2005) e60.
Crossref Google Scholar
[44]

X. Huang, Y. Zhao, X. Wei, C. Li, A. Wang, Q. Zhao, W. Li, Y. Guo, L. Deng, C. Zhu, D. Fan, Y. Lu, Q. Weng, K. Liu, T. Zhou, Y. Jing, L. Si, G. Dong, T. Huang, T. Lu, Q. Feng, Q. Qian, J. Li, B. Han, Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm, Nat. Genet. 44 (2012) 32–39.
Crossref Google Scholar
[45]

N. Yang, Y. Lu, X. Yang, J. Huang, Y. Zhou, F. Ali, W. Wen, J. Liu, J. Li, J. Yan, Genome wide association studies using a new nonparametric model reveal the genetic architecture of 17 agronomic traits in an enlarged maize association panel, PLoS Genet. 10 (2014) e1004573.
Crossref Google Scholar
[46]

A. Beló, P. Zheng, S. Luck, B. Shen, D.J. Meyer, B. Li, S. Tingey, A. Rafalski, Whole genome scan detects an allelic variant of fad2 associated with increased oleic acid levels in maize, Mol. Genet. Genomics 279 (2008) 1–10.
Crossref Google Scholar
[47]

Y. Shang, Y. Ma, Y. Zhou, H. Zhang, L. Duan, H. Chen, J. Zeng, Q. Zhou, S. Wang, W. Gu, M. Liu, J. Ren, X. Gu, S. Zhang, Y. Wang, K. Yasukawa, H.J. Bouwmeester, X. Qi, Z. Zhang, W.J. Lucas, S. Huang, Biosynthesis, regulation, and domestication of bitterness in cucumber, Science 346 (2014) 1084–1088.
Crossref Google Scholar
[48]

D.H. Chitwood, A. Ranjan, C.C. Martinez, L.R. Headland, T. Thiem, R. Kumar, M.F. Covington, T. Hatcher, D.T. Naylor, S. Zimmerman, N. Downs, N. Raymundo, E.S. Buckler, J.N. Maloof, M. Aradhya, B. Prins, L. Li, S. Myles, N.R. Sinha, A modern ampelography: a genetic basis for leaf shape and venation patterning in grape, Plant Physiol. 164 (2014) 259–272.
Crossref Google Scholar
[49]

F. Tian, P.J. Bradbury, P.J. Brown, H. Hung, Q. Sun, S. Flint-Garcia, T.R. Rocheford, M.D. McMullen, J.B. Holland, E.S. Buckler, Genome-wide association study of leaf architecture in the maize nested association mapping population, Nat. Genet. 43 (2011) 159–162.
Crossref Google Scholar
[50]

K.L. Kump, P.J. Bradbury, R.J. Wisser, E.S. Buckler, A.R. Belcher, M.A. Oropeza-Rosas, J.C. Zwonitzer, S. Kresovich, M.D. McMullen, D. Ware, P.J. Balint-Kurti, J.B. Holland, Genome-wide association study of quantitative resistance to southern leaf blight in the maize nested association mapping population, Nat. Genet. 43 (2011) 163–168.
Crossref Google Scholar
[51]

J.A. Poland, P.J. Bradbury, E.S. Buckler, R.J. Nelson, Genome-wide nested association mapping of quantitative resistance to northern leaf blight in maize, Proc. Natl. Acad. Sci. U. S. A. 108 (2011) 6893–6898.
Crossref Google Scholar
[52]

P. Beyer, S. Al-Babili, X. Ye, P. Lucca, P. Schaub, R. Welsch, I. Potrykus, Golden rice: introducing the β-carotene biosynthesis pathway into rice endosperm by genetic engineering to defeat vitamin A deficiency, J. Nutr. 132 (2002) 506S–510S.
Crossref Google Scholar
[53]

P. Beyer, Golden Rice and ‘Golden’ crops for human nutrition, New Biotechnol. 27 (2010) 478–481.
Crossref Google Scholar
[54]

J. Yan, C.B. Kandianis, C.E. Harjes, L. Bai, E.H. Kim, X. Yang, D.J. Skinner, Z. Fu, S. Mitchell, Q. Li, M.G. Fernandez, M. Zaharieva, R. Babu, Y. Fu, N. Palacios, J. Li, D. DellaPenna, T. Brutnell, E.S. Buckler, M.L. Warburton, T. Rocheford, Rare genetic variation at Zea mays crtRB1 increases beta-carotene in maize grain, Nat. Genet. 42 (2010) 322–327.
Crossref Google Scholar
[55]

R. Yang, Z. Yan, Q. Wang, X. Li, F. Feng, Marker-assisted backcrossing of lcyE for enhancement of proA in sweet corn, Euphytica 214 (2018).
Crossref Google Scholar
[56]

J. Yu, J.B. Holland, M.D. McMullen, E.S. Buckler, Genetic design and statistical power of nested association mapping in maize, Genetics 178 (2008) 539–551.
Crossref Google Scholar
[57]

A. Korte, A. Farlow, The advantages and limitations of trait analysis with GWAS: a review, Plant Methods 9 (2013) 29.
Crossref Google Scholar
The Crop Journal
Volume 8 Issue 2,
April 2020
Pages 341-350
DOI: 10.1016/j.cj.2019.08.002
Cite this article:
Xiao Y, Yu Y, Li G, et al. Genome-wide association study of vitamin E in sweet corn kernels. The Crop Journal, 2020, 8(2): 341-350. https://doi.org/10.1016/j.cj.2019.08.002

278

Views

5

Downloads

23

Crossref

N/A

Web of Science

25

Scopus

3

CSCD

Altmetrics
Received: 21 February 2019
Revised: 04 July 2019
Accepted: 23 August 2019
Published: 20 October 2019
© 2019 Crop Science Society of China and Institute of Crop Science, CAAS.

This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
Return