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Araújo, W.L., Martins, A.O., Fernie, A.R., Tohge, T. (2014) 2-Oxoglutarate: linking TCA cycle function with amino acid, glucosinolate, flavonoid, alkaloid, and gibberellin biosynthesis. Front. Plant. Sci. 5:552. Baydar, N.G., Akkurt, M. (2001). Oil content and oil quality properties of some grape seeds. Turk. J. Agric. For. 25:163–168 Bonaventure, G., Salas, J.J., Pollard, M.R., Ohlrogge, J.B. (2003) Disruption of the FATB gene in Arabidopsis demonstrates an essential role of saturated fatty acids in plant growth. Plant Cell 15:1020–1033. Chang, F., Guo, C., Sun, F., Zhang, J., Wang, Z., Kong, J., He, Q., Sharmin, R.A., Zhao, T. (2018) Genome-wide association studies for dynamic plant height and number of nodes on the main stem in summer sowing soybeans. Front. Plant Sci. 9: 1184. Chapman, K.S., Berry, J.A., Hatch, M.D. (1980) Photosynthetic metabolism in bundle sheath cells of the C4 species Zea mays: sources of ATP and NADPH and the contribution of photosystem II. Arch. Biochem. Biophys. 202:330–341. Charron, C.S., Allen, F.L., Johnson, R.D., Pantalone, V.R., Sams, C.E. (2005) Correlations of oil and protein with isoflavone concentration in soybean [Glycine max (L.) Merr.]. J. Agric. Food Chem. 53:7128–7135. Chaudhary, J., Patil. G.B., Sonah, H., Deshmukh, R.K., Vuong, T.D., Valliyodan, B., Nguyen, H.T. (2015) Expanding omics resources for improvement of soybean seed composition traits. Front. Plant Sci. 6:1021. Chen, B., Wang, J., Zhang, G., Liu, J., Manan, S., Hu, H., Zhao, J. (2016) Two types of soybean diacylglycerol acyltransferases are differentially involved in triacylglycerol biosynthesis and response to environmental stresses and hormones. Sci. Rep. 6:28541. Chen, L., Chen, X.W., Huang, X., Song, B.L., Wang, Y., Wang, Y.G. (2019) Regulation of glucose and lipid metabolism in health and disease. Sci. China Life Sci. 62(11):1420–1458. Chen, H., Zou, Y., Shang, Y., Lin, H., Wang, Y., Cai, R., Tang, X., Zhou, J.M. (2008) Firefly luciferase complementation imaging assay for protein-protein interactions in plants. Plant Physiol. 146:368–376. Chen, L., Zheng, Y., Dong, Z., Meng, F., Sun X., Fan, X., Zhang, Y., Wang, M., Wang, S. (2017) Soybean (Glycine max) WRINKLED1 transcription factor, GmWRI1a, positively regulates seed oil accumulation. Mol. Genet. Genomics 293:401–415. Chen, W., Gao, Y., Xie, W., Gong, L., Lu K., Wang, W., Li, Y., Liu, X., Zhang, H., Dong, H., et al. (2014) Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism. Nat. Genet. 46:714–721. Chen, W., Wang, W., Peng, M., Gong, L., Gao, Y., Wan, J., Wang, S., Shi, L., Zhou, B., Li, Z., et al. (2016) Comparative and parallel genome-wide association studies for metabolic and agronomic traits in cereals. Nat. Commun. 7:12767. Diebold, R., Schuster, J., Daschner, K., Binder, S. (2002) The branched-chain amino acid transaminase gene family in Arabidopsis encodes plastid and mitochondrial proteins. Plant Physiol. 129:540–550. Dong, X., Gao, Y., Chen, W., Wang, W., Gong, L., Liu, X., Luo, J. (2015) Spatio-temporal distribution of phenolamides and the genetics of natural variation of hydroxycinnamoyl spermidine in rice. Mol. Plant 8:111–121. Eastmond, P.J., Dennis, D.T., Rawsthorne, S. (1997) Evidence that a malate/inorganic phosphate exchange translocator imports carbon across the leucoplast envelope for fatty acid synthesis in developing castor seed endosperm. Plant Physiol. 114:851–856. Fan, J., Li, R. (2001) Variable selection via nonconcave penalized likelihood and its oracle properties. J. Amer. Statist. Assoc. 96:1348–1360. Fan, J., Yan, C., Xu, C. (2013) Phospholipid: diacylglycerol acyltransferase-mediated triacylglycerol biosynthesis is crucial for protection against fatty acid-induced cell death in growing tissues of Arabidopsis. Plant J. 76: 930–942. Fang, C., Ma, Y., Wu, S., Liu, Z., Wang, Z., Yang, R., Hu, G., Zhou, Z., Yu, H., Zhang, M., et al. (2017) Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean. Genome Biol. 18: 161. Feng, Y., Zhang, Y., Wang, Y., Liu, J., Liu, Y., Cao, X., Xue, S. (2018) Tuning of acyl-ACP thioesterase activity directed for tailored fatty acid synthesis. Appl. Microbiol. Biotechnol. 102:3173–3182. Fiehn, O. (2002) Metabolomics — The link between genotypes and phenotypes. Functional Genomics 48: 155–171. Ge, L., Yu, J., Wang, H., Luth, D., Bai, G., Wang, K., Chen, R. (2016) Increasing seed size and quality by manipulating BIG SEEDS1 in legume species. Proc. Natl. Acad. Sci. U S A 113:12414–12419. Giberti, S., Funck, D., Forlani, G. (2014) Δ1-Pyrroline-5-carboxylate reductase from Arabidopsis thaliana: stimulation or inhibition by chloride ions and feedback regulation by proline depend on whether NADPH or NADH acts as co-substrate. New Phytol. 202: 911–920. Goto, D.B., Naito, S. (2002) AtMRD1 and AtMRU1, two novel genes with altered mRNA levels in the methionine over-accumulating mto1-1 mutant of Arabidopsis thaliana. Plant Cell Physiol. 43:923–931. Guo, Y., Xu, J., Han, M., Zhang, W. (2015) Generation of mutant threonine dehydratase and its effects on isoleucine synthesis in Corynebacterium glutamicum. World J. Microbiol. Biotechnol. 31:1369–1377. He, L., Xiao, J., Rashid, K.Y., Yao, Z., Li, P., Jia, G., Wang, X., Cloutier, S., You, F.M. (2018) Genome-wide association studies for pasmo resistance in Flax (Linum usitatissimum L.). Front. Plant Sci. 9: 1982. Hwang, E.Y, Song, Q., Jia, G., Specht, J.E., Hyten, D.L., Costa, J., Cregan, P.B. (2014). A genome-wide association study of seed protein and oil content in soybean. BMC Genomics 15:1. Huang, S., Taylor, N.L., Ströher, E., Fenske, R., Millar, A.H. (2013) Succinate dehydrogenase assembly factor 2 is needed for assembly and activity of mitochondrial complex ii and for normal root elongation in Arabidopsis. Plant J. 733:429–441. Accepted Article Jako, C., Kumar, A., Wei, Y., Zou, J., Barton, D.L., Giblin, E.M., Covello, P.S., Taylor, D.C. (2001) Seed-specific over-expression of an Arabidopsis cDNA encoding a diacylglycerol acyltransferase enhances seed oil content and seed weight. Plant Physiol. 126: 861–874. Jasieniecka-Gazarkiewicz, K., Lager, I., Carlsson, A.S., Gutbrod, K., Peisker, H., Dörmann, P., Stymne, S., Banaś, A. (2017) Acyl-CoA:Lysophosphatidylethanolamine acyltransferase activity regulates growth of Arabidopsis. Plant Physiol. 174(2):986–998. Jensen, L.J., Kuhn, M., Stark, M., Chaffron, S., Creevey, C., Muller, J., Doerks, T., Julien, P., Roth, A., Simonovic, M., et al. (2009) STRING 8--a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res. 37:412–416. Katavic, V., Shi, L., Yu, Y., Zhao, L., Haughn, G.W., Kunst, L. (2014) Investigation of the contribution of oil biosynthetic enzymes to seed oil content in brassica napus and Arabidopsis thaliana. Can. J. Plant Sci. 94: 1109–1112. La Camera, S., Balagué, C., Göbel, C., Geoffroy, P., Legrand, M., Feussner, I., Roby, D., Heitz, T. (2009) The Arabidopsis patatin-like protein 2 (PLP2) plays an essential role in cell death execution and differentially affects biosynthesis of oxylipins and resistance to pathogens. Mol. Plant Microbe Interact. 22:469–481. Lardizabal, K., Effertz, R., Levering, C., Mai J., Pedroso, M.C., Jury, T., Aasen, E., Gruys, K., Bennett, K. (2008) Expression of Umbelopsis ramanniana DGAT2A in seed increases oil in soybean. Plant Physiol. 148:89–96. Leamy, L.J, Zhang, H, Li, C, Chen, C.Y., Song, B.H. (2017) A genome-wide association study of seed composition traits in wild soybean (Glycine soja). BMC Genomics 18(1):18. Lemaitre, T., Hodges, M. (2006) Expression analysis of Arabidopsis thaliana NAD- dependent isocitrate dehydrogenase genes shows the presence of a functional subunit that is mainly expressed in the pollen and absent from vegetative organs. Plant Cell Physiol. 47: 634–643. Li, C., Fu, Y., Sun, R., Wang, Y., Wang, Q. (2018) Single-locus and multi-locus genome-wide association studies in the genetic dissection of fiber quality traits in upland cotton (Gossypium hirsutum L.). Front. Plant Sci. 9: 1083. Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R. (2009) The sequence alignment/map format and SAMtools. Bioinformatics 25: 2078–2079. Li, K., Wang, D., Gong, L., Lyu, Y., Guo, H., Chen, W., Jin, C., Liu, X., Fang, C., Luo, J. (2019). Comparative analysis of metabolome of rice seeds at three developmental stages using a recombinant inbred line population. Plant J. 100: 908–922. Li, Q.T., Lu, X., Song, Q.X., Chen, H.W., Wei, W., Tao, J.J., Bian, X.H., Shen, M., Ma, B., Zhang, W.K., et al. (2017) Selection for a zinc-finger protein contributes to seed oil increase during soybean domestication. Plant Physiol. 173:2208–2224. Li, X.Z., Gao, Q.S., Yan, C.G., Choi, S.H., Shin, J.S., Song, M.K. (2015) Conjugated fatty acids and methane production by rumen microbes when incubated with linseed oil alone or mixed with fish oil and/or malate. Anim. Sci. J. 86:755–764. Li, Y., Beisson, F., Koo, A.J., Molina, I., Pollard, M., Ohlrogge, J. (2007) Identification of acyltransferases required for cutin biosynthesis and production of cutin with suberin-like monomers. Proc. Natl. Acad. Sci. U S A 104:18339–18344. Liaw, A. and Wiener, M. (2002) Classification and regression by randomForest. R News 2, 18–22. Li-Beisson, Y., Shorrosh, B., Beisson, F., Andersson, M.X., Arondel, V., Bates, P.D., Baud, S., Bird, D., DeBono, A., Durrett, T.P., et al. (2013) Acyl-Lipid metabolism. Arabidopsis Book 11:e0161 Lin, J.S. and Lai, E.M. (2017) Protein-Protein Interactions, Co-Immunoprecipitation. Methods Mol. Biol. 1615:211–219. Lindqvist, Y., Huang, W., Schneider, G., Shanklin, J. (1996) Crystal structure of delta9 stearoyl-acyl carrier protein desaturase from castor seed and its relationship to other di-iron proteins. EMBO J. 15:4081–4092. Lisec, J., Schauer, N., Kopka, J., Willmitzer, L., Fernie, A.R. (2006) Gas chromatography mass spectrometry-based metabolite profiling in plants. Nat. Protoc. 10:387–396. Liu, J.Y. (2020) Genetic network of seed oil-related traits and functional analysis of gene GmPDAT in soybean (Glycine max) [D]. Nanjing Agricultural University. Liu, L., Shah, S., Fan, J., Park, J.O., Wellen, K.E., Rabinowitz, J.D. (2016) Malic enzyme tracers reveal hypoxia-induced switch in adipocyte NADPH pathway usage. Nat. Chem. Biol. 12:345–352. Liu, Y.F., Li, Q.T., Lu, X., Song, Q.X., Lam, S.M., Zhang, W.K., Ma, B., Lin, Q., Man, W.Q., Du, W.G., et al. (2014) Soybean GmMYB73 promotes lipid accumulation in transgenic plants. BMC Plant Biology 14:73–89. López-Castillo, L.M., Jiménez-Sandoval, P., Baruch-Torres, N., Trasviña-Arenas, C.H., Díaz-Quezada, C., Lara-González, S., Winkler, R., Brieba, L.G. (2016) Structural basis for redox regulation of cytoplasmic and chloroplastic triosephosphate isomerases from Arabidopsis thaliana. Front. Plant Sci. 7:1817. Lü, S., Song, T., Kosma, D.K., Parsons, E.P, Rowland, O., Jenks, M.A. (2009) Arabidopsis CER8 encodes LONG-CHAIN ACYL-COA SYNTHETASE 1 (LACS1) that has overlapping functions with LACS2 in plant wax and cutin synthesis. Plant J. 59:553–564. Lu, X., Li, Q.T., Xiong, Q., Li, W., Bi, Y.D., Lai, Y.C. Liu, X.L., Man, W.Q., Zhang, W.K., Ma, B., et al. (2016) The transcriptomic signature of developing soybean seeds reveals the genetic basis of seed trait adaptation during domestication. Plant J. 86:530–544. Manan, S., Ahmad, M.Z., Zhang, G., Chen, B., Haq, B.U., Yang, J., Zhao, J. (2017) Soybean LEC2 regulates subsets of genes involved in controlling the biosynthesis and catabolism of seed storage substances and seed development. Front. Plant Sci. 8:1604. Marques, M.A.S., Pereira, H.M.G., de Aquino Neto, F.R. (2006) Improvements in steroid screening in doping control with special emphasis to GC-MS analytical conditions and method validation. J. Braz. Chem. Soc. 17:382–392. Accepted Article Meng, S., He, J., Zhao, T., Xing, G., Li, Y., Yang, S., Lu, J., Wang, Y., Gai, J. (2016) Detecting the QTL-allele system of seed isoflavone content in Chinese soybean landrace population for optimal cross design and gene system exploration. Theor. Appl. Genet. 129:1557–1576. Moreno-Pérez, A.J., Venegas-Calerón, M., Vaistij, F.E., Salas, J.J., Larson, T.R., Garcés, R., Graham, I.A., Martínez-Force, E. (2012) Reduced expression of FatA thioesterases in Arabidopsis affects the oil content and fatty acid composition of the seeds. Planta 235: 629–639. Mortazavi, A., Williams, B.A., McCue, K., Schaeffer, L., Wold, B. (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat. Methods 5:621–628. Murad, A.M., Vianna, G.R., Machado, A.M., da Cunha, N.B., Coelho, C.M., Lacerda, V.A., Coelho, M.C., Rech, E.L. (2014) Mass spectrometry characterisation of fatty acids from metabolically engineered soybean seeds. Anal. Bioanal. Chem. 406:2873–2883. Nakamura, Y. (2017) Plant phospholipid diversity: emerging functions in metabolism and protein-lipid interactions. Trends Plant Sci. 22: 1027–1040. Nygren, H., Seppänen-Laakso, T., Castillo, S., Hyötyläinen, T., Orešič, M. (2011) Liquid chromatography-mass spectrometry (LC-MS)-based lipidomics for studies of body fluids and tissues. Methods Mol. Biol. 708:247–257. Orsi, N.M., Leese, H.J. (2004) Ammonium exposure and pyruvate affect the amino acid metabolism of bovine blastocysts in vitro. Reproduction 127:131–140. Pan, X., Siloto, R.M., Wickramarathna, A.D., Mietkiewska, E., Weselake, R.J. (2016) Identification of a pair of phospholipid: diacylglycerol acyltransferases from developing flax (Linum usitatissimum L.) seed catalyzing the selective production of trilinolenin. J. Biol. Chem. 288:24173–24188. Park, C.H., Roh, J., Youn, J.H., Son, S.H., Park, J.H., Kim, S.Y., Kim, T.W., Kim, S.K. (2018) Arabidopsis ACC oxidase 1 coordinated by multiple signals mediates ethylene biosynthesis and is involved in root development. Mol. Cells 41:923–932. Patil, G., Mian, R., Vuong, T., Pantalone, V., Song, Q., Chen, P., Shannon, G.J., Carter, T.C., Nguyen, H.T. (2017) Molecular mapping and genomics of soybean seed protein: a review and perspective for the future. Theor. Appl. Genet. 130:1975–1997. Purcell, S., Neale, B., Todd-Brown, K., Thomas, L., Ferreira, M.A., Bender, D., Maller, J., Sklar, P., de Bakker, P.I., Daly, M.J., et al. (2007) PLINK: a tool set for whole-genome association and population-based linkage analyses. Am. J. Hum. Genet. 81:559–575. Raj, A., Stephens, M., Pritchard, J.K. (2014) fastSTRUCTURE: variational inference of population structure in large SNP data sets. Genetics 197:573–589. Ranocha, P., Bourgis, F., Ziemak, M.J., Rhodes, D., Gage, D.A., Hanson, A.D. (2000) Characterization and functional expression of cDNAs encoding methionine-sensitive and - insensitive homocysteine S-methyltransferases from Arabidopsis. J. Biol. Chem. 275: 15962–15968. Ren, W.L., Wen, Y.J., Dunwell, J.M., Zhang, Y.M. (2018) pKWmEB: integration of Kruskal–Wallis test with empirical Bayes under polygenic background control for multi-locus genome-wide association study. Heredity 120:208–218. Roesler, K.R., Shorrosh, B.S., Ohlrogge, J.B. (1994) Structure and expression of an Arabidopsis acetyl-coenzyme A carboxylase gene. Plant Physiol. 105:611–617. Saito, R., Smoot, M.E., Ono, K., Ruscheinski, J., Wang, P.L., Lotia, S., Pico, A.R., Bader, G.D., Ideker, T. (2012) A travel guide to Cytoscape plugins. Nat. Methods 9:1069– 1076. Sauvage, C., Segura, V., Bauchet, G., Stevens, R., Do, P.T., Nikoloski, Z., Fernie, A.R., Causse, M. (2014). Genome-wide association in tomato reveals 44 candidate loci for fruit metabolic traits. Plant Physiol. 165: 1120-1132. Selinski, J., Scheibe, R. (2019) Malate valves: old shuttles with new perspectives. Plant Biol. (Stuttg) Suppl 1:21–30. Shen, W., Wei, Y., Dauk, M., Tan, Y., Taylor, D.C., Selvaraj, G., Zou, J. (2006) Involvement of a glycerol-3-phosphate dehydrogenase in modulating the NADH/NAD+ ratio provides evidence of a mitochondrial glycerol-3-phosphate shuttle in Arabidopsis. Plant Cell 18: 422–441. Shi, T.T., Zhu, A.T., Jia, J.Q., Hu, X., Chen, J., Liu, W., Ren, X.F., Sun, D.F., Fernie, A.R., Cui, F., Chen, W. (2020) Metabolomics analysis and metabolite‐agronomic trait associations using kernels of wheat (Triticum aestivum) recombinant inbred lines. Plant J. DOI: 10.1111/tpj.14727 Shimada, T.L., Hara-Nishimura, I. (2010) Oil-body-membrane proteins and their physiological functions in plants. Biol. Pharm. Bull. 33:360–363. Siloto, R.M., Findlay, K., Lopez-Villalobos, A., Yeung, E.C., Nykiforuk, C.L., Moloney, M.M. (2006) The accumulation of oleosins determines the size of seed oilbodies in Arabidopsis. Plant Cell 18:1961-1974. Song, Q.X., Li, QT., Liu, Y.F., Zhang, F.X., Ma, B., Zhang, W.K., Man, W.Q., Du, W.G., Wang, G.D., Chen, S.Y., et al. (2013) Soybean GmbZIP123 gene enhances lipid content in the seeds of transgenic Arabidopsis plants. J. Exp. Bot. 64:4329–4341. Tamba, C.L., Ni, Y.L., Zhang, Y.M. (2017) Iterative sure independence screening EM-Bayesian LASSO algorithm for multi-locus genome-wide association studies. PLoS Comput. Biol. 13:e1005357. Tanoue, R., Kobayashi, M., Katayama, K., Nagata, N., Wada, H. (2014) Phosphatidylglycerol biosynthesis is required for the development of embryos and normal membrane structures of chloroplasts and mitochondria in Arabidopsis. FEBS Lett. 588: 1680–1685. Thiele, B., Stein, N., Oldiges, M., Hofmann, D. (2012) Direct analysis of underivatized amino acids in plant extracts by LC-MS-MS. Methods Mol. Biol. 828:317–328. Tohge, T., Nishiyama, Y., Hirai, M.Y., Yano, M., Nakajima, J., Awazuhara, M., Inoue, E., Takahashi, H., Goodenowe, D.B., Kitayama, M., et al. (2005) Functional genomics by integrated analysis of metabolome and transcriptome of Arabidopsis plants over-expressing an MYB transcription factor. Plant J. 42:218–235. Van, K., McHale, L.K. (2017) Meta-analyses of QTLs associated with protein and oil contents and compositions in soybean [Glycine max (L.) Merr.] seed. Int. J. Mol. Sci. 18(6): e1180. Accepted Article Wang, H.W., Zhang, B., Hao, Y.J., Huang, J., Tian, A.G., Liao, Y., Zhang, J.S., Chen, S.Y. (2007) The soybean Dof-type transcription factor genes, GmDof4 and GmDof11, enhance lipid content in the seeds of transgenic Arabidopsis plants. Plant J. 52:716-729. Wang, S.B., Feng, J.Y., Ren, W.L., Huang, B., Zhou, L., Wen, Y.J., Zhang, J., Dunwell, J.M., Xu, S., Zhang, Y.M. (2016) Improving power and accuracy of genome-wide association studies via a multi-locus mixed linear model methodology. Sci. Rep. 6:19444. Wang, X., Li, Y., Zhang, H., Sun, G., Zhang, W., Qiu, L. (2015) Evolution and association analysis of GmCYP78A10 gene with seed size/weight and pod number in soybean. Mol. Biol. Rep. 42:489–496. Warrington, C., Abdel-Haleem, H., Hyten, D., Cregan, P., Orf, J., Killam, A., Bajjalieh, N., Li, Z., Boerma, H. (2015) QTL for seed protein and amino acids in the Benning × Danbaekkong soybean population. Theor. Appl. Genet. 128:839–850. Weiss, L., Löffler, G., Wieland, O.H. (1974) Regulation by insulin of adipose tissue pyruvate dehydrogenase. A mechanism controlling fatty acid synthesis from carbohydrates. Hoppe Seylers Z. Physiol. Chem. 355:363–377. Wen, W., Li, K, Alseekh, S., Omranian, N., Zhao, L., Zhou, Y., Xiao, Y., Jin, M., Yang, N., Liu, H., et al. (2015) Genetic determinants of the network of primary metabolism and their relationships to plant performance in a maize recombinant inbred line population. Plant Cell 27:1839–1856. Wen, Y.J., Zhang, H., Ni, YL., Huang, B., Zhang, J., Feng, J.Y., Wang, S.B., Dunwell, J.M., Zhang, Y.M., Wu, R. (2018) Methodological implementation of mixed linear models in multi-locus genome-wide association studies. Brief. Bioinform. 19:700–712. Wu, S., Tohge, T., Cuadros-Inostroza, Á., Tong, H., Tenenboim, H., Kooke, R., Méret, M., Keurentjes, J.B., Nikoloski, Z., Fernie, A.R., et al. (2018) Mapping the Arabidopsis metabolic landscape by untargeted metabolomics at different environmental conditions. Mol. Plant 11:118–134. Xiong, W., Wei, Q., Wu, P., Zhang, S., Li, J., Chen, Y., Li, M., Jiang, H., Wu, G. (2017) Molecular cloning and characterization of two β-ketoacyl-acyl carrier protein synthase I genes from Jatropha curcas L. Plant Physiol. 214:152–160. Xu, Y., Yang, T., Zhou, Y., Yin, S., Li, P., Liu, J., Xu, S., Yang, Z., Xu, C. (2018) Genome-wide association mapping of starch pasting properties in maize using single-locus and multi-locus models. Front. Plant Sci. 9:1311 Yang, W.Y., Zheng, Y., Bahn, S.C., Pan, X.Q., Li, M.Y., Vu, H.S., Roth, M.R., Scheu, B., Welti, R., Hong, Y.Y. et al. (2012) The patatin-containing phospholipase A pPLAIIα modulates oxylipin formation and water loss in Arabidopsis thaliana. Mol. Plant 5:452 –460. Zhang, C.H. (2010) Nearly unbiased variable selection under minimax concave penalty. Ann. Stat. 38: 894–942. Zhang, D., Zhang, H., Hu, Z., Chu, S., Yu, K., Lv, L., Yang, Y., Zhang, X., Chen, X., Kan, G., et al. (2019) Artificial selection on GmOLEO1 contributes to the increase in seed oil during soybean domestication. PLoS Genet. 15:e1008267. Zhang, D., Zhao, M., Li, S., Sun, L., Wang, W., Cai, C., Dierking, E.C., Ma, J. (2017) Plasticity and innovation of regulatory mechanisms underlying seed oil content mediated by duplicated genes in the Palaeopolyploid soybean. Plant J. 90:1120–1133. Zhang, G., Bahn, S.C., Wang, G., Zhang, Y., Chen, B., Zhang, Y., Wang, X., Zhao, J. (2019) PLDα1-knockdown soybean seeds display higher unsaturated glycerolipid contents and seed vigor in high temperature and humidity environments. Biotechnol. Biofuels 12: 9. Zhang, J., Feng, J.Y., Ni, Y.L., Wen, Y.J., Niu, Y., Tamba, C.L., Yue, C., Song, Q., Zhang, Y.M. (2017) pLARmEB, integration of least angle regression with empirical Bayes for multilocus genome-wide association studies. Heredity 118:517–524. Zhang, L., Liu, J.Y., Gu, H., Du, Y., Zuo, J.F., Zhang, Z., Zhang, M., Li, P., Dunwell, J.M., Zhang, Z. et al. (2018) Bradyrhizobium diazoefficiens USDA 110-Glycine max interactome provides candidate proteins associated with symbiosis. J. Proteome Res. 17:3061–3074. Zhang, L., Wang, SB., Li, Q.G., Song, J., Hao, Y.Q., Zhou, L., Zheng, H.Q., Dunwell, J.M., Zhang, Y.M. (2016). An integrated bioinformatics analysis reveals divergent evolutionary pattern of oil biosynthesis in high- and low-oil plants. PLoS ONE 11:e0154882. Zhang, M., Fan, J., Taylor, D.C., Ohlrogge, J.B. (2009) DGAT1 and PDAT1 acyltransferases have overlapping functions in Arabidopsis triacylglycerol biosynthesis and are essential for normal pollen and seed development. Plant Cell 21:3885-3901. Zhang, Q., Lee, J., Pandurangan, S., Clarke, M., Pajak, A., Marsolais, F. (2013) Characterization of Arabidopsis serine: glyoxylate aminotransferase, AGT1, as an asparagine aminotransferase. Phytochemistry 85:30–35. Zhang, T., Wu, T., Wang, L., Jiang, B., Zhen, C., Yuan, S., Hou, W., Wu, C., Han, T., Sun, S. (2019). A combined linkage and GWAS analysis identifies QTLs linked to soybean seed protein and oil content. Int. J. Mol. Sci. 20: E5915 Zhang, Y., Beard, K., Swart, C., Bergmann, S., Krahnert, I., Nikoloski, Z., Graf, A., Ratcliffe, R.G., Sweetlove, L.J., Fernie, A.R., Obata, T. (2017). Protein-protein interactions and metabolite channelling in the plant tricarboxylic acid cycle. Nat. Commun. 8:15212. Zhang, Y.M., Jia, Z., Dunwell, J.M. (2019a) Editorial: The applications of new multi-locus GWAS methodologies in the genetic dissection of complex traits. Front. Plant Sci. 10:100. Zhang, Y.-M., Jia, Z., Dunwell, J. M. (eds) (2019b) The applications of new multi-locus GWAS methodologies in the genetic dissection of complex traits. Lausanne: Frontiers Media. Zhang, Y.Q., Lu, X., Zhao, F.Y., Li, Q.T., Niu, S.L., Wei, W., Zhang, W.K., Ma B., Chen, S.Y., Zhang, J.S. (2016). Soybean GmDREBL increases lipid content in seeds of transgenic Arabidopsis. Sci. Rep. 6:34307. Zhang, Z., Dunwell, J.M., Zhang, Y.M. (2018) An integrated omics analysis reveals molecular mechanisms that are associated with differences in seed oil content between Glycine max and Brassica napus. BMC Plant Biol. 18:328. Zhang. W., Dai. X., Wang. Q., Xu. S., Zhao. P.X. (2016) PEPIS: A pipeline for estimating epistatic effects in quantitative trait locus mapping and genome-wide association studies. PLoS Comput. Biol. 12:e1004925. Zhao, J., Zhou, D., Zhang, Q., Zhang, W. (2012) Genomic analysis of phospholipase D family and characterization of GmPLDαs in soybean (Glycine max). J. Plant Res. 125:569–578. Zhao, J.Z. (2013). Phospholipase gene GmPLD and lipid synthase genes GmDGAT and GmLPAT play important role in regulating Arabidopsis seed oil content and growth [D]. Nanjing Agricultural University. Zhou, L., Luo, L., Zuo, J.F., Yang, L., Zhang, L., Guang, X., Niu, Y., Jian, J., Geng, Q.C., Liang, L., et al. (2016) Identification and validation of candidate genes associated with domesticated and improved traits in soybean. Plant Genome 9: doi: 10.3835/ plantgenome2015.09.0090. Zhou, L., Wang, S.B., Jian, J., Geng, Q.C., Wen, J., Song, Q., Wu, Z., Li, G.J., Liu, Y.Q., Dunwell, J.M., et al. (2015) Identification of domestication-related loci associated with flowering time and seed size in soybean with the RAD-seq genotyping method. Sci. Rep. 5:9350. Zhou, X., Stephens, M. (2012) Genome-wide efficient mixed model analysis for association studies. Nat. Genet. 44:821–824. Zhou, Y., Peisker, H., Weth, A., Baumgartner, W., Dörmann, P., Frentzen, M. (2013) Extraplastidial cytidinediphosphate diacylglycerol synthase activity is required for vegetative development in Arabidopsis thaliana. Plant J. 75:867–879. Zhu, B.H., Zhang, R.H., Lv, N.N., Yang, G.P., Wang, Y.S., Pan, K.H. (2018) The role of malic enzyme on promoting total lipid and fatty acid production in Phaeodactylum tricornutum. Front. Plant Sci. 9:826. Zubimendi, J.P., Martinatto, A., Valacco, M.P., Moreno, S., Andreo, C.S., Drincovich, M.F., Tronconi, M.A. (2018) The complex allosteric and redox regulation of the fumarate hydratase and malate dehydratase reactions of Arabidopsis thaliana Fumarase 1 and 2 gives clues for understanding the massive accumulation of fumarate. FEBS J. 285:2205–2224. Zuo, J.F., Niu, Y., Cheng, P., Feng, J.Y., Han, S.F., Zhang, Y.H., Shu, G., Wang, Y., Zhang, Y.M. (2019) Effect of marker segregation distortion on high density linkage map construction and QTL mapping in soybean (Glycine max L.). Heredity 123:579–592.