Metabolic flux determination, pathway engineering in plants

Further reading:

  1. Calvin, M. (1961). The Path of Carbon in Photosynthesis. Nobel Lecture. This lecture provides a comprehensive overview of the experiments using carbon-14 (^14C) to trace the incorporation of CO₂ into organic compounds in Chlorella pyrenoidosa, leading to the discovery of the Calvin cycle.
  2. Benson, A. A. (2002). Following the path of carbon in photosynthesis: a personal story. Photosynthesis Research, 73(1-3), 29–49. An autobiographical account detailing the collaborative efforts and methodologies employed in the discovery of the carbon fixation pathway.
  3. Kok, B., Forbush, B., & McGloin, M. (1970). Cooperation of charges in photosynthetic O₂ evolution—I. A linear four step mechanism. Photochemistry and Photobiology, 11(6), 457–475. Introduced the Kok cycle, describing the stepwise accumulation of oxidizing equivalents in PSII leading to water oxidation and O₂ evolution.
  4. Nickelsen, K. (2007). Explaining Photosynthesis: Models of Biochemical Mechanisms, 1840–1960. Springer. Offers a historical analysis of the development of photosynthesis research, including the role of radioisotopes.

References

  1. Martini, S., Rizzello, A., Corsini, I. et al. (2018). Vitamin A deficiency due to selective eating as a cause of blindness in a high-income setting. Pediatrics 141: S439–S444.https://doi.org/10.1542/peds.2016-2628
  2. Drouin, G., Godin, J.R., and Pagé, B. (2011). The genetics of vitamin C loss in vertebrates. Current Genomics 12: 371–378. https://doi.org/10.2174/138920211796429736
  3. Harrison, E.H. (2005). Mechanisms of digestion and absorption of dietary vitamin a. Annual Review of Nutrition 25: 87–103. https://doi.org/10.1146/annurev.nutr.25.050304.092614
  4. Trumbo, P., Yates, A.A., Schlicker, S., and Poos, M. (2001). Dietary reference intakes: vitamin A, vitamin K, arsenic, boron, chromium, copper, iodine, iron, manganese, molybdenum, nickel, silicon, vanadium, and zinc. Journal of the Academy of Nutrition and Dietetics 101: 294
  5. Ye, X., Al-Babili, S., Klöti, A. et al. (2000). Engineering the provitamin A (β-carotene) biosynthetic pathway into (carotenoid-free) rice endosperm. Science 287: 303–305. https://doi.org/10.1126/science.287.5451.303
  6. Paine, J.A., Shipton, C.A., Chaggar, S. et al. (2005). Improving the nutritional value of Golden Rice through increased pro-vitamin a content. Nature Biotechnology 23: 482. https://doi.org/10.1038/nbt1082
  7. Aluru, M., Xu, Y., Guo, R. et al. (2008). Generation of transgenic maize with enhanced provitamin A content. Journal of Experimental Botany 59: 3551–3562. https://doi.org/10.1093/jxb/ern212
  8. Ducreux, L.J., Morris, W.L., Hedley, P.E. et al. (2005). Metabolic engineering of high carotenoid potato tubers containing enhanced levels of β-carotene and lutein. Journal of Experimental Botany 56: 81–89. https://doi.org/10.1093/jxb/eri016
  9. Fraser, P.D., Romer, S., Shipton, C.A. et al. (2002). Evaluation of transgenic tomato plants expressing an additional phytoene synthase in a fruit-specific manner. Proceedings of the National Academy of Sciences 99: 1092–1097. https://doi.org/10.1073/pnas.241374598
  10. Fujisawa, M., Watanabe, M., Choi, S.K. et al. (2008). Enrichment of carotenoids in flaxseed (Linumusitatissimum) by metabolic engineering with introduction of bacterial phytoene synthase gene crtB. Journal of Bioscience and Bioengineering 105: 636–641. https://doi.org/10.1263/jbb.105.636
  11. Schmidt, M.A., Parrott, W.A., Hildebrand, D.F. et al. (2015). Transgenic soya bean seeds accumulating β-carotene exhibit the collateral enhancements of oleate and protein content traits. Plant Biotechnology Journal 13: 590–600. https://doi.org/10.1111/pbi.12286
  12. Wang, C., Zeng, J., Li, Y. et al. (2014). Enrichment of provitamin A content in wheat (Triticumaestivum L.) by introduction of the bacterial carotenoid biosynthetic genes CrtB and CrtI. Journal of Experimental Botany 65: 2545–2556. https://doi.org/10.1093/jxb/eru138
  13. Diretto, G., Welsch, R., Tavazza, R. et al. (2007). Silencing of beta-carotene hydroxylase increases total carotenoid and beta-carotene levels in potato tubers. BMC Plant Biology 7: 11. https://doi.org/10.1186/1471-2229-7-11
  14. Van Eck, J., Conlin, B., Garvin, D.F. et al. (2007). Enhancing beta-carotene content in potato by RNAi-mediated silencing of the beta-carotene hydroxylase gene. American Journal of Potato Research 84: 331. https://doi.org/10.1007/BF02986245
  15. Zeng, J., Wang, X., Miao, Y. et al. (2015). Metabolic engineering of wheat provitamin A by simultaneously overexpressing CrtB and silencing carotenoid hydroxylase (TaHYD). Journal of Agricultural and Food Chemistry 63: 9083–9092. https://doi.org/10.1021/acs.jafc.5b04279
  16. Li, L., Yang, Y., Xu, Q. et al. (2012). The Or gene enhances carotenoid accumulation and stability during post-harvest storage of potato tubers. Molecular Plant 5: 339–352. https://doi.org/10.1093/mp/ssr099
  17. Lopez, A.B., Van Eck, J., Conlin, B.J. et al. (2008). Effect of the cauliflower or transgene on carotenoid accumulation and chromoplast formation in transgenic potato tubers. Journal of Experimental Botany 59: 213–223. https://doi.org/10.1093/jxb/erm299
  18. Lu, S., Van Eck, J., Zhou, X. et al. (2006). The cauliflower or gene encodes a DnaJ cysteine-rich domain-containing protein that mediates high levels of β-carotene accumulation. The Plant Cell 18: 3594–3605. https://doi.org/10.1105/tpc.106.046417
  19. Zhou, X., Welsch, R., Yang, Y. et al. (2015). Arabidopsis OR proteins are the major posttranscriptional regulators of phytoene synthase in controlling carotenoid biosynthesis. Proceedings of the National Academy of Sciences 112: 3558–3563. https://doi.org/10.1073/pnas.1420831112
  20. Bai, C., Capell, T., Berman, J. et al. (2016). Bottlenecks in carotenoid biosynthesis and accumulation in rice endosperm are influenced by the precursor–product balance. Plant Biotechnology Journal 14: 195–205. https://doi.org/10.1111/pbi.12373
  21. R.G. Ratcliffe, Y. Shachar-Hill. Measuring multiple fluxes through plant metabolic networks. Plant J, 45 (2006), pp. 490-511. D.K. Allen, I.G. Libourel, Y. Shachar-Hill. https://doi.org/10.1111/j.1365-313X.2005.02649.x
  22. Metabolic flux analysis in plants: coping with complexity. Plant Cell Environ, 32 (2009), pp. 1241-1257. https://doi.org/10.1111/j.1365-3040.2009.01992.x
  23. N.J. Kruger, J.E. Huddleston, P. Le Lay, N.D. Brown, R.G. Ratcliffe. Network flux analysis: Impact of C-13-substrates on metabolism in Arabidopsis thaliana cell suspension cultures. Phytochemistry, 68 (2007), pp. 2176-2188. https://doi.org/10.1016/j.phytochem.2007.03.033
  24. J.W. Graham, T.C. Williams, M. Morgan, A.R. Fernie, R.G. Ratcliffe, L.J. Sweetlove. Glycolytic enzymes associate dynamically with mitochondria in response to respiratory demand and support substrate channeling. Plant Cell, 19 (2007), pp. 3723-3738. https://doi.org/10.1105/tpc.107.053371
  25. E. Heinzle, F. Matsuda, H. Miyagawa, K. Wakasa, T. Nishioka. Estimation of metabolic fluxes, expression levels and metabolite dynamics of a secondary metabolic pathway in potato using label pulse-feeding experiments combined with kinetic network modelling and simulation. Plant J, 50 (2007), pp. 176-187. https://doi.org/10.1111/j.1365-313X.2007.03037.x
  26. F. Matsuda, K. Morino, R. Ano, M. Kuzawa, K. Wakasa, H. Miyagawa.Metabolic flux analysis of the phenylpropanoid pathway in elicitor-treated potato tuber tissue. Plant Cell Physiol, 46 (2005), pp. 454-466. https://doi.org/10.1093/pcp/pci042
  27. C.J. Baxter, J.L. Liu, A.R. Fernie, L.J. Sweetlove. Determination of metabolic fluxes in a non-steady-state system. Phytochemistry, 68 (2007), pp. 2313-2319. https://doi.org/10.1016/j.phytochem.2007.04.026
  28. T.C. Williams, L. Miguet, S.K. Masakapalli, N.J. Kruger, L.J. Sweetlove, R.G. Ratcliffe. Metabolic network fluxes in heterotrophic Arabidopsis cells: stability of the flux distribution under different oxygenation conditions. Plant Physiol, 148 (2008), pp. 704-718. https://doi.org/10.1016/j.phytochem.2007.04.026
  29. D.K. Allen, Y. Shachar-Hill, J.B. Ohlrogge. Compartment-specific labeling information in 13C metabolic flux analysis of plants. Phytochemistry, 68 (2007), pp. 2197-2210. https://doi.org/10.1016/j.phytochem.2007.04.010
  30. C.A. Lehmeier, F.A. Lattanzi, R. Schaufele, M. Wild, H. Schnyder. Root and shoot respiration of perennial ryegrass are supplied by the same substrate pools: assessment by dynamic 13C labeling and compartmental analysis of tracer kinetics. Plant Physiol, 148 (2008), pp. 1148-1158. https://doi.org/10.1104/pp.108.127144
  31. S. Troufflard, A. Roscher, B. Thomasset, J.N. Barbotin, S. Rawsthorne, J.C. Portais. In vivo 13C NMR determines metabolic fluxes and steady state in linseed embryos. Phytochemistry, 68 (2007), pp. 2341-2350. https://doi.org/10.1016/j.phytochem.2007.05.035