Metabolic and cellular organization in evolutionarily diverse microalgae as related to biofuels production

Current Opinion in Chemical Biology

Volumn 17, Issue 3, 2013, Pages 506-514

  Hildebrand, Mark ^a   Abbriano, Raffaela M ^a   Polle, Juergen E W ^c   Traller, Jesse C ^a   Trentacoste, Emily M ^b   Smith, Sarah R ^a   Davis, Aubrey K ^a  

^a UNIVERSITY OF CALIFORNIA SAN DIEGO   (United States)

^b INTEGRATIVE OCEANOGRAPHY DIVISION   (United States)

^c CITY UNIVERSITY OF NEW YORK   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOFUEL; CARBON; DIACYLGLYCEROL; ISOPRENOID; TRIACYLGLYCEROL;

BIOFUEL PRODUCTION; BIOSYNTHESIS; CARBON FIXATION; CARBON METABOLISM; CELL ORGANELLE; CHLOROPLAST; ENDOSYMBIONT; LIGHT HARVESTING SYSTEM; METABOLISM; MICROALGA; MICROBIAL DIVERSITY; NONHUMAN; PHOTOSYNTHESIS; REVIEW;

BIOFUELS; CARBON CYCLE; EVOLUTION, MOLECULAR; METABOLIC NETWORKS AND PATHWAYS; MICROALGAE; PHOTOSYNTHESIS;

ALGAE;

EID: 84878890581     PISSN: 13675931     EISSN: 18790402     Source Type: Journal    
DOI: 10.1016/j.cbpa.2013.02.027     Document Type: Review

References (59)

1. Davis R., Aden A., Pienkos P.T. Techno-economic analysis of autotrophic microalgae for fuel production. Appl. Energy 2011, 88:3524-3531.
2. Keeling P.J. The endosymbiotic origin, diversification and fate of plastids. Philos. Trans. R. Soc. Lond. B 2010, 365:729-748.
3. Chow W.S., Kim E.H., Horton P., Anderson J.M. Granal stacking of thylakoid membranes in higher plant chloroplasts: the physicochemical forces at work and the functional consequences that ensue. Photochem. Photobiol. Sci. 2005, 4:1081-1090.
4. Mullineaux C.W. Function and evolution of grana. Trends Plant Sci. 2005, 10:521-525.
5. Lepetit B., Goss R., Jakob T., Wilhelm C. Molecular dynamics of the diatom thylakoid membrane under different light conditions. Photosynth. Res. 2012, 111:245-257.
6. Buchel C., Wilhelm C. Evidence for a lateral heterogeneity by patchwork-like areas enriched with photosystem I complexes in the three thylakoid lamellae of Pleurochloris meiringensis (Xanthophyceae). J. Crypt. Bot. 1992, 2:375-386.
7. Neilson J.A.D., Durnford D.G. Structural and functional diversification of the light-harvesting complexes in photosynthetic eukaryotes. Photosynth. Res. 2010, 106:57-71.
8. Mimuro M., Akimoto S. Carotenoids of light harvesting systems: energy transfer processes from fucoxanthin and peridinin to chlorophyll. Photosynthesis in Algae 2003, 335-349. Kluwer, Dordrecht. A.W.D. Larkum, S.E. Douglas, J.A. Raven (Eds.).
9. Fork D.C., Satoh K. The control by state transitions of the distribution of excitation-energy in photosynthesis. Ann. Rev. Plant Physiol. Plant Mol. Biol. 1986, 37:335-361.
10. Wagner H., Jakob T., Wilhelm C. Balancing the energy flow from captured light to biomass under fluctuating light conditions. New Phytol. 2006, 169:95-108.
11. Raven J.A. The cost of photoinhibition. Physiol. Plant. 2011, 142:87-104.
12. Casper-Lindley C., Bjorkman O. Fluorescence quenching in four unicellular algae with different light-harvesting and xanthophyll-cycle pigments. Photosynth. Res. 1998, 56:277-289.
13. Goss R., Jakob T. Regulation and function of xanthophyll cycle-dependent photoprotection in algae. Photosynth. Res. 2010, 106:103-122.
14. Kana R., Kotabova E., Sobotka R., Prasil O. Non-photochemical quenching in cryptophyte alga Rhodomonas salina is located in chlorophyll a/c antennae. PLoS ONE 2012, 7:e29700.
15. 2-concentrating mechanisms in algae. Can. J. Bot. 1998, 76:1052-1071.
16. Tcherkez G.G.B., Farquhar G.D., Andrews T.J. Despite slow catalysis and confused substrate specificity, all ribulose bisphosphate carboxylases may be nearly perfectly optimized. Proc. Natl Acad. Sci. U. S. A. 2006, 103:7246-7252.
17. 2: carboxylases, carbon-concentrating mechanisms and carbon oxidation cycles. Philos. Trans. R. Soc. B 2012, 367:493-507.
18. Reinfelder J.R. Carbon concentrating mechanisms in eukaryotic marine phytoplankton. Annu. Rev. Mar. Sci. 2011, 3:291-315.
19. 2-concentrating-mechanism (CCM): functional components, Ci transporters, diversity, genetic regulation and prospects for engineering into plants. J. Exp. Bot. 2008, 59:1441-1461.
20. Raven J.A. Inorganic carbon acquisition by eukaryotic algae: four current questions. Photosynth. Res. 2010, 106:123-134.
21. Tachibana M., Allen A.E., Kikutani S., Endo Y., Bowler C., Matsuda Y. Localization of putative carbonic anhydrases in two marine diatoms, Phaeodactylum tricornutum and Thalassiosira pseudonana. Photosynth. Res. 2011, 109:205-221.
22. Maberly S.C., Courcelle C., Groben G.R., Gontero B. Phylogenetically based variation in the regulation of the Calvin cycle enzymes, phosphoribulokinase and glyceraldehyde-3-phosphate dehydrogenase, in algae. J. Exp. Bot. 2010, 61:735-745.
23. Ball S., Colleoni C., Cenci U., Raj J.N., Tirtiaux C. The evolution of glycogen and starch metabolism in eukaryotes gives molecular clues to understand the establishment of plastid endosymbiosis. J. Exp. Bot. 2011, 62:1775-1801.
24. Deschamps P., Haferkamp I., d'Hulst C., Neuhaus H.E., Ball S.G. The relocation of starch metabolism to chloroplasts: when, why and how. Trends Plant Sci. 2008, 13:574-582.
25. 2-concentrating mechanism is correlated with the formation of the starch sheath around the pyrenoid on Chlamydomonas reinhardtii. Planta 1994, 195:210-216.
26. Booy F.P., Chanzy H., Boudet A. An electron-diffraction study of paramylon storage granules from Euglena gracilis. J. Microsc. Oxford. 1981, 121:133-140.
27. Hirakawa Y., Howe A., James E.R., Keeling P.J. Morphological diversity between culture strains of a Chlorarachniophyte, Lotharella globosa. PLoS ONE 2011, 6:e23193.
28. Chiovitti A., Molino P., Crawford S.A., Teng R.W., Spurck T., Wetherbee R. The glucans extracted with warm water from diatoms are mainly derived from intracellular chrysolaminaran and not extracellular polysaccharides. Eur. J. Phycol. 2004, 39:117-128.
29. Andersen R.A. Ochromonas moestrupii sp. nov. (Chrysophyceae), a new golden flagellate from Australia. Phycologia 2011, 50:600-607.
30. Fettke J., Hejazi M., Smirnova J., Hochel E., Stage M., Steup M. Eukaryotic starch degradation: integration of plastidial and cytosolic pathways. J. Exp. Bot. 2009, 60:2907-2922.
31. Keeling P.J., Palmer J.D. Horizontal gene transfer in eukaryotic evolution. Nat. Rev. Genet. 2008, 8:605-618.
32. Martin W. Evolutionary origins of metabolic compartmentalization in eukaryotes. Philos. Trans. R. Soc. B 2010, 365:847-855.
33. Ginger M.L., McFadden G.I., Michels P.A.M. Rewiring and regulation of cross-compartmentalized metabolism in protists. Philos. Trans. R. Soc. B 2010, 365:831-845.
34. Nils C., May P., Kempa S., Handorf T., Ebenhoh O. An integrative approach towards completing genome-scale metabolic networks. Mol. Biosyst. 2009, 5:1889-1903.
35. Krumholz E.W., Yang H., Weisenhorn P., Henry C.S., Libourel I.G.L. Genome-wide metabolic network reconstruction of the picoalga Ostreococcus. J. Exp. Bot. 2012, 63:2353-2362.
36. Braeutigam A., Weber A.P.M. Proteomic analysis of the proplastid envelope membrane provides novel insights into small molecule and protein transport across proplastid membranes. Mol. Plant 2009, 2:1247-1261.
37. Lunn J.E. Compartmentation in plant metabolism. J. Exp. Bot. 2007, 58:35-47.
38. Smith S.R., Abbriano R.M., Hildebrand M. Comparative analysis of diatom genomes reveals substantial differences in the organization of carbon partitioning pathways. Algal Res. 2012, 1:2-16.
39. Terashima M., Specht M., Hippler M. The chloroplast proteome: a survey from the Chlamydomonas reinhardtii perspective with a focus on distinctive features. Curr. Genet. 2011, 57:151-168.
40. Liaud M.F., Lichtle C., Apt K., Martin W., Cerff R. Compartment-specific isoforms of TPI and GAPDH are imported into diatom mitochondria as a fusion protein: evidence in favor of a mitochondrial origin of the eukaryotic glycolytic pathway. Mol. Biol. Evol. 2000, 17:213-223.
41. Kroth P.G., Chiovitti A., Gruber A., Martin-Jezequel V., Mock T., Parker M.S., Stanley M.S., Kaplan A., Caron L., Weber T., et al. A model for carbohydrate metabolism in the diatom Phaeodactylum tricornutum deduced from comparative whole genome analysis. PLoS ONE 2008, 3:e1426.
42. Fabris M., Matthijs M., Rombatus S., Vyverman W., Goossens A., Baart G.J.E. The metabolic blueprint of Phaeodactylum tricornutum reveals a eukaryotic Entner-Doudoroff glycolytic pathway. Plant J. 2012, 701004-701014.
43. Ruelland E., Miginiac-Maslow M. Regulation of chloroplast enzyme activities by thioredoxins: activation or relief from inhibition?. Trends Plant Sci. 1999, 4:136-141.
44. Michels A.K., Wedel N., Kroth P.G. Diatom plastids possess a phosphoribulokinase with an altered regulation and no oxidative pentose phosphate pathway. Plant Physiol. 2005, 137:911-920.
45. Gruber A., Weber T., Bartulos C.R., Vugrinec S., Kroth P.G. Intracellular distribution of the reductive and oxidative pentose phosphate pathways in two diatoms. J. Basic Microbiol. 2009, 49:58-72.
46. Atteia A., van Lis R., Gelius-Dietrich G., Adrait A., Garin J., Joyard J., Rolland N., Martin W. Pyruvate formate-lyase and a novel route of eukaryotic ATP synthesis in Chlamydomonas mitochondria. J. Biol. Chem. 2006, 281:9909-9918.
47. Armbrust E.V., Berges J.A., Bowler C., Green B.R., Martinez D., Putnam N.H., Zhou S., Allen A.E., Apt K.E., Bechner M., et al. The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism. Science 2004, 306:79-86.
48. Allen A.E., Dupont C.L., Obornik M., Horak A., Nunes-Nesi A., McCrow J.P., Zheng H., Johnson D.A., Hu H.H., Fernie A.R., Bowler C. Evolution and metabolic significance of the urea cycle in photosynthetic diatoms. Nature 2011, 473:203-209.
49. 2 concentrations. Protist 1998, 149:341-345.
50. Moog D., Stork S., Zauner S., Maier U.G. In silico and in vivo investigations of proteins of a minimized eukaryotic cytoplasm. Genome Biol. Evol. 2011, 3:375-382.
51. Hildebrand M., Davis A.K., Smith S.R., Traller J.C., Abbriano R. The place of diatoms in the biofuels industry. Biofuels 2012, 3:221-240.
52. Yoon K., Han D., Li Y., Sommerfeld M., Hu Q. Phosolipid:diacylglycerol acyltransferase is a multifunctional enzyme involved in membrane lipid turnover and degradation while synthesize triacylglycerol in the unicellular green microalga Chlamydomonas reinhardtii. Plant Cell 2012, 10.1105/tpc.112.100701.
53. Chen J.E., Smith A.G. A look at diacylglycerol acyltransferases (DGATs) in algae. J. Biotechnol. 2012, 162:28-39.
54. La Russa M., Bogen C., Uhmeyer A., Doebbe A., Filippone E., Kruse O., Mussgnug J.H. Functional analysis of three type-2 DGAT homologue genes for triacylglycerol production in the green microalga Chlamydomonas reinhardtii. J. Biotechnol. 2012, 162:13-20.
55. Fan J., Andrew A., Xu C. A chloroplast pathway for the de novo biosynthesis of triacylglycerol in Chlamydomonas reinhardtii. FEBS Lett. 2011, 585:1985-1991.
56. Goodson C., Roth R., Wang Z.T., Goodenough U. Structural correlates of cytoplasmic chloroplast lipid body synthesis in Chlamydomonas reinhardtii and stimulation of lipid body production with acetate boost. Euk. Cell 2011, 10:1592-1606.
57. Peralta-Yahya P.P., Zhang F., del Cardayre S.B., Keasling J.D. Microbial engineering for the production of advanced biofuels. Nature 2012, 488:320-328.
58. Chu S., Majumdar A. Opportunities and challenges for a sustainable energy future. Nature 2012, 488:294-303.
59. Lohr M., Schwender J., Polle J.E.W. Isoprenoid biosynthesis in eukaryotic phototrophs: a spotlight on algae. Plant Sci. 2012, 185:9-22.