Gene expression analysis of a Louisiana native Chlorella vulgaris (Chlorophyta)/Leptolyngbya sp. (Cyanobacteria) co-culture using suppression subtractive hybridization

Engineering in Life Sciences

Volumn 13, Issue 2, 2013, Pages 185-193

  Tate, John J ^a   Gutierrez Wing, M Teresa ^b   Rusch, Kelly A ^b   Benton, Michael G ^a  

^a LOUISIANA STATE UNIVERSITY   (United States)

^b LOUISIANA STATE UNIVERSITY   (United States)

Author keywords

Chlorella vulgaris; Irradiance; Leptolyngbya; Native co culture; Subtractive hybridization

Indexed keywords

CHLORELLA VULGARIS; COCULTURE; IRRADIANCE; LEPTOLYNGBYA; SUBTRACTIVE HYBRIDIZATION;

GENE EXPRESSION; PHOTOSYNTHESIS; POLYMERASE CHAIN REACTION;

GENE ENCODING;

MESSENGER RNA;

ALGAL CULTURE; CYANOBACTERIUM; GENE EXPRESSION; GREEN ALGA; GROWTH RATE; HYBRIDIZATION; IRRADIANCE; NATIVE SPECIES; PHOTOSYNTHESIS; SUBSTRATE;

ARTICLE; BACTERIAL GROWTH; BIOMASS; CHLORELLA VULGARIS; COCULTURE; CYANOBACTERIUM; ENERGY; GENE EXPRESSION; GENETIC IDENTIFICATION; LEPTOLYNGBYA; METABOLISM; MOLECULAR MECHANICS; NONHUMAN; PHOTOSYNTHESIS; PROTEIN SYNTHESIS; REAL TIME POLYMERASE CHAIN REACTION; STRESS; SUPPRESSION SUBTRACTIVE HYBRIDIZATION; UPREGULATION;

EID: 84875044365     PISSN: 16180240     EISSN: 16182863     Source Type: Journal    
DOI: 10.1002/elsc.201200063     Document Type: Article

References (54)

1. Greenwell, H. C., Laurens, L. M. L., Shields, R. J., Lovitt, R. W. et al., Placing microalgae on the biofuels priority list: A review of the technological challenges. J. Roy. Soc. Interf. 2009, 7, 703-726.
2. Huang, G., Chen, F., Wei, D., Zhang, X. et al., Biodiesel production by microalgal biotechnology. Appl. Energ. 2010, 87, 38-46.
3. Ferrell, J., Sarisky-Reed, V. (eds), National Algal Biofuels Technology Roadmap, U.S. Department of Energy, Biomass Program. 2010. Available at: http://www1.eere.energy.gov/biomass/pdfs/algal_biofuels_roadmap.pdf
4. Tam, N. F. Y., Wong, Y. S., The comparison of growth and nutrient removal efficiency of Chlorella pyrenoidosa in settled and activated sewages. Environ. Pollut. 1990, 65, 93-108.
5. Li, Y., Horsman, M., Wu, N., Lan, C. Q. et al., Biofuels from microalgae. Biotechnol. Prog. 2008, 24, 815-820.
6. Mutanda, T., Ramesh, D., Karthikeyan, S., Kumari, S. et al., Bioprospecting for hyper-lipid producing microalgal strains for sustainable biofuel production. Bioresour. Technol. 2011, 102, 57-70.
7. Sheehan, J., Dunahay, T., Benemann, J., Roessler, P., A Look Back at the U.S. Department of Energy's Aquatic Species Program: Biodiesel From Algae, Laboratory, N.R.E. 1998: Golden, Colorado. Available at: http://www.nrel.gov/docs/legosti/fy98/24190.pdf
8. Rodolfi, L., Chini Zittelli, G., Bassi, N., Padovani, G. et al., Microalgae for oil: strain selection, induction of lipid synthesis and outdoor mass cultivation in a low-cost photobioreactor. Biotechnol. Bioeng. 2009, 102, 100-112.
9. Gonzalez, L. E., Bashan, Y., Increased growth of the microalga Chlorella vulgaris when coimmobilized and cocultured in alginate beads with the plant-growth-promoting bacterium Azospirillum brasilense. Appl. Environ. Microbiol. 2000, 66(4), 1527-1531.
10. Gonzalez-Bashan, L. E., Lebsky, V. K., Hernandez, J. P., Bustillos, J. J. et al. Changes in the metabolism of the microalgae Chlorella vulgaris when coimmobilized in alginate with the nitrogen-fixing Phyllobacterium myrsinacearum. Can. J. Microbiol. 2000, 46, 653-659.
11. de-Bashan, L. E., Bashan, Y., Moreno, M., Lebsky, V. K. et al. Increased pigment and lipid content, lipid variety, and cell and population size of the microalgae Chlorella spp. when co-immobilized in alginate beads with the microalgae-growth-promoting bacterium Azospirillum brasilense. Can. J. Microbiol. 2002, 48, 514-521.
12. Park, Y., Je, K.-W., Lee, K., Jung, S.-E. et al. Growth promotion of Chlorella ellipsoidea by co-inoculation with Brevundimonas sp. isolated from the microalga. Hydrobiologia. 2008, 598, 219-228.
13. Hernandez, J., Debashan, L., Rodriguez, D., Rodriguez, Y. et al. Growth promotion of the freshwater microalga Chlorella vulgaris by the nitrogen-fixing, plant growth-promoting bacterium Bacillus pumilus from arid zone soils. Eur. J. Soil Biol. 2009, 45, 88-93.
14. Perez-Garcia, O., De-Bashan, L. E., Hernandez, J.-P., Bashan, Y., Efficiency of growth and nutrient uptake from wastewater by heterotrophic, autotrophic, and mixotrophic cultivation of Chlorella vulgaris immobilized with Azospirillum brasilense. J. Phycol. 2010, 46, 800-812.
15. Zhang, X.-N., Qu, Z.-C., Wan, Y.-Z., Zhang, H.-W. et al., Application of supression subtractive hybridization (SSH) to cloning differentially expressed cDNA in Dunaliella salina (Chlorophyta) under hyperosmotic shock. Plant Mol. Biol. Rep. 2002, 20, 49-57.
16. Jones, H., Ostrowski, M., Scanlan, D. J., A suppression subtractive hybridization approach reveals niche-specific genes that may be involved in predator avoidance in marine Synechococcus isolates. Appl. Environ. Microbiol. 2006, 72, 2730-2737.
17. Machida, T., Murase, H., Kato, E., Honjoh, K.-I. et al., Isolation of cDNAs for hardening-induced genes from Chlorella vulgaris by suppression subtractive hybridization. Plant Sci. 2008, 195, 238-246.
18. Blanc, G., Duncan, G., Agarkova, I., Borodovsky, M. et al., The Chlorella variabilis NC64A genome reveals adaptation to photosymbiosis, coevolution with viruses, and cryptic sex. Plant Cell 2010, 22, 2943-2955.
19. Thanh, T., Omar, H., Abdullah, M. P., Chi, V. T. Q. et al., Rapid and effective method of RNA isolation from green microalga Ankistrodesmus convolutus. Mol. Biotechnol. 2009, 43, 148-153.
20. Johnson, M., Zaretskaya, I., Raytselis, Y., Merezhuk, Y. et al., NCBI BLAST: a better web interface. Nucleic Acids Res. 2008, 36, W5-W9.
21. Gotz, S., Garcia-Gomez, J. M., Terol, J., Williams, T. D. et al., High-throughput functional annotation and data mining with the Blast2GO suite. Nucleic Acids Res. 2008, 36, 3420-3435.
22. Rismani-Yazdi, H., Haznedaroglu, B. Z., Peccia, J., Transcriptome sequencing and annotation of the microalgae Dunaliella tertiolecta: pathway description and gene discovery for production of next-generation biofuels. BMC Genomics 2011, 12, 148.
23. Bevan, M., Bancroft, I., Bent, E., Love, K. et al., Analysis of 1.9Mb of contiguous sequence from chromosome 4 of Arabidopsis thaliana. Nature 1998, 485-493.
24. Rozen, S., Skaletsky, H., Primer3 on the WWW for general users and for biologist programmers, in: Krawetz, S., Misener, S., (Eds.), Totowa, New Jersey, Humana Press 2000, pp. 265-286.
25. Pfaffl, M. W., A new mathematical model for relative quantification in real-time PCR. Nucleic Acids Res. 2001, 29, 2002-2007.
26. Bustin, S. A., Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays. J. Mol. Endocrinol. 2000, 25, 169-193.
27. Bustin, S. A., Quantification of mRNA using real-time reverse transcription PCR (RT-PCR): trends and problems. J. Mol. Endocrinol. 2002, 29, 23-39.
28. Bergkvist, A., Forootan, A., Zoric, N., Strombom, L. et al., Choosing a normalization strategy for RT-PCR. Genet. Eng. Biotechnol. News 2008, 28, 1-2.
29. Freund, R. J., Wilson, W. J., Statistical methods. Academic Press, San Diego, California 1997.
30. Yuan, J. S., Reed, A., Chen, F., Stewart, C. N., Statitsical analysis of real-time PCR data. BMC Bioinformatics 2006, 7, 85.
31. Croce, R., van Amerongen, H., Light-harvesting and structural organization of Photosystem II: from individual complexes to thylakoid membrane. J. Photochem. Photobiol. B: Biol. 2011, 104, 142-153.
32. Minai, L., Chloroplast biogenesis of Photosystem II cores involves a series of assembly-controlled steps that regulate translation. Plant Cell Online. 2006, 18, 159-175.
33. Shinopoulos, K. E., Brudvig, G. W., Cytochrome b559 and cyclic electron transfer within Photosystem II. Biochim. Biophys. Acta (BBA)-Bioenerg. 2012, 1817, 66-75.
34. Kramer, D. M., Evans, J. R., The importance of energy balance in improving photosynthetic productivity. Plant Physiol. 2010, 155(1), 70-78.
35. Wilson, K. E., Sieger, S. M., Huner, N. P. A., The temperature-dependent accumulation of Mg-protoporphyrin IX and reactive oxygen species in Chlorella vulgaris. Physiol. Plant. 2002, 119, 126-136.
36. Kamiya, A., Oxygen uptake, acidification of medium and nitrate uptake induced by blue light in nitrate-starved Chlorella cells. Plant Cell Physiol. 2000, 41, 534-540.
37. Kamiya, A., Saitoh, T., Blue-light-control of the uptake of amino acids and of ammonia in Chlorella mutants. Physiol. Plant. 2002, 116, 248-254.
38. Pereira, S. R., Vasconcelos, V. M., Antunes, A., The phosphoprotein phosphatase family of Ser/Thr phosphatases as principal targets of naturally occurring toxins. Crit. Rev. Toxicol. 2011, 41, 83-110.
39. MacKintosh, C., Beattie, K. A., Klumpp, S., Cohen, P. et al., Cyanobacterial microcystin-LR is a potent and specific inhibitor of protein phosphatases 1 and 2 from both mammals and higher plants. FEBS Lett. 1990, 264, 187-192.
40. Honkanen, R. E., Dukelow, M., Zwiller, J., Moore, R. E. et al., Cyanobacterial nodularin is a potent inhibitor of type 1 and type 2A protein phosphatases. Mol. Pharmacol. 1991, 40, 577-583.
41. Mohamed, Z. A., Al Shehri, A. M., Microcystin production in epiphytic cyanobacteria on submerged macrophytes. Toxicon. 2010, 55, 1346-1352.
42. Mikhailov, A., Härmälä-Braskén, A.-S., Hellman, J., Meriluoto, J. et al. Identification of ATP-synthase as a novel intracellular target for microcystin-LR. Chem. Biol. Interact. 2003, 142, 223-237.
43. Davidi, L., Katz, A., Pick, U., Characterization of major lipid droplet proteins from Dunaliella. Planta 2012, 236, 19-33.
44. Moellering, E. R., Benning, C., RNA interference silencing of a major lipid droplet protein affects lipid droplet size in Chlamydomonas reinhardtii. Eukaryot. Cell. 2009, 9, 97-106.
45. Wang, Z., Gerstein, M., Snyder, M., RNA-Seq: a revolutionary tool for transcriptomics. Nat. Rev. Genet. 2009, 10, 57-63.
46. Nguyen, H. M., Baudet, M., Cuiné, S., Adriano, J.-M. et al., Proteomic profiling of oil bodies isolated from the unicellular green microalga Chlamydomonas reinhardtii: with focus on proteins involved in lipid metabolism. Proteomics. 2011, 11, 4266-4273.
47. Peled, E., Leu, S., Zarka, A., Weiss, M. et al., Isolation of a novel oil globule protein from the green alga Haematococcus pluvialis (Chlorophyceae). Lipids 2011, 46, 851-861.
48. Illman, A. M., Scragg, A. H., Shales, S. W., Increase in Chlorella strains calorific values when grown in low nitrogen medium. Enzyme Microb. Technol. 2000, 27, 631-635.
49. Converti, A., Casazza, A. A., Ortiz, E. Y., Perego, P. et al., Effect of temperature and nitrogen concentration on the growth and lipid content of Nannochloropsis oculata and Chlorella vulgaris for biodiesel production. Chem. Eng. Process. Process Intensification 2009, 48, 1146-1151.
50. Degenhardt, R. F., Bonham-Smith, P. C., Arabidopsis ribosomal proteins RPL23aA and RPL23aB are differentially targeted to the nucleolus and are disparately required for normal development. Plant Physiol. 2008, 147, 128-142.
51. Sung, M.-S., Hsu, Y.-T., Ho, K.-L., Lee, T.-M., Implications of the up-regulation of genes encoding protein degradation enzymes and heat shock protein 90 for intertidal green macroalga ulva fasciata against hypersalinity-induced protein oxidation. Mar. Biotechnol. 2010, 13, 684-694.
52. Yokthongwattana, K. C., Bozena, Behrman, S., Casper-Lindley, C., Melis, A., Photosystem II damage and repair cycle in the green alga Dunaliella salina: involvement of a chloroplast-localized HSP70. Plant Cell Physiol. 2001, 42, 1389-13987.
53. Kropat, J., Oster, U., Rudiger, W. B., Christoph, F., Chlorophyll precursors are signals of chloroplast origin involved in light induction of nuclear heat-shock genes. Proc. Natl. Acad. Sci. USA 1997, 94, 14168-14172.
54. Schroda, M., Vallon, O., Wollman, F.-A., Beck, C. F., A chlorplast-targeted heat shock protein 70 (HSP70) contributes to the photoprotection and repair of Photosystem II during and after photo inhibition. Plant Cell 1999, 11, 1165-1178.