Abstract
Microalgae are the main component of first tropic level in aquatic food chain; it is for this reason that they are used as food in aquaculture. Also due to its biotechnological potential properties, they are used in the production of diverse components, dyes, antioxidants, enzymes, emulsifiers, etc. The extended ways of microalgae applications require physiologically and genetically stable cultures as well as correctly identified organisms to guarantee reproducibility and reliability. But the variety of species and the morphological similarity between some of them make difficult the identification of some microalgae. The use of molecular markers has supplied a very useful tool for identification of microalgae in fast mode, such as in classification. The present study has worked on the molecular characterization of main species of microalgae used in aquaculture in base of the molecular markers 18S rRNA and 16S rRNA. Microalgae DNA has been amplified and sequenced, and the resultant sequences were analyzed and reflected in phylogenetic trees. The phylogenetic analyses obtained reflect as both molecular markers allow to differentiate the main genus used in aquaculture.


Similar content being viewed by others
References
Alverson AJ, Kolnick L (2005) Intragenomic nucleotide polymorphism among small subunit (18S) rDNA paralogs in the diatom genus Skeletonema (Bacillariophyta). J Phycol 41:1248–1257
Benemann JR (1992) Microalgae aquaculture feeds. J Appl Phycol 4:233–245
Benemann JR, Van Olst JC, Massingill M, Carlberg JA, Weissman JC, Brune DE (2003) The controlled eutrophication process: using microalgae for CO2 utilization and agricultural fertilizer recycling. In: Gale J, Kaya Y (eds) Greenhouse gas control technologies, vols I and II, proceedings, pp 1433–1438
Bhosale P (2004) Environmental and cultural stimulants in the production of carotenoids from microorganisms. Appl Microbiol Biotechnol 63:351–361
Bird C, Murphy C, Rice E, Ragan M (1992) The 18S rRNA gene sequences of four commercially important seaweeds. J Appl Phycol 4:379–384
Bowler C, Allen AE, Badger JH, Grimwood J, Jabbari K, Kuo A, Maheswari U, Martens C, Maumus F, Otillar RP, Rayko E, Salamov A, Vandepoele K, Beszteri B (2008) The Phaeodactylum genome reveals the evolutionary history of diatom genomes. Nature 456:239–244
Boyer SL, Flechtner VR, Johansen JR (2001) Is the 16S–23S rRNA internal transcribed spacer region a good tool for use in molecular systematics and population genetics? A case study in cyanobacteria. Mol Biol Evol 18:1057–1069
Boyer SL, Johansen JR, Flechtner VR, Howard GL (2002) Phylogeny and genetic variance in terrestrial Microcoleus (Cyanophyceae) species based on sequence analysis of the 16 s rRNA gene and associated 16S–23S ITS region. J Phycol 38:1222–1235
Brown MR, Jeffrey SW, Volkman JK, Dunstan GA (1997) Nutritional properties of microalgae for mariculture. Aquaculture 151:315–331
Butcher RW (1959) An introductory account of the smaller algae of British coastal waters. Part I: introduction and chlorophyceae. Minist Agric Fish Food, Fish Invest, Great Britain
Cavallis LL, Edwards AWF (1967) Phylogenetic analysis—models and estimation procedures. Evolution 21:550–555
Chisti Y (2008) Biodiesel from microalgae beats bioethanol. Trend Biotechnol 26:126–131
Cocquyt E, Verbruggen H, Leliaert F, Zechman FW, Sabbe K, De Clerck O (2009) Gain and loss of elongation factor genes in green algae. BMC Evol Biol 9:39
Coutteau P (1996) Manual on the production and use of live food for aquaculture. FAO Fisheries. Technical Paper. Cap 2-Micro-Algae 361
Dayananda C, Kumudha A, Sarada R, Ravishankar GA (2010) Isolation, characterization and outdoor cultivation of green microalgae Botryococcus sp. Sci Res Essay 5:2497–2505
de-Bashan LE, Hernandez JP, Morey T, Bashan Y (2004) Microalgae growth-promoting bacteria as “helpers” for microalgae: a novel approach for removing ammonium and phosphorus from municipal wastewater. Water Res 38:466–474
Diraman H, Koru E, Dibeklioglu H (2009) Fatty acid profile of Spirulina platensis used as a food supplement. Israeli J Aquac-Bamidgeh 61:134–142
Ghasemi Y, Rasoul-Amini S, Morowvat MH, Raee MJ, Ghoshoon MB, Nouri F, Negintaji N, Parvizi R, Mosavi-Azam SB (2008) Characterization of hydrocortisone biometabolites and 18S rRNA gene in chlamydomonas reinhardtii cultures. Molecules 13:2416–2425
Gile GH, Novis PM, Cragg DS, Zuccarello GC, Keeling PJ (2009) The distribution of elongation factor-1 alpha (EF-1 alpha), elongation factor-like (EFL), and a non-canonical genetic code in the ulvophyceae: discrete genetic characters support a consistent phylogenetic framework. J Eukaryot Microbiol 56:367–372
Gomez PI, Gonzalez MA (2004) Genetic variation among seven strains of Dunaliella salina (Chlorophyta) with industrial potential, based on RAPD banding patterns and on nuclear ITS rDNA sequences. Aquaculture 233:149–162
Gouveia L, Coutinho C, Mendonca E, Batista AP, Sousa I, Bandarra NM, Raymundo A (2008) Functional biscuits with PUFA-omega 3 from Isochrysis galbana. J Sci Food Agric 88:891–896
Guevara M, Lodeiros U, Gomez O, Lemus N, Nunez P, Romero L, Vasquez A, Rosales N (2005) Carotenogenesis of five strains of the algae Dunaliella sp (Chlorophyceae) isolated from Venezuelan hypersaline lagoons. Rev Biol Trop 53:331–337
Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 41:95–98
Harper JT, Waanders E, Keeling PJ (2005) On the monophyly of chromalveolates using a six-protein phylogeny of eukaryotes. Int J Syst Evol Microbiol 55:487–496
Herrero B, Madriñan M, Vieites JM, Espiñeira M (2010) Rapid identification of seaweeds in food products by PCR combined with ALF-RFLP and FINS methodologies. J Agric Food Chem 58:11586–11592
Hillis DM, Bull JJ (1993) An empirical-test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Syst Biol 42:182–192
Honda D, Yokota A, Sugiyama J (1999) Detection of seven major evolutionary lineages in cyanobacteria based on the 16S rRNA gene sequence analysis with new sequence of five marine Synechococcus strains. J Mol Evol 48:723–739
Hoshina R, Iwataki M, Imamura N (2010) Chlorella variabilis and Micractinium reisseri sp nov (Chlorellaceae, Trebouxiophyceae): redescription of the endosymbiotic green algae of Paramecium bursaria (Peniculia, Oligohymenophorea) in the 120th year. Phycol Res 58:188–201
John U, Beszteri S, Glockner G, Singh R, Medlin L, Cembella AD (2010) Genomic characterisation of the ichthyotoxic prymnesiophyte Chrysochromulina polylepis, and the expression of polyketide synthase genes in synchronized cultures. Eur J Phycol 45:215–229
Jorquera O, Kiperstok A, Sales EA, Embirucu M, Ghirard ML (2010) Comparative energy life-cycle analyses of microalgal biomass production in open ponds and photobioreactors. Biores Technol 101:1406–1413
Kooistra WHFC, Sarno D, Hernández-Becerril DU, Assmy P, Di Prisco C, Montresor C (2010) Comparative molecular and morphological phylogenetic analyses of taxa in the Chaetocerotaceae (Bacillariophyta). Phycologia 49:471–500
Lyra C, Hantula J, Vainio E, Rapala J, Rouhiainen L, Sivonen K (1997) characterizationof cyanobacteria by SDS-PAGE of whole-cell proteins and PCR/RFLP of the 16S rRNA gene. Arch Microbiol 168:176–184
Mao TK, Van de Water J, Gershwin ME (2005) Effects of a Spirulina-based dietary supplement on cytokine production from allergic rhinitis patients. J Med Food 8:27–30
Mc Carthy C (1996) Chromas version 1.45. School of Health science, Griffifth University, Gold Coast Campus, Queensland, Australia
Medlin LK, Elwood HJ, Stickel S, Sogin ML (1991) Morphological and genetic variation within the diatom skeletonema costatum (Bacillariophyta): evidence for a new species, skeletonema pseudocostatum. J Phycol 27:514–524
Novis PM, Halle C, Wilson B, Tremblay LA (2009) Identification and characterization of freshwater algae from a pollution gradient using rbcL sequencing and toxicity testing. Arch Environ Contam Toxicol 57:504–514
Penna A, Galluzzi L (2008) PCR techniques as diagnostic tools for the identification and enumeration of toxic marine phytoplankton species. Algal toxins: nature, occurrence, effect and detection, pp. 261–283
Pinto AC, Guarieiro LLN, Rezende MJC, Ribeiro NM, Torres EA, Lopes WA, Pereira PAD, de Andrade JB (2005) Biodiesel: an overview. J Brazilian Chem Soc 16:1313–1330
Pratoomyot J, Srivilas P, Noiraksar T, Songklanakarin (2005) Fatty acids composition of 10 microalgal species J Sci Technol 27:1179–1187
Proschold T, Marin B, Schlosser UG, Melkonian M (2001) Molecular phylogeny and taxonomic revision of chlamydomonas (Chlorophyta). I. Emendation of chlamydomonas ehrenberg and chloromonas gobi, and description of oogamochlamys gen. nov and lobochlamys gen. nov. Protist 152:265–300
Pruvost J, Van Vooren G, Cogne G, Legrand J (2009) Investigation of biomass and lipids production with Neochloris oleoabundans in photobioreactor. Biores Technol 100:5988–5995
Pulz O, Gross W (2004) Valuable products from biotechnology of microalgae. Appl Microbiol Biotechnol 65:635–648
Saitou N, Nei M (1987) The Neighbor-Joining method—a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
Saker M, Moreira C, Martins J, Neilan B, Vasconcelos VM (2009) DNA profiling of complex bacterial populations: toxic cyanobacterial blooms. Appl Microbiol Biotechnol 85:237–252
Santaclara FJ, Espiñeira M, Cabado AG, Aldasoro A, Gonzalez-Lavin N, Vieites JM (2006) Development of a method for the genetic identification of mussel species belonging to Mytilus, Perna, Aulacomya, and other genera. J Agric Food Chem 54:8461–8470
Sastre RR, Posten C (2010) The variety of microalgae applications as a renewable resource. Chemie Ingenieur Technik 82:1925–1939
Sayre RT, Wagner RE, Siripornadulsil S, Farias C (2003) Transgenic algae for delivering antigens to an animal. US
Sobczuk TM, Chisti Y (2010) Potential fuel oils from the microalga Choricystis minor. J Chem Technol Biotechnol 85:100–108
Spolaore P, Joannis-Cassan C, Duran E, Isambert A (2006) Commercial applications of microalgae. J Biosci Bioeng 101:87–96
Tamura K, Nei M (1993) Estimation of the number of nucleotide substitutions in the control region of mitochondrial-DNA in humans and chimpanzees. Mol Biol Evol 10:512–526
Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596–1599
Tateno Y, Takezaki N, Nei M (1994) Relative efficiencies of the maximum-likelihood, Neighbor-Joining, and Maximum-Parsimony methods when substitution rate varies with site. Mol Biol Evol 11:261–277
Walker TL, Purton S, Becker DK, Collet C (2005) Microalgae as bioreactors. Plant Cell Rep 24:629–641
Walsh DT, Withstanldley CA, Kraus RA, Petrovits BJ (1987) Mass culture of selected marine microalgae for the nursery production of bivalve seed. J Shellfish Res 6:71–77
Williams PJL, Laurens LML (2010) Microalgae as biodiesel & biomass feedstocks: review & analysis of the biochemistry, energetics & economics. Energy Environ Sci 3:554–590
Winfrey MR, Rott MA, Wortman AT (1997) UnraVeling DNA: molecular biology for the laboratory. Prentice Hall, New York
Yang HL, Lu CK, Chen SF, Chen YM, Chen YM (2010) Isolation and characterization of Taiwanese heterotrophic microalgae: screening of strains for docosahexaenoic acid (DHA) production. Mar Biotechnol 12:173–185
Yoon HS, Müller KM, Sheath RG, Ott FD, Bhattacharya D (2006) Defining the major lineages of red algae (Rhodophyta). J Phycol 42:482–492
Yu Y, Chen B, You W (2007) Identification of the alga known as Nannochloropsis Z-1 isolated from a prawn farm in Hainan, China as Chlorella. World J Microbiol Biotechnol 23:207–210
Zakharova YR, Adel’shin RV, Parfenova VV, Bedoshvili YD, Likhoshway YV (2010) Taxonomic characterization of the microorganisms associated with the cultivable diatom Synedra acus from Lake Baikal. Microbiology 79:679–687
Zhang H, Bhattacharya D, Lin S (2005) Philogeny of dinoflagellates based on mitochondrial cytochrome B and nuclear small subunit rDNA sequence comparison. J Phycol 41:411–420
Zhou XR, Robert SS, Petrie JR, Frampton DMF, Mansour MP, Blackburn SI, Nichols PD, Green AG, Singh SP (2007) Isolation and characterization of genes from the marine microalga Pavlova salina encoding three front-end desaturases involved in docosahexaenoic acid biosynthesis. Phytochemistry 68:785–796
Acknowledgments
We are grateful to Arturo Silva Abuin (The Royal University of Santiago de Compostela) and Tito Peleteiro (Spanish Institute of Oceanography) for providing the microalgae strains.
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Alonso, M., Lago, F.C., Vieites, J.M. et al. Molecular characterization of microalgae used in aquaculture with biotechnology potential. Aquacult Int 20, 847–857 (2012). https://doi.org/10.1007/s10499-012-9506-8
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s10499-012-9506-8