World Journal of Microbiology and Biotechnology

, Volume 27, Issue 8, pp 1955–1959

Phylogenetic diversity of bacteria associated with the endemic freshwater sponge Lubomirskia baicalensis

  • Oksana V. Kaluzhnaya
  • Valeria B. Itskovich
  • Grace P. McCormack
Short Communication

Abstract

In this study, for the first time the diversity of bacteria associated with the endemic freshwater sponge Lubomirskia baicalensis collected from the Sousern Basin of Lake Baikal was investigated employing cultivation-independent approaches. In total, 102 bacterial 16S rRNA clones were screened using restriction fragment length polymorphism (RFLP) and 30 were selected for sequencing. BLASTN and phylogenetic analysis based on near full length 16S rDNA sequences showed that 22 operational taxonomic units (OTUs) were clustered in six known phyla: Actinobacteria (8 OTUs), alpha-Proteobacteria (4 OTUs), beta-Proteobacteria (4 OTUs), Verrucomicrobia (4 OTUs), Nitrospiracea (1 OTU) and Bacteroidetes (1 OTU). Remarkably all phylotypes were affiliated to uncultured microorganisms, however, all alpha-Proteobacteria sequences were closely related to bacteria derived from the freshwater sponge Spongilla lacustris. Our results reveal a high diversity in the L. baicalensis bacterial community and provide an insight into microbial ecology and diversity within freshwater sponges inhabiting the ancient Lake Baikal ecosystem.

Keywords

Porifera Freshwater sponge Lubomirskia baicalensis Microbial diversity 16S rRNA 

References

  1. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410Google Scholar
  2. Bano N, Hollibaugh JT (2002) Phylogenetic composition of bacterioplankton assemblages from the Arctic Ocean. Appl Environ Microb 68:505–518CrossRefGoogle Scholar
  3. Efremova SM (2001) Sponges (Porifera). In: Timoshkin OA (ed) Index of animal species inhabiting Lake Baikal and its catchment area. Nauka, Novosibirsk, pp 182–192Google Scholar
  4. Gernert C, Glockner FO, Krohne G, Hentschel U (2005) Microbial diversity of the freshwater sponge Spongilla lacustris. Microb Ecol 50:206–212CrossRefGoogle Scholar
  5. Guindon S, Delsuc F, Dufayard JF, Gascuel O (2009) Estimating maximum likelihood phylogenies with PhyML. Meth Mol Biol 537:113–137CrossRefGoogle Scholar
  6. Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98Google Scholar
  7. Hentschel U, Usher KM, Taylor MW (2006) Marine sponges as microbial fermenters. FEMS Microbiol Ecol 55:167–177CrossRefGoogle Scholar
  8. Hoffmann F, Radax R, Woebken D, Holtappels M, Lavik G, Rapp HT, Schläppy ML, Schleper C, Kuypers MM (2009) Complex nitrogen cycling in the sponge Geodia barretti. Environ Microbiol 11:2228–2243CrossRefGoogle Scholar
  9. Isaacs LT, Kan J, Nguyen L, Videau P, Anderson MA, Wrigh TL, Hill RT (2009) Comparison of the Bacterial Communities of wild and captive sponge Clathria prolifera from the Chesapeake Bay. Mar Biotechnol 11:758–770CrossRefGoogle Scholar
  10. Lee OO, Chui PY, Wong YH, Pawlik JR, Qian PY (2009) Evidence for vertical transmission of bacterial symbionts from adult to embryo in the caribbean sponge Svenzea zeai. Appl Env Microbiol 75:6147–6156CrossRefGoogle Scholar
  11. Manconi R, Pronzato R (2002) Suborder Spongillina subord. nov.: freshwater sponges. In: Hooper NJA, van Soest RWM (eds) Systema Porifera: a Guide to the Classification of Sponges. Kluwer Academic/Plenum Publisher, New York, pp 921–1019Google Scholar
  12. Mohamed NM, Rao V, Hamann MT, Kelly M, Hill RT (2008) Monitoring bacterial diversity of the marine sponge Ircinia strobilina upon transfer into aquaculture. Appl Env Microbiol 74:4133–4143CrossRefGoogle Scholar
  13. Mohamed NM, Saito K, Tal Y, Hill RT (2010) Diversity of aerobic and anaerobic ammonia-oxidizing bacteria in marine sponges. ISME J 4:38–48CrossRefGoogle Scholar
  14. Parfenova VV, Terkina IA, Kostornova TY, Nikulina IG, Chernykh VI, Maksimova EA (2008) Microbial community of freshwater sponges in Lake Baikal. Biol Bulletin 35:374–379CrossRefGoogle Scholar
  15. Ronquist F, Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572–1574CrossRefGoogle Scholar
  16. Schneemann I, Nagel K, Kajahn I, Labes A, Wiese J, Imhoff JF (2010) Comprehensive investigation of marine Actinobacteria associated with the sponge Halichondria panicea. Appl Environ Microbiol 76:3702–3714CrossRefGoogle Scholar
  17. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: Molecular Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596–1599CrossRefGoogle Scholar
  18. Taylor MW, Radax R, Steger D, Wagner M (2007) Sponge-associated microorganisms: evolution, ecology, and biotechnological potential. Microbiol Mol Biol Rev 71:295–347CrossRefGoogle Scholar
  19. Thomas TRA, Kavlekar DP, LokaBharathi PA (2010) Marine drugs from sponge-microbe association–a review. Mar Drugs 8:1417–1468CrossRefGoogle Scholar
  20. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl Acids Res 25:4876–4882CrossRefGoogle Scholar
  21. Timoshkin OA (ed) (1995) Index of animal species inhabiting Lake Baikal and its catchement area. Nauka, Novosibirsk, pp 1261–1278Google Scholar
  22. Webster NS, Blackall LL (2009) What do we really know about sponge-microbial symbioses? ISME J 3:1–3CrossRefGoogle Scholar
  23. Zhu P, Li Q, Wang G (2008) Unique microbial signatures of the alien Hawaiian marine sponge Suberites zeteki. Microb Ecol 55: 406–414Google Scholar

Copyright information

© Springer Science+Business Media B.V. 2011

Authors and Affiliations

  • Oksana V. Kaluzhnaya
    • 1
  • Valeria B. Itskovich
    • 1
  • Grace P. McCormack
    • 2
  1. 1.Limnological Institute of the Siberian Branch of the Russian Academy of SciencesIrkutskRussia
  2. 2.Molecular Evolution and Systematics Laboratory, Zoology DepartmentRyan Institute, School of Natural Sciences, National University of IrelandGalwayIreland

Personalised recommendations