Scientia Marina, Vol 73, No 3 (2009)

Bacterial community structure of mangrove sediments in relation to environmental variables accessed by 16S rRNA gene-denaturing gradient gel electrophoresis fingerprinting


https://doi.org/10.3989/scimar.2009.73n3487

Yanying Zhang
South China Sea Institute of Oceanology, Chinese Academy of Sciences, China

National Experiment Station of Tropical Marine Biology, China
Key Laboratory of Marine Bio-resources Sustainable Utilisation (LMB), China
Graduate School of Chinese Academy of Science, Beijing, P. R. China

Junde Dong
South China Sea Institute of Oceanology, Chinese Academy of Sciences, China

National Experiment Station of Tropical Marine Biology, China
Key Laboratory of Marine Bio-resources Sustainable Utilisation (LMB), China

Bin Yang
South China Sea Institute of Oceanology, Chinese Academy of Sciences, China

National Experiment Station of Tropical Marine Biology, China
Key Laboratory of Marine Bio-resources Sustainable Utilisation (LMB), China

Juan Ling
South China Sea Institute of Oceanology, Chinese Academy of Sciences, China

National Experiment Station of Tropical Marine Biology, China.
Key Laboratory of Marine Bio-resources Sustainable Utilisation (LMB), China
Graduate School of Chinese Academy of Science, Beijing, P. R. China

Youshao Wang
South China Sea Institute of Oceanology, Chinese Academy of Sciences, China

Si Zhang
South China Sea Institute of Oceanology, Chinese Academy of Sciences, China

Key Laboratory of Marine Bio-resources Sustainable Utilisation (LMB), China

Abstract


Bacterial community structure and the relationship between environmental variables and microbial communities in the surface sediments of tropical mangrove ecosystems were investigated in Sanya, Hainan Island, China. Profiles of bacterial communities were generated using culture-independent PCR-denaturing gradient gel electrophoresis (DGGE), and the results were interpreted with multivariate statistical analysis. Findings suggested that microbial communities varied with sample collection sites and seasons. The samples collected from the same sample sites at the same time had more similar microbial communities except samples SH3 and AB5, which also had unique sediment quality. Canonical correspondence analysis (CCA) revealed that the organic carbon concentration of the sediments accounted for a significant amount of the variability in the bacterial community composition. Phylogenetic analysis was used to identify the major groups of the predominant bacterial phylotypes. 16S rRNA gene-V3 fragments from 17 individual DGGE bands were sequenced and the corresponding bacteria were found in mangrove sediments for the first time based on BLAST results. Predominant bacterial phylotypes clustered with various taxonomic groups, including Proteobacteria, Bacteroidetes, Gemmatimonadetes, Actinobacteria and Firmicutes.

Keywords


bacterial community, mangrove sediments, denaturing gradient gel electrophoresis, multivariate statistics

Full Text:


PDF

References


Alongi, D.M. – 1988. Bacterial productivity and microbial biomass in tropical mangrove sediments. Microb. Ecol., 15: 59-79. doi:10.1007/BF02012952

Alongi, D.M. – 1994. The role of bacteria in nutrient recycling in tropical mangrove and other coastal benthic ecosystems. Hydrobiologia, 285: 19-32. doi:10.1007/BF00005650

Alongi, D.M., K.G. Boto and F. Tirendi. – 1989. Effect of exported mangrove litter on bacterial productivity and dissolved organic carbon fluxes in adjacent tropical nearshore sediments. Mar. Ecol. Prog. Ser., 56: 133-144 doi:10.3354/meps056133

Alongi, D.M., P. Christoffersen and F. Tirendi. – 1993. The influence of forest type on microbial-nutrient relationships in tropical mangrove sediments. J. Exp. Mar. Biol. Ecol., 171: 201-223. doi:10.1016/0022-0981(93)90004-8

Amann, R.I., W. Ludwig and K.H. Schleifer. – 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev., 59: 143-169.

Araya, R., K. Tani, Y. Takagi, N. Yamaguchi and M. Nasu. – 2003. Bacterial activity and community composition in stream water and biofilm from an urban river determined by fluorescent in situ hybridisation and DGE analysis. FEMS Microbiol. Ecol., 43: 111-119. doi:10.1111/j.1574-6941.2003.tb01050.x

Bano, N., M.U. Nisa, N. Khan, M. Saleem, P.J. Harrison, S.I. Ahmed and F. Azam. – 1997. Significance of bacteria in the flux of organic matter in the tidal creeks of the mangrove ecosystem of the Indus river delta, Pakistan. Mar. Ecol. Prog. Ser., 157: 1-12 doi:10.3354/meps157001

Bao, S.D. – 1999. Analysis of agricultural soil. China Agriculture Press, Beijing.

Boto, K.G. – 1979. Nutrient and organic fluxes in mangroves. In: B.F. Clough (ed.), Mangrove ecosystems in Australia: structure, function and management, pp. 239-257. Colorcraft, Hong Kong.

Bürgmann, H., F. Widmer, W. Von Sigler and J. Zeyer. – 2004. New molecular screening tools for analysis of free-living diazotrophs in soil. Appl. Environ. Microbiol., 70: 240-247. doi:10.1128/AEM.70.1.240-247.2004 PMid:14711647    PMCid:321232

Fu, G.A. and J. Li. – 1999. Oldest and the original Sanya mangrove of Hainan Island. Tropical Forestry, 27: 16-22.

Holguin, G., M.A. Guzman and Y. Bashan. – 1992. Two new nitrogen- fixing bacteria from the rhizosphere of mangrove trees: Their isolation, identification and in vitro interaction with rhizosphere Staphylococcus sp. FEMS Microbiol. Ecol., 101: 207-216.

Holguin, G., P. Vazquez and Y. Bashan. – 2001. The role of sediment microorganisms in the productivity, conservation, and rehabilitation of mangrove ecosystems: an overview. Biol. Fertil. Soils, 33: 265-278. doi:10.1007/s003740000319

Huang, L.M., S. Zhang, H.K. Wang, W.Y. Wen and Q.M. Zhang. – 2007. Ecological Environment and Bio-resources for Sanya Bay, Hainan Island, China. In: C.Y. Huang, K.L. Peng and H. Xi (eds.), Mangrove resources and the ecological environment. pp. 239-248. Beijing, Science Press.

Iwamoto, T., K. Tani, K. Nakamura, Y. Suzuki and M. Kitagawa. – 2000. Monitoring impact of in situ biostimulation treatment on groundwater bacterial community by DGE. FEMS Microbiol. Ecol., 32: 129-141. doi:10.1111/j.1574-6941.2000.tb00707.x PMid:10817866

Jiang, J.G., S.G. Wu and Y.F. Shen. – 2007. Effects of seasonal succession and water pollution on the protozoan community structure in a eutrophic lake. Chemosphere, 66: 523-532. doi:10.1016/j.chemosphere.2006.05.042 PMid:16822536

Kathiresan, K. – 2003. Polythene and plastics-degrading microbes from the mangrove soil. Rev. Biol. Trop., 51(3): 629-634.

Li, Z., L. He, J. Wu and Q. Jiang. – 2006. Bacterial community diversity associated with four marine sponges from the South China Sea based on 16S rRNA gene-DGE fingerprinting. J. Exp. Mar. Biol. Ecol., 329: 75-85. doi:10.1016/j.jembe.2005.08.014

Liang, J.B., Y.Q. Chen, Y.L. Chong, N.F.Y. Tam, Q.J. Zan and L.N. Huang. – 2007. Recovery of novel bacterial diversity from mangrove sediment. Mar. Biol., 150: 739-747. doi:10.1007/s00227-006-0377-2

Liao, P.C., B.H. Huang and S. Huang. – 2007. Microbial community composition of the Danshui River estuary of northern Taiwan and the practicality of the phylogenetic method in microbial barcoding. Microb. Ecol., 54(3): 497-507. doi:10.1007/s00248-007-9217-2 PMid:17318679

Lynch, J.M. and J.M. Whipps. – 1990. Substrate flow in the rhizosphere. Plant Soil 129: 1-10. doi:10.1007/BF00011685

Mo, Y.N., Z.Z. Geng and W.B. Su. – 1999. Investigation report of Haina Island mangrove. Tropical Forestry, 27: 12-15.

Mouser, P.J., D.M. Rizzo, W.F.M. Roling and B.M.A. Van Breukelen. – 2005. Multivariate statistical approach to spatial representation of groundwater contamination using hydrochemistry and microbial community profiles. Environ. Sci. Technol., 39: 7551-7559. doi:10.1021/es0502627

Muckian, L., R. Grant, E. Doyle and N. Clipson. – 2007. Bacterial community structure in soils contaminated by polycyclic aromatic hydrocarbons. Chemosphere, 68: 1535-1541. doi:10.1016/j.chemosphere.2007.03.029 PMid:17482237

Muyzer, G., E.C. de Waal and A.G. Uitterlinden. – 1993. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol., 59: 695-700.

Rivera-Monroy, V.H. and R.R. Twilley. -1996. The relative role of denitrification and immobilization in the fate of inorganic nitrogen in mangrove sediments (Términos Lagoon, Mexico). Limnol. Oceanogr., 41: 284-296.

Sengupta, A. and S. Chaudhuri. – 1991. Ecology of heterotrophic dinitrogen fixation in the rhizosphere of mangrove plant community at the Ganges river estuary in India. Oecologia, 87(4): 560-564. doi:10.1007/BF00320420

Shannon, C.E. and W. Weaver. – 1963. The Mathematical Theory of Communication. University of Illinois Press, Urbana and Chicago, USA.

Shome, R., B.R. Shome, A.B. Mandal and A.K. Bandopadhyay. – 1995. Bacterial flora in mangroves of Andaman-Prat 1: Isolation, identification and antibiogram studies. Indian J. Mar. Sci., 24: 97-98.

Sousa, O.V., A. Macrae, F.G.R. Menezes, N.C.M. Gomes, R.H.S.F. Vieira and L.C.S. Mendonca-Hagler. – 2006. The impact of shrimp farming effluent on bacterial communities in mangrove waters, Ceara, Brazil. Mar. Pollut. Bull., 52(12): 1725-1734. doi:10.1016/j.marpolbul.2006.07.006 PMid:17010386

Staley, J.T. and A. Konopka. – 1985. Measurement of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats. Annu. Rev. Microbiol., 39: 321-346. doi:10.1146/annurev.mi.39.100185.001541 PMid:3904603

Takizaqa, M., R.R. Colwell and R.T. Hill. – 1993. Isolation and diversity of actinomycetes in the Chesapeake Bay. Appl. Environ. Microbiol., 59(4): 997-1002.

Ter Braak, C.J.F. – 1987. The analysis of vegetation-environment relationships by canonical correspondence analysis. Vegetation, 69: 69-77. doi:10.1007/BF00038688

Urakawa, H., K. Kita-Tsukamoto and K. Ohwada. – 1999. Microbial diversity in marine sediments from Sagami Bay and Tokyo Bay, Japan, as determined by 16S rRNA gene analysis. Microbiol., 145: 3305-3315.

Vazquez, P., G. Holguin, M.E. Puente, A. Lopez-Cortes and Y. Bashan. – 2000. Phosphate-solubilizing microorganisms associated with the rhizosphere of mangroves in a semiarid coastal lagoon. Biol. Fertil. Soils, 30: 460-468. doi:10.1007/s003740050024

Wang, Y. and K. Hong. – 2005. Effects of soil factors on microbe distributions in mangrove soil. Chin. J. Trop. Crops, 26(3): 109-114.

Wu, R.W. – 1993. Studies in the microbial flora of the Tansui River Mangrove forest. Inst. Bot., Acad. Sinia Monograph Ser., 13: 303-317.

Xi, F., L. Fu, G. Wang and T. Zheng. – 2006. A simple method for removing humic acids from marine sediment samples prior to DNA extraction. High Tech. Lett., 16(5): 539-544.

Zhang, Y.Y., J.J. Dong, Z.H. Yang, S. Zhang and Y.S. Wang. – 2008. Phylogenetic diversity of nitrogen-fixing bacteria in mangrove sediments assessed by PCR-Denat using Gradient Gel Electrophoresis. Arch. Microbiol., 190: 19-28. Scient. ed.: D. Vaqué.




Copyright (c) 2009 Consejo Superior de Investigaciones Científicas (CSIC)

Creative Commons License
This work is licensed under a Creative Commons Attribution 4.0 International License.


Contact us scimar@icm.csic.es

Technical support soporte.tecnico.revistas@csic.es