Abstract
Dianchi Lake is a typical Chinese eutrophic lake. The bacterial community in the polluted water of the Dianchi lakeshore was investigated by cultivation-independent approaches. The amplicon length heterogeneity polymerase-chain reaction (LH-PCR) was used to detect the major differences in bacterial structure among the nine different sampling sites. Cluster analysis shows that the bacterial communities in water blooming sites were similar. Three genes were employed to characterize bacteria in the two parts of Dianchi Lake. The 16S rRNA gene was used to analyze the total bacterial community, the ammonia monooxygenase (amoA) gene for detecting ammonia-oxidizing bacteria, and the nitrous oxide reductase (nosZ) gene for identifying denitrifying bacteria. The clone library results demonstrate that Proteobacteria, Bacteroidetes, and Cyanobacteria were the dominant bacteria in both parts of the lake. The communities of ammonia-oxidizing bacteria were very different in the two parts of the lake and belonged to Nitrospira in the north and Nitrosomonas in the south part, respectively. Denitrifying bacteria in the Dianchi lakeshore were related to several cultured denitrifiers such as Pseudomonas, Paracoccus, Achromobacter, and Rubrivivax.
Similar content being viewed by others
References
Altabet MA, Higginson MJ, Murray DW (2002) The effect of millennial-scale changes in Arabian Sea denitrification on atmospheric CO2. Nature 415:159–162
Ashelford KE, Chuzhanova NA, Fry JC, Jones AJ, Weightman AJ (2006) New screening software shows that most recent large 16S rRNA gene clone libraries contain chimeras. Appl Environ Microbiol 72:5734–5741
Bai YH, Sun QH, Zhao C, Wen DH, Tang XY (2008) Microbial degradation and metabolic pathway of pyridine by a Paracoccus sp. strain BW001. Biodegradation 19:915–926
Baik K, Park S, Kim E, Bae K, Ann JH, Ka JO, Chun J, Seong C (2008) Diversity of bacterial community in freshwater of Woopo wetland. J Microbiol 46:647–655
Bernot MJ, Bernot RJ, Morris JT (2009) Nutrient cycling relative to delta N-15 and delta C-13 natural abundance in a coastal wetland with long-term nutrient additions. Aquat Ecol 43:803–813
Bouvy M, Molica R, De Oliveira S, Marinho M, Beker B (1999) Dynamics of a toxic cyanobacterial bloom (Cylindrospermopsis raciborskii) in a shallow reservoir in the semi-arid region of northeast Brazil. Aquat Microb Ecol 20:285–297
Chao A (1987) Estimating the population size for capture recapture data with unequal catchability. Biometrics 43:783–791
Chen GY, Qiu SL, Zhou YY (2009) Diversity and abundance of ammonia-oxidizing bacteria in eutrophic and oligotrophic basins of a shallow Chinese lake (Lake Donghu). Res Microbiol 160:173–178
Cole JR, Wang Q, Cardenas E, Fish J, Chai B, Farris RJ, Kulam-Syed-Mohideen AS, McGarrell DM, Marsh T, Garrity GM, Tiedje JM (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res 37:D141–D145
Conley DJ, Paerl HW, Howarth RW, Boesch DF, Seitzinger SP, Havens KE, Lancelot C, Likens GE (2009) Controlling eutrophication: nitrogen and phosphorus. Science 323:1014–1015
de Figueiredo DR, Pereira MJ, Correia A (2010) Seasonal modulation of bacterioplankton community at a temperate eutrophic shallow lake. World J Microbiol Biotechnol 26:1067–1077
Dillon JG, McMath LM, Trout AL (2009) Seasonal changes in bacterial diversity in the Salton Sea. Hydrobiologia 632:49–64
Eiler A, Bertilsson S (2004) Composition of freshwater bacterial communities associated with cyanobacterial blooms in four Swedish lakes. Environ Microbiol 6:1228–1243
Fabbro LD, Duivenvoorden LJ (1996) Profile of a bloom of the cyanobacterium Cylindrospermopsis raciborskii (Woloszynska) Seenaya and Subba Raju in the Fitzroy River in tropical central Queensland. Mar Freshwater Res 47:685–694
Good IJ (1953) The population frequencies of species and the estimation of population parameters. Biometrika 40:237–264
Hugenholtz P, Goebel BM, Pace NR (1998) Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J Bacteriol 180:4765–4774
Kolmonen E, Sivonen K, Rapala J, Haukka K (2004) Diversity of cyanobacteria and heterotrophic bacteria in cyanobacterial blooms in Lake Joutikas, Finland. Aquat Microb Ecol 36:201–211
Lin YT, Huang YJ, Tang SL, Whitman WB, Coleman DC, Chiu CY (2010) Bacterial Community Diversity in Undisturbed Perhumid Montane Forest Soils in Taiwan. Microb Ecol 59:369–378
Liu FH, Lin GH, Gao G, Qin BQ, Zhang JS, Zhao GP, Zhou ZH, Shen JH (2009) Bacterial and archaeal assemblages in sediments of a large shallow freshwater lake, Lake Taihu, as revealed by denaturing gradient gel electrophoresis. J Appl Microbiol 106:1022–1032
Lueders T, Friedrich MW (2003) Evaluation of PCR amplification bias by terminal restriction fragment length polymorphism analysis of small-subunit rRNA and mcrA genes by using defined template mixtures of methanogenic pure cultures and soil DNA extracts. Appl Environ Microbiol 69:320–326
Martinez-Alonso M, Mendez-Alvarez S, Ramirez-Moreno S, Gonzalez-Toril E, Amils R, Gaju N (2008) Spatial heterogeneity of bacterial populations in monomictic Lake Estanya (Huesca, Spain). Microb Ecol 55:737–750
Muylaert K, Van der Gucht K, Vloemans N, De Meester L, Gillis M, Vyverman W (2002) Relationship between bacterial community composition and bottom-up versus top-down variables in four eutrophic shallow lakes. Appl Environ Microbiol 68:4740–4750
Purkhold U, Pommerening-Roser A, Juretschko S, Schmid MC, Koops HP, Wagner M (2000) Phylogeny of all recognized species of ammonia oxidizers based on comparative 16S rRNA and amoA sequence analysis: Implications for molecular diversity surveys. Appl Environ Microbiol 66:5368–5382
Rösch C, Mergel A, Bothe H (2002) Biodiversity of denitrifying and dinitrogen-fixing bacteria in an acid forest soil. Appl Environ Microbiol 68:3818–3829
Rich JJ, Heichen RS, Bottomley PJ, Cromack K, Myrold DD (2003) Community composition and functioning of denitrifying bacteria from adjacent meadow and forest soils. Appl Environ Microbiol 69:5974–5982
Ritchie NJ, Schutter ME, Dick RP, Myrold DD (2000) Use of length heterogeneity PCR and fatty acid methyl ester profiles to characterize microbial communities in soil. Appl Environ Microbiol 66:1668–1675
Rotthauwe JH, Witzel KP, Liesack W (1997) The ammonia monooxygenase structural gene amoA as a functional marker: Molecular fine-scale analysis of natural ammonia-oxidizing populations. Appl Environ Microbiol 63:4704–4712
Sakano Y, Pickering KD, Strom PF, Kerkhof LJ (2002) Spatial distribution of total, ammonia-oxidizing, and denitrifying bacteria in biological wastewater treatment reactors for bioregenerative life support. Appl Environ Microbiol 68:2285–2293
Scala DJ, Kerkhof LJ (1999) Diversity of nitrous oxide reductase (nosZ) genes in continental shelf sediments. Appl Environ Microbiol 65:1681–1687
Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF (2009) Introducing mothur: Open-source, platform-Independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75:7537–7541
Shannon CE, Weaver W (1963) The mathematical theory of communication. Universiy of Illinois Press, Urbana
State Environmental Protection Administration of China (1989) Monitoring and analysis method of water and wastewater, 3rd edn (in Chinese). China Environmental Science Press, Beijing
Stevens H, Stubner M, Simon M, Brinkhoff T (2005) Phylogeny of Proteobacteria and Bacteroidetes from oxic habitats of a tidal flat ecosystem. FEMS Microbiol Ecol 54:351–365
Stres B, Mahne I, Avgustin G, Tiedje JM (2004) Nitrous oxide reductase (nosZ) gene fragments differ between native and cultivated Michigan soils. Appl Environ Microbiol 70:301–309
Talbot HM, Summons RE, Jahnke LL, Cockell CS, Rohmer M, Farrimond P (2008) Cyanobacterial bacteriohopanepolyol signatures from cultures and natural environmental settings. Org Geochem 39:232–263
Tamaki H, Sekiguchi Y, Hanada S, Nakamura K, Nomura N, Matsumura M, Kamagata Y (2005) Comparative analysis of bacterial diversity in freshwater sediment of a shallow eutrophic lake by molecular and improved cultivation-based techniques. Appl Environ Microbiol 71:2162–2169
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
Tang XM, Gao G, Chao JY, Wang XD, Zhu GW, Qin BQ (2010) Dynamics of organic-aggregate-associated bacterial communities and related environmental factors in Lake Taihu, a large eutrophic shallow lake in China. Limnol Oceanogr 55:469–480
Teske A, Alm E, Regan JM, Toze S, Rittmann BE, Stahl DA (1994) Evolutionary relationships among ammonia-oxidizing and nitrite-oxidizing bacteria. J Bacteriol 176:6623–6630
Wagner M, Horn M (2006) The Planctomycetes, Verrucomicrobia, Chlamydiae and sister phyla comprise a superphylum with biotechnological and medical relevance. Curr Opin Biotechnol 17:241–249
Ye WJ, Liu XL, Lin SQ, Tan J, Pan JL, Li DT, Yang H (2009) The vertical distribution of bacterial and archaeal communities in the water and sediment of Lake Taihu. FEMS Microbiol Ecol 70:263–276
Acknowledgments
This study was supported by a General Project (No. 51008003) grant from the National Natural Science Foundation of China and a National Science & Technology Mega-program on Water Pollution Control for the 11th Five-Year Plan (2009ZX07102-002-01). The authors thank Dr. Zbigniew Cichacz in the Biodesign Institute at Arizona State University for carefully checking of this paper.
Author information
Authors and Affiliations
Corresponding authors
Electronic supplementary material
Below is the link to the electronic supplementary material.
Figure S1
(DOC 211 kb)
Rights and permissions
About this article
Cite this article
Wen, D., Bai, Y., Shi, Q. et al. Bacterial diversity in the polluted water of the Dianchi Lakeshore in China. Ann Microbiol 62, 715–723 (2012). https://doi.org/10.1007/s13213-011-0311-9
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s13213-011-0311-9