Skip to main content

Advertisement

SpringerLink
Log in

Spatiotemporal variation of planktonic and sediment bacterial assemblages in two plateau freshwater lakes at different trophic status

  • Environmental biotechnology
  • Published:
Applied Microbiology and Biotechnology Aims and scope Submit manuscript

Abstract

Both planktonic and sediment bacterial assemblages are the important components of freshwater lake ecosystems. However, their spatiotemporal shift and the driving forces remain still elusive. Eutrotrophic Dianchi Lake and mesotrophic Erhai Lake are the largest two freshwater lakes on the Yunnan Plateau (southwestern China). The present study investigated the spatiotemporal shift in both planktonic and sediment bacterial populations in these two plateau freshwater lakes at different trophic status. For either lake, both water and sediment samples were collected from six sampling locations in spring and summer. Bacterioplankton community abundance in Dianchi Lake generally far outnumbered that in Erhai Lake. Sediment bacterial communities in Erhai Lake were found to have higher richness and diversity than those in Dianchi Lake. Sediments had higher bacterial community richness and diversity than waters. The change patterns for both planktonic and sediment bacterial communities were lake-specific and season-specific. Either planktonic or sediment bacterial community structure showed a distinct difference between in Dianchi Lake and in Erhai Lake, and an evident structure difference was also found between planktonic and sediment bacterial communities in either of these two lakes. Planktonic bacterial communities in both Dianchi Lake and Erhai Lake mainly included Proteobacteria (mainly Alpha-, Beta-, and Gammaproteobacteria), Bacteroidetes, Actinobacteria, Cyanobacteria, and Firmicutes, while sediment bacterial communities were mainly represented by Proteobacteria (mainly Beta- and Deltaproteobacteria), Bacteroidetes, Chlorobi, Nitrospirae, Acidobacteria, and Chloroflexi. Trophic status could play important roles in shaping both planktonic and sediment bacterial communities in freshwater lakes.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3
Fig. 4
Fig. 5
Fig. 6
Fig. 7

Similar content being viewed by others

References

  • Almeida RM, Roland F, Cardoso SJ, Farjalla VF, Bozelli RL, Barros NO (2015) Viruses and bacteria in floodplain lakes along a major Amazon tributary respond to distance to the Amazon River. Front Microbiol 6:158

    Article  PubMed  PubMed Central  Google Scholar 

  • Bai YH, Shi Q, Wen DH, Li ZX, Jefferson WA, Feng CP, Tang XY (2012) Bacterial communities in the sediments of Dianchi Lake a partitioned eutrophic waterbody in China. PLoS One 7:e37796

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Bashenkhaeva MV, Zakharova YR, Petrova DP, Khanaev IV, Galachyants YP, Likhoshway YV (2015) Sub-ice microalgal and bacterial communities in freshwater Lake Baikal, Russia. Microb Ecol 70:751–765

    Article  PubMed  Google Scholar 

  • Bouzat JL, Hoostal MJ, Looft T (2013) Spatial patterns of bacterial community composition within Lake Erie sediments. J Great Lakes Res 39:344–351

    Article  Google Scholar 

  • Brek-Laitinen G, Bellido JL, Ojala A (2012) Response of a microbial food web to prolonged seasonal hypoxia in a boreal lake. Aquat Biol 14:105–120

    Article  Google Scholar 

  • Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Pena AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, ZaneveldJ KR (2010) QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7:335–336

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Chen N, Yang JS, Qu JH, Li HF, Liu WJ, Li BZ, Wang ET, Yuan HL (2015) Sediment prokaryote communities in different sites of eutrophic Lake Taihu and their interactions with environmental factors. World J Microbiol Biotechnol 31:883–896

    Article  CAS  PubMed  Google Scholar 

  • China Environmental Protection Agency (2002) Methods for water and wastewater determination. China Environmental Science Press, Beijing

    Google Scholar 

  • Crump BC, Kling GW, Bahr M, Hobbie JE (2003) Bacterioplankton community shifts in an arctic lake correlate with seasonal changes in organic matter source. Appl Environ Microbiol 69:2253–2268

    Article  PubMed  PubMed Central  Google Scholar 

  • Edgar RC (2013) UPARSE: highly accurate OTU sequences from microbial amplicon reads. Nat Methods 10:996

    Article  CAS  PubMed  Google Scholar 

  • Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R (2011) UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27:2194–2200

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Guan W, Yin M, He T, Xie SG (2015) Influence of substrate type on microbial community structure in vertical-flow constructed wetland treating polluted river water. Environ Sci Pollut Res 22:16202–16209

    Article  CAS  Google Scholar 

  • Haller L, Tonolla M, Zopfi J, Peduzzi R, Wildi W, Pote J (2011) Composition of bacterial and archaeal communities in freshwater sediments with different contamination levels (Lake Geneva Switzerland). Water Res 45:1213–1228

    Article  CAS  PubMed  Google Scholar 

  • Ju F, Zhang T (2014) Novel microbial populations in ambient and mesophilic biogas-producing and phenol-degrading consortia unraveled by high-throughput sequencing. Microb Ecol 68:235–246

    Article  PubMed  Google Scholar 

  • Jung J, Yeom J, Kim J, Han J, Lim HS, Park H, Hyun S, Park W (2011) Change in gene abundance in the nitrogen biogeochemical cycle with temperature and nitrogen addition in Antarctic soils. Res Microbiol 162:1018–1026

    Article  CAS  PubMed  Google Scholar 

  • Kent AD, Jones SE, Yannarell AC, Graham JM, Lauster GH, Kratz TK, Triplett EW (2004) Annual patterns in bacterioplankton community variability in a humic lake. Microb Ecol 48:550–560

    Article  CAS  PubMed  Google Scholar 

  • Konopka A, Bercot T, Nakatsu C (1999) Bacterioplankton community diversity in a series of thermally stratified lakes. Microb Ecol 38:126–135

    Article  PubMed  Google Scholar 

  • Lepš J, Šmilauer P (2003) Multivariate analysis of ecological data using CANOCO. Cambridge University Press, New York

    Google Scholar 

  • Li Q, Zhao Y, Zhang X, Wei YQ, Qiu LL, Wei ZM, Li FH (2015) Spatial heterogeneity in a deep artificial lake plankton community revealed by PCR-DGGE fingerprinting. Chin J Oceanol Limnol 33:624–635

    Article  CAS  Google Scholar 

  • Liao XB, Chen C, Zhang JX, Dai Y, Zhang XJ, Xie SG (2015) Operational performance biomass and microbial community structure: impacts of backwashing on drinking water biofilter. Environ Sci Pollut Res 22:546–554

    Article  CAS  Google Scholar 

  • Lim J, Woodward J, Tulaczyk S, Christoffersen P, Cummings SP (2011) Analysis of the microbial community and geochemistry of a sediment core from Great Slave Lake Canada. Antonie Van Leeuwenhoek 99:423–430

    Article  PubMed  Google Scholar 

  • Lindstrom ES (2000) Bacterioplankton community composition in five lakes differing in trophic status and humic content. Microb Ecol 40:104–113

    CAS  PubMed  Google Scholar 

  • Lindstrom ES, Bergstrom AK (2005) Community composition of bacterioplankton and cell transport in lakes in two different drainage areas. Aquat Sci 67:210–219

    Article  Google Scholar 

  • 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

    Article  CAS  PubMed  Google Scholar 

  • Liu Y, Zhang JX, Zhang XL, Xie SG (2014) Depth-related changes of sediment ammonia-oxidizing microorganisms in a high-altitude freshwater wetland. Appl Microbiol Biotechnol 98:5697–5707

    Article  CAS  PubMed  Google Scholar 

  • Liu LX, Xu M, Qiu S, Shen RC (2015) Spatial patterns of benthic bacterial communities in a large lake. Int Rev Hydrobiol 100:97–105

    Article  CAS  Google Scholar 

  • Lu XM, Lu PZ (2014a) Characterization of bacterial communities in sediments receiving various wastewater effluents with high-throughput sequencing analysis. Microb Ecol 67:612–623

    Article  CAS  PubMed  Google Scholar 

  • Lu XM, Lu PZ (2014b) Effects of farmhouse hotel and paper mill effluents on bacterial community structures in sediment and surface water of Nanxi River, China. Microb Ecol 68:773–784

    Article  PubMed  Google Scholar 

  • Lu XM, Lu PZ (2014c) Diversity, abundance, and spatial distribution of riverine microbial communities response to effluents from swine farm versus farmhouse restaurant. Appl Microbiol Biotechnol 98:7597–7608

    Article  CAS  PubMed  Google Scholar 

  • Lymer D, Logue JB, Brussaard CPD, Baudoux AC, Vrede K, Lindstrom ES (2008) Temporal variation in freshwater viral and bacterial community composition. Freshw Biol 53:1163–1175

    Article  CAS  Google Scholar 

  • Marshall MM, Amos RN, Henrich VC, Rublee PA (2008) Developing SSU rDNA metagenomic profiles of aquatic microbial communities for environmental assessments. Ecol Indic 8:442–453

    Article  Google Scholar 

  • 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

    Article  CAS  Google Scholar 

  • Martins G, Terada A, Ribeiro DC, Corral AM, Brito AG, Smets BF, Nogueira R (2011) Structure and activity of lacustrine sediment bacteria involved in nutrient and iron cycles. FEMS Microbiol Ecol 77:666–679

    Article  CAS  PubMed  Google Scholar 

  • Nam YD, Sung Y, Chang HW, Roh SW, Kim KH, Rhee SK, Kim JC, Kim JY, Yoon JH, Bae JW (2008) Characterization of the depth-related changes in the microbial communities in Lake Hovsgol sediment by 16S rRNA gene-based approaches. J Microbiol 46:125–136

    Article  CAS  PubMed  Google Scholar 

  • Pearce DA (2005) The structure and stability of the bacterioplankton community in Antarctic freshwater lakes, subject to extremely rapid environmental change. FEMS Microbiol Ecol 53:61–72

    Article  CAS  PubMed  Google Scholar 

  • Pirlot S, Vanderheyden J, Descy JP, Servais P (2005) Abundance and biomass of heterotrophic microorganisms in Lake Tanganyika. Freshw Biol 50:1219–1232

    Article  Google Scholar 

  • Schwarz JIK, Eckert W, Conrad R (2007) Community structure of Archaea and Bacteria in a profundal lake sediment Lake Kinneret (Israel). Syst Appl Microbiol 30:239–254

    Article  CAS  PubMed  Google Scholar 

  • Shao KQ, Gao G, Wang YP, Tang XM, Qin BQ (2013) Vertical diversity of sediment bacterial communities in two different trophic states of the eutrophic Lake Taihu, China. J Environ Sci 25:1186–1194

    Article  CAS  Google Scholar 

  • Song H, Li Z, Du B, Wang G, Ding Y (2012) Bacterial communities in sediments of the shallow Lake Dongping in China. J Appl Microbiol 112:79–89

    Article  CAS  PubMed  Google Scholar 

  • Steger K, Premke K, Gudasz C, Sundh I, Tranvik LJ (2011) Microbial biomass and community composition in boreal lake sediments. Limnol Oceanogr 56:725–733

    Article  CAS  Google Scholar 

  • Su XM, Zhang Q, Hu JX, Hashmi MZ, Ding LX, Shen CF (2015) Enhanced degradation of biphenyl from PCB-contaminated sediments: the impact of extracellular organic matter from Micrococcus luteus. Appl Microbiol Biotechnol 99:1989–2000

    Article  CAS  PubMed  Google Scholar 

  • Szabo G, Khayer B, Rusznyak A, Tatrai I, Devai G, Marialigeti K, Borsodi AK (2011) Seasonal and spatial variability of sediment bacterial communities inhabiting the large shallow Lake Balaton. Hydrobiologia 663:217–232

    Article  CAS  Google Scholar 

  • Thevenon F, Graham ND, Herbez A, Wildi W, Pote J (2011) Spatiotemporal distribution of organic and inorganic pollutants from Lake Geneva (Switzerland) reveals strong interacting effects of sewage treatment plant and eutrophication on microbial abundance. Chemosphere 84:609–617

    Article  CAS  PubMed  Google Scholar 

  • Tijdens M, Hoogveld HL, Kamst-van Agterveld MP, Simis SGH, Baudoux AC, Laanbroek HJ, Gons HJ (2008) Population dynamics and diversity of viruses, bacteria and phytoplankton in a shallow eutrophic lake. Microb Ecol 56:29–42

    Article  PubMed  PubMed Central  Google Scholar 

  • Tšertova N, Kisand A, Baty F, Kisand V (2013) Homogeneous microbial diversity in the upper sediment layers of a shallow lake. Aquat Microb Ecol 70:77–85

    Article  Google Scholar 

  • Vila-Costa M, Barberan A, Auguet JC, Sharma S, Moran MA, Casamayor EO (2013) Bacterial and archaeal community structure in the surface microlayer of high mountain lakes examined under two atmospheric aerosol loading scenarios. FEMS Microbiol Ecol 84:387–397

    Article  CAS  PubMed  Google Scholar 

  • Wang SH (2012) Manual for sediment mass investigation and assessment. Science Press, Beijing

    Google Scholar 

  • Wang Q, Garrity GM, Tiedje JM, Cole JR (2007) Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 73:5261–5267

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Wang SR, Zheng BH, Chen C, Dohmann M, Kolditz O (2015a) Thematic issue: water of the Erhai and Dianchi Lakes. Environ Earth Sci 74:3685–3688

    Article  Google Scholar 

  • Wang Z, Yang YY, He T, Xie SG (2015b) Change of microbial community structure and functional gene abundance in nonylphenol-degrading sediment. Appl Microbiol Biotechnol 99:3259–3268

    Article  CAS  PubMed  Google Scholar 

  • Wei CL, Bao SM, Zhu XY, Huang XM (2008) Spatio-temporal variations of the bacterioplankton community composition in Chaohu Lake, China. Prog Nat Sci 18:1115–1122

    Article  CAS  Google Scholar 

  • Wu L, Yu YH, Zhang TL, Feng WS, Zhang X, Li W (2009) PCR-DGGE fingerprinting analysis of plankton communities and its relationship to lake trophic status. Int Rev Hydrobiol 94:528–541

    Article  CAS  Google Scholar 

  • Wu HT, Zhang JX, Mi ZL, Xie SG, Chen C, Zhang XJ (2015) Biofilm bacterial communities in urban drinking water distribution systems transporting waters with different purification strategies. Appl Microbiol Biotechnol 99:1947–1955

    Article  CAS  PubMed  Google Scholar 

  • Xie W, Zhang CL, Zhou XD, Wang P (2014) Salinity-dominated change in community structure and ecological function of Archaea from the lower Pearl River to coastal South China Sea. Appl Microbiol Biotechnol 98:7971–7982

    Article  CAS  PubMed  Google Scholar 

  • Xiong W, Xie P, Wang SR, Niu Y, Yang X, Chen WJ (2015) Sources of organic matter affect depth-related microbial community composition in sediments of Lake Erhai, Southwest China. J Limnol 74:310–323

    Google Scholar 

  • Yang YY, Wang Z, He T, Dai Y, Xie SG (2015a) Sediment bacterial communities associated with anaerobic biodegradation of bisphenol A. Microb Ecol 70:97–104

    Article  CAS  PubMed  Google Scholar 

  • Yang YY, Zhang JX, Zhao Q, Zhou QH, Li NN, Wang YL, Xie SG, Liu Y (2015b) Sediment ammonia-oxidizing microorganisms in two plateau freshwater lakes at different trophic states. Microb Ecol. doi:10.1007/s00248-015-0642-3

    Google Scholar 

  • Yannarell AC, Kent AD, Lauster GH, Kratz TK, Triplett EW (2003) Temporal patterns in bacterial communities in three temperate lakes of different trophic status. Microb Ecol 46:391–405

    Article  CAS  PubMed  Google Scholar 

  • 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

    Article  CAS  Google Scholar 

  • Yu C, Zhang J, Wu L, Liu YZ, Ge G (2015) Effects of heavy metal and nutrients on benthic microbial communities in freshwater sediment of Poyang Lake (China). J Residuals Sci Technol 12:105–111

    Article  CAS  Google Scholar 

  • Zeng J, Yang LY, Liang Y, Li JY, Xiao L, Jiang LJ, Zhao DY (2008) Spatial distribution of bacterial communities in sediment of a eutrophic lake revealed by denaturing gradient gel electrophoresis and multivariate analysis. Can J Microbiol 54:1053–1063

    Article  CAS  PubMed  Google Scholar 

  • Zeng J, Yang LY, Li JY, Liang Y, Xiao L, Jiang LJ, Zhao DY (2009) Vertical distribution of bacterial community structure in the sediments of two eutrophic lakes revealed by denaturing gradient gel ectrophoresis (DGGE) and multivariate analysis techniques. World J Microbiol Biotechnol 25:225–233

    Article  CAS  Google Scholar 

  • Zhang X, Yan QY, Yu YH, Dai LL (2014) Spatiotemporal pattern of bacterioplankton in Donghu Lake. Chin J Oceanol Limnol 32:554–564

    Article  CAS  Google Scholar 

  • Zhang JX, Yang YY, Zhao L, Li YZ, Xie SG, Liu Y (2015a) Distribution of sediment bacterial and archaeal communities in plateau freshwater lakes. Appl Microbiol Biotechnol 99:3291–3302

    Article  CAS  PubMed  Google Scholar 

  • Zhang HH, Huang TL, Chen SN, Yang X, Lv K, Sekar R (2015b) Abundance and diversity of bacteria in oxygen minimum drinking water reservoir sediments studied by quantitative PCR and pyrosequencing. Microb Ecol 69:618–629

    Article  PubMed  Google Scholar 

  • Zhao DY, Ma T, Zeng J, Yan WM, Jiang CL, Feng JW, Xu YN, Zhao HZ (2011) Phospholipid fatty acids analysis of the vertical distribution of microbial communities in eutrophic lake sediments. Int J Environ Sci Technol 8:571–580

    Article  CAS  Google Scholar 

  • Zwirglmaier K, Keiz K, Engel M, Geist J, Raeder U (2015) Seasonal and spatial patterns of microbial diversity along a trophic gradient in the interconnected lakes of the Osterseen Lake District, Bavaria. Front Microbiol 6:1168

    Article  PubMed  PubMed Central  Google Scholar 

Download references

Acknowledgments

This work was financially supported by the National Natural Science Foundation of China (No. 41571444), National Basic Research Program of China (2015CB458900), and special fund of State Key Joint Laboratory of Environment Simulation and Pollution Control (15L02ESPC).

Author information

Author notes

    Authors and Affiliations

    1. State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China

      Yu Dai, Yuyin Yang & Shuguang Xie

    2. Key Laboratory of Water and Sediment Sciences (Ministry of Education), College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China

      Zhen Wu, Qiuyuan Feng & Yong Liu

    Authors
    1. Yu Dai
      View author publications

      You can also search for this author in PubMed Google Scholar

    2. Yuyin Yang
      View author publications

      You can also search for this author in PubMed Google Scholar

    3. Zhen Wu
      View author publications

      You can also search for this author in PubMed Google Scholar

    4. Qiuyuan Feng
      View author publications

      You can also search for this author in PubMed Google Scholar

    5. Shuguang Xie
      View author publications

      You can also search for this author in PubMed Google Scholar

    6. Yong Liu
      View author publications

      You can also search for this author in PubMed Google Scholar

    Corresponding authors

    Correspondence to Shuguang Xie or Yong Liu.

    Ethics declarations

    The work has not been published previously and not under consideration for publication elsewhere.

    Conflict of interest

    The authors declare that they have no competing interests.

    Additional information

    Yu Dai and Yuyin Yang contributed equally to this work.

    Electronic supplementary material

    Below is the link to the electronic supplementary material.

    ESM 1

    (PDF 322 kb)

    Rights and permissions

    Reprints and permissions

    About this article

    Check for updates. Verify currency and authenticity via CrossMark

    Cite this article

    Dai, Y., Yang, Y., Wu, Z. et al. Spatiotemporal variation of planktonic and sediment bacterial assemblages in two plateau freshwater lakes at different trophic status. Appl Microbiol Biotechnol 100, 4161–4175 (2016). https://doi.org/10.1007/s00253-015-7253-2

    Download citation

    • Received:

    • Revised:

    • Accepted:

    • Published:

    • Issue Date:

    • DOI: https://doi.org/10.1007/s00253-015-7253-2

    Keywords

    Search

    Navigation