Abstract
The hydrodynamic conditions determine the transport characteristics of sediment. Conversely, the bed morphology induced by sediment transport and the resistance characteristics also affects the hydrodynamic conditions. Biofilms can permeate void spaces and promote inter-particle linkages, and the resultant increased level of attachment within sediment deposits can significantly enhance biostabilization, leading to different bedforms from that of original sediment (sediment without a biofilm) under the same hydrodynamic condition. Thus, the influences of biofilm growth on hydrodynamics are mainly manifested in the influences on the bedform and the resistance to flow, which will further influence the turbulence characteristics and exert effects on sediment transport. In this chapter, the models of biofilm growth are first described to explore the biomass evolution, and then, the effects of biofilm on the bedform and resistance are discussed as well as the resultant effects on turbulence characteristics.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Alpkvist E, Klapper I (2007) A multidimensional multispecies continuum model for heterogeneous biofilm development. Bulletin of Mathematical Biology 69:765–789
Atkinson B, Davies IJ (1974) The overall rate of substrate uptake (reaction) by microbial films. Part I - A biological rate equation. Transactions of the American Institute of Chemical Engineers 52:260–268
Baas JH (1994) A flume study on the development and equilibrium morphology of current ripples in very fine sand. Sedimentology 41(2):185–209
Baas JH, Davies AG, Malarkey J (2013) Bedform development in mixed sand-mud: The contrasting role of cohesive forces in flow and bed. Geomorphology 182:19–32
Bartholdy J, Flemming BW, Ernstsen VB, Winter C, Bartholomä A (2010) Hydraulic roughness over simple subaqueous dunes. Geo-Marine Letters 30(1):63–76
Bartholdy J, Ernstsen VB, Flemming BW, Winter C, Bartholomä A, Kroon A (2015) On the formation of current ripples. Scientific Reports 5(11390). https://doi.org/10.1038/srep11390
Boulêtreau S, Garabétian F, Sauvage S, Sánchez-Pérez J (2006) Assessing the importance of a self-generated detachment process in river biofilm models. Freshwater Biology 51:901–912
Boulêtreau S, Izagirre O, Garabétian F, Sauvage S, Elosegi A, Sánchez-Pérez J (2008) Identification of a minimal adequate model to describe the biomass dynamics of river epilithon. River Research and Applications 24:36–53
Brownlie WR (1983) Flow depth in sand-bed channels. Journal of Hydraulic Engineering 109(7):959–990
Capdeville B, Nguyen KM, Rols JL (1992) Biofilm modelling: Structural, reactional and diffusional aspects. In: Melo LF (ed) Biofilms-science and technology. Springer, Netherlands, p 251–276
Chen YS (2017) Experiment on biofilm growth of cohesive sediment and effect on adsorption or desorption. Dissertation, Tsinghua University, Beijing (in Chinese)
Chen LM, Chai LH (2005) Research on dynamics of biofilm: Present status and perspective. Advances in Mechanics 35(3):411–416
Cheng W (2016) Experiment of bed resistance and turbulent characteristics above biofilm-coated bed. Dissertation, Tsinghua University, Beijing (in Chinese)
Cheng W, Fang HW, Lai HJ, Huang L, Dey S (2018) Effects of biofilm on turbulence characteristics and the transport of fine sediment. Journal of Soils and Sediments 18:3055–3069
Chien N, Wan Z (1999) Mechanics of sediment transport. ASCE Press, Reston, Virginia
Colasanti R (1992) Cellular automata models of microbial colonies. Binary 4:191–193
Dey S (2014) Fluvial hydrodynamics: Hydrodynamic and sediment transport phenomena. Springer-Verlag, Berlin, Germany
Dey S, Sarkar S, Solari L (2011) Near-bed turbulence characteristics at the entrainment threshold of sediment beds. Journal of Hydraulic Engineering 137:945–958
Dey S, Das R, Gaudio R, Bose SK (2012) Turbulence in mobile-bed streams. Acta Geophysica 60:1547–1588
Einstein HA (1950) The bed-load function for sediment transportation in open channel flows. Technical Bulletin Number 1026, United States Department of Agriculture, Soil Conservation Service, Washington, DC
Einstein HA, Barbarossa N (1952) River channel roughness. Transactions of the ASCE 117:1121–1146
Engelund F, Hansen E (1966) Investigations of flow in alluvial streams. Acta Polytechnica Scandinavica, Civil Engineering and Building Construction Series 35
Fang HW, Chen MH, Chen ZH, Zhao HM, He GJ (2013) Effects of sediment particle morphology on adsorption of phosphorus elements. International Journal of Sediment Research 28:246–253
Fang HW, Chen MH, Chen ZH, Zhao HM, He GJ (2014a) Simulation of sediment particle surface morphology and element distribution by the concept of mathematical sand. Journal of Hydro-environment Research 8:186–193
Fang HW, Shang QQ, Chen MH, He GJ (2014b) Changes in the critical erosion velocity for sediment colonized by biofilm. Sedimentology 61(3):648–659
Fang HW, Fazeli M, Cheng W, Huang L, Hu HY (2015) Biostabilization and transport of cohesive sediment deposits in the Three Gorges Reservoir. PLoS ONE 10(11):e0142673. https://doi.org/10.1371/journal.pone.0142673
Fang HW, Chen YS, Huang L, He GJ (2017a) Biofilm growth on cohesive sediment deposits: Laboratory experiment and model validation. Hydrobiologia 799:261–274
Fang HW, Cheng W, Fazeli M, Dey S (2017b) Bedforms and flow resistance of cohesive beds with and without biofilm coating. Journal of Hydraulic Engineering 143(8):06017010
Fang HW, Lai HJ, Cheng W, Huang L, He GJ (2017c) Modeling sediment transport with an integrated view of the biofilm effects. Water Resources Research 53:7536–7557
Garde RJ, Albertson ML (1959) Characteristics of bed forms and regimes of flow in alluvial channels. Report CER 59 RJG 9, Colorado State University, Fort Collins, Colorado
Gerbersdorf SU, Jancke T, Westrich B, Paterson DM (2008) Microbial stabilization of riverine sediments by extracellular polymeric substances. Geobiology 6(1):57–69
Gerbersdorf SU, Westrich B, Paterson DM (2009) Microbial extracellular polymeric substances (EPS) in fresh water sediments. Microbial Ecology 58(2):334–349
Goring DG, Nikora VI (2002) Despiking acoustic Doppler velocimeter data. Journal of Hydraulic Engineering 128(1):117–126
Graba M, Moulin FY, Boulêtreau S, Garabétian F, Kettab A, Eiff O, Sánchez Pérez JM, Sauvage S (2010) Effect of near-bed turbulence on chronic detachment of epilithic biofilm: Experimental and modeling approaches. Water Resources Research 46:1–15
Grabowski RC, Droppo IG, Wharton G (2011) Erodibility of cohesive sediment: The importance of sediment properties. Earth-Science Reviews 105:101–120
Guy HP, Simons DB, Richardson EV (1966) Summary of alluvial channel data from flume experiments 1956–61. Geological Survey Professional Paper 462-I, United States Government Printing Office, Washington, DC
Hagadorn JW, Mcdowell C (2012) Microbial influence on erosion, grain transport and bedform genesis in sandy substrates under unidirectional flow. Sedimentology 59:795–808
Higashino M, Clark JJ, Stefan HG (2009) Pore water flow due to near-bed turbulence and associated solute transfer in a stream or lake sediment bed. Water Resources Research 45:W12414. https://doi.org/10.1029/2008wr007374
Jacobs W, le Hir P, van Kesteren W, Cann P (2011) Erosion threshold of sand-mud mixtures. Continental Shelf Research 31(10):S14–S25
Jiang D, Huang Q, Cai P, Rong X, Chen W (2007) Adsorption of Pseudomonas putida on clay minerals and iron oxide. Colloids and Surfaces B: Biointerfaces 54:217–221
Kennedy JF (1969) The mechanics of dunes and antidunes in erodible bed channels. Journal of Fluid Mechanics 1:147–168
Kironoto BA, Graf WH (1994) Turbulence characteristics in rough uniform open-channel. In: Proceedings of the Institution of Civil Engineers - Water Maritime and Energy 106(4):333–344
Labiod C, Godillot R, Caussade B (2007) The relationship between stream periphyton dynamics and near-bed turbulence in rough open-channel flow. Ecological Modelling 209:78–96
Laspidou CS, Rittmann BE (2004a) Evaluating trends in biofilm density using the UMCCA model. Water Research 38:3362–3372
Laspidou CS, Rittmann BE (2004b) Modeling the development of biofilm density including active bacteria, inert biomass, and extracellular polymeric substances. Water Research 38(14):3349–3361
Lee MW, Park JM (2007) One-dimensional mixed-culture biofilm model considering different space occupancies of particulate components. Water Research 41:4317–4328
Lu SS, Willmarth WW (1973) Measurements of the structure of the Reynolds stress in a turbulent boundary layer. Journal of Fluid Mechanics 60:481–511
Lyautey E, Teissier S, Charcosset JY, Rols JL, Garabetian F (2003) Bacterial diversity of epilithic biofilm assemblages of an anthropised river section, assessed by DGGE analysis of a 16S rDNA fragment. Aquatic Microbial Ecology 33:217–224
Malarkey J, Baas JH, Hope JA, Aspden RJ, Parsons DR, Peakall J, Paterson DM, Schindler RJ, Ye L, Lichtman ID, Bass SJ, Davies AG, Manning AJ, Thorne PD (2015) The pervasive role of biological cohesion in bedform development. Nature Communications 6. https://doi.org/10.1038/ncomms7257
Mantz PA (1992) Cohesionless fine-sediment bed forms in shallow flows. Journal of Hydraulic Engineering 118(5):743–764
Mattei MR, Frunzo L, D’Acunto B, Pechaud Y, Pirozzi F, Esposito G (2018) Continuum and discrete approach in modeling biofilm development and structure: A review. Journal of Mathematical Biology 76(4):945–1003
Merkey BV, Rittmann BE, Chopp DL (2009) Modeling how soluble microbial products (SMP) support heterotrophic bacteria in autotroph-based biofilms. Journal of Theoretical Biology 259:670–683
More TT, Yadav J, Yan S, Tyagi RD, Surampalli RY (2014) Extracellular polymeric substances of bacteria and their potential environmental applications. Journal of Environmental Management 144:1–25
Moulin FY, Peltier Y, Bercovitz Y, Eiff O, Beer A, Pen C, Boulêtreau S, Garabetian F, Sellali M, Sanchez-Perez J, Sauvage S, Baque D (2008) Experimental study of the interaction between a turbulent flow and a river biofilm growing on macrorugosities. Advances in Hydro-science and Engineering, 8:1887–1896
Nelson PH (1994) Permeability-porosity relationships in sedimentary rocks. The Log Analyst 35:38–62
Nezu I, Nakagawa H (1993) Turbulence in open-channel flows. Balkema, Rotterdam
Nezu I, Rodi W (1986) Open-channel flow measurements with a laser Doppler anemometer. Journal of Hydraulic Engineering 112:335–355
Nikora V, Goring D (2000) Flow turbulence over fixed and weakly mobile gravel beds. Journal of Hydraulic Engineering - ASCE 126:679–690
Nikora VI, Goring DG, Biggs B (1997) On stream periphyton-turbulence interactions. New Zealand Journal of Marine and Freshwater Research 31:435–448
Nikora VI, Goring DG, Biggs B (2002) Some observations of the effects of micro-organisms growing on the bed of an open channel on the turbulence properties. Journal of Fluid Mechanics 450:317–341
Parsons DR, Schindler RJ, Hope JA, Malarkey J, Baas JH, Peakall J, Manning AJ, Ye L, Simmons S, Paterson DM, Aspden RJ, Bass SJ, Davies AG, Lichtman ID, Thorne PD (2016) The role of biophysical cohesion on subaqueous bed form size. Geophysical Research Letters 43:1566–1573
Paul E, Ochoa JC, Pechaud Y, Liu Y, Liné A (2012) Effect of shear stress and growth conditions on detachment and physical properties of biofilms. Water Research 46:5499–5508
Pizarro G, Griffeath D, Noguera DR (2001) Quantitative cellular automaton model for biofilms. Journal of Environmental Engineering 127:782–789
Ranga Raju KG, Soni JP (1976) Geometry of ripples and dunes in alluvial channels. Journal of Hydraulic Research 14(3):241–249
Righetti M, Lucarelli C (2007) May the Shields theory be extended to cohesive and adhesive benthic sediments? Journal of Geophysical Research: Oceans (1978–2012) 112:1–14
Rittmann BE, Manem JA (1992) Development and experimental evaluation of a steady-state, multispecies biofilm model. Biotechnology and Bioengineering 39(9):914–922
Rittmann BE, Stiwell D, Ohashi A (2002) The transient-state, multiple-species biofilm model for biofiltration processed. Water Research 36(9): 2342–2356
Schindler RJ, Parsons DR, Ye LP, Hope JA, Baas JH, Peakall J, Manning AJ, Aspden RJ, Malarkey J, Simmons S, Paterson DM, Lichtman ID, Davies AG, Thorne PD, Bass SJ (2015) Sticky stuff: Redefining bedform prediction in modern and ancient environments. Geology 43:399–402
Shao XJ, Wang XK (2005) Introduction to river mechanics. Tsinghua University Press, Beijing (in Chinese)
Simons DB, Richardson EV (1963) Form of bed roughness in alluvial channels. Transactions of the ASCE 128:284–323
Simons DB, Richardson EV (1966) Resistance to flow in alluvial channels. U.S. Geological Survey, Professional Paper 422-J
Simons DB, Richardson EV, Albertson ML (1961) Flume studies using medium sand (0.45Â mm). U.S. Geological Survey Water Supply Paper Number 1498-A
Song T, Chiew YM (2001) Turbulence measurement in nonuniform open-channel flow using acoustic Doppler velocimeter (ADV). Journal of Engineering Mechanics 127(3):219–232
Tang Y, Valocchi AJ (2013) An improved cellular automaton method to model multispecies biofilms. Water Research 47:5729–5742
Thom M, Schmidt H, Gerbersdorf SU, Wieprecht S (2015) Seasonal biostabilization and erosion behavior of fluvial biofilms under different hydrodynamic and light conditions. International Journal of Sediment Research 30:273–284
Tolhurst TJ, Consalvey M, Paterson DM (2008) Changes in cohesive sediment properties associated with the growth of a diatom biofilm. Hydrobiologia 596(1):225–239
Uehlinger URS, Bührer H, Reichert P (1996) Periphyton dynamics in a floodprone prealpine river: Evaluation of significant processes by modelling. Freshwater Biology 36:249–263
van den Berg JH, van Gelder A (1993) A new bedform stability diagram, with emphasis on the transition of ripples to plane bed in flows over fine sand and silt. In: Marzo M, Puigdefábregas C (eds) Alluvial sedimentation. Blackwell Publishing Ltd., Oxford, UK, p 11–21
van Rijn LC (1982) Equivalent roughness of alluvial bed. Journal of Hydraulic Engineering 108(10):1215–1218
van Rijn LC (1984) Sediment transport, part 3: Bed forms and alluvial roughness. Journal of Hydraulic Engineering 110(12):1733–1754
Vanoni VA, Brooks NH (1957) Laboratory studies of the roughness and suspended load of alluvial streams. Report E-68, Sedimentation Laboratory, California Institute of Technology, Pasadena, California
White WR, Paris E, Bettess R (1979) A new general method for predicting the frictional characteristics of alluvial streams. Report Number IT 187, Hydraulic Research Station, Wallingford, UK
Wilson AM, Huettel M, Klein S (2008) Grain size and depositional environment as predictors of permeability in coastal marine sands. Estuarine, Coastal and Shelf Science 80:193–199
Wimpenny JWT, Colasanti R (1997) A unifying hypothesis for the structure of microbial biofilms based on cellular automaton models. FEMS Microbiology Ecology 22(1):1–16
Yalin MS (1972) Mechanics of sediment transport. Pergamon, Oxford, UK
Yalin MS (1992) River mechanics. Pergamon, Oxford, UK
Yalin MS, Karahan E (1979) Steepness of sedimentary dunes. Journal of the Hydraulics Division, ASCE 105(4):381–392
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
Copyright information
© 2020 The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer-Verlag GmbH, DE, part of Springer Nature
About this chapter
Cite this chapter
Fang, H. et al. (2020). Biofilm Growth and the Impacts on Hydrodynamics. In: Mechanics of Bio-Sediment Transport. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-662-61158-6_3
Download citation
DOI: https://doi.org/10.1007/978-3-662-61158-6_3
Published:
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-662-61156-2
Online ISBN: 978-3-662-61158-6
eBook Packages: Earth and Environmental ScienceEarth and Environmental Science (R0)