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RESEARCH ARTICLE (Open Access)

Impact of inundation on soil microbiology

Timothy J. Ralph https://orcid.org/0000-0002-4956-606X A and Tsuyoshi Kobayashi https://orcid.org/0000-0002-3641-4120 A B *
+ Author Affiliations
- Author Affiliations

A School of Natural Sciences, Macquarie University, Sydney, NSW 2019, Australia.

B Science, Economics and Insights Division, NSW Department of Planning and Environment, Lidcombe, NSW 2141, Australia.




Tim Ralph is Senior Lecturer at Macquarie University. He has been studying the geomorphology and ecology of rivers and wetlands for >20 years.



Tsuyoshi (Yoshi) Kobayashi is Senior Research Scientist at the NSW Department of Planning and Environment. He has been studying the ecology of microbial communities (plankton and bacteria) in freshwater systems for >25 years.

Microbiology Australia 44(4) 181-184 https://doi.org/10.1071/MA23052
Submitted: 8 August 2023  Accepted: 22 September 2023  Published: 31 October 2023

© 2023 The Author(s) (or their employer(s)). Published by CSIRO Publishing on behalf of the ASM. This is an open access article distributed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License (CC BY-NC-ND)

Abstract

Genetic sequencing as well as culture-based studies have revealed diverse aerobic and anaerobic microbes across a range of aquatic environments in floodplain wetlands. Hydrological conditions related to riverine inundation are a predominant factor determining the structure and function of soil bacterial communities in floodplain wetlands. Despite their complex mosaics of topography, landforms and aquatic habitats, some consistent response patterns are observed among soil bacterial communities with changing inundation patterns and history. Considering hydrological events and changes as a form of disturbance, Connell’s ‘intermediate disturbance hypothesis’ has been used to explain the observed bell-shaped response of soil microbial communities with varying hydrological conditions. Further application and testing of general ecological theories and hypotheses may help advance our understanding and predictive modelling capability for the dynamics of floodplain soil bacterial communities with changing hydrological conditions.

Keywords: Actinobacteria, Cyanobacteria, flooding, floodplain microbes, floodplain wetlands, fluvial geomorphology, hydrological regimes, Proteobacteria, relative abundances, taxonomic and functional diversity.

Biographies

MA23052_B1.gif

Tim Ralph is Senior Lecturer at Macquarie University. He has been studying the geomorphology and ecology of rivers and wetlands for >20 years.

MA23052_B2.gif

Tsuyoshi (Yoshi) Kobayashi is Senior Research Scientist at the NSW Department of Planning and Environment. He has been studying the ecology of microbial communities (plankton and bacteria) in freshwater systems for >25 years.

References

Kim SY et al. (2008) Comparative analysis of soil microbial communities and their responses to the short-term drought in bog, fen, and riparian wetlands. Soil Biol Biochem 40, 2874-2880.
| Crossref | Google Scholar |

Ligi T et al. (2014) Characterization of bacterial communities in soil and sediment of a created riverine wetland complex using high-throughput 16S rRNA amplicon sequencing. Ecol Eng 72, 56-66.
| Crossref | Google Scholar |

Limpert KE et al. (2020) Reducing emissions from degraded floodplain wetlands. Front Environ Sci 8, 8.
| Crossref | Google Scholar |

Shen R et al. (2021) Flooding variations affect soil bacterial communities at the spatial and inter-annual scales. Sci Total Environ 759, 143471.
| Crossref | Google Scholar | PubMed |

Pazinato JM et al. (2010) Molecular characterization of the archaeal community in an Amazonian wetland soil and culture-dependent isolation of methanogenic archaea. Diversity 2, 1026-1047.
| Crossref | Google Scholar |

Baldwin DS, Mitchell AM (2000) The effects of drying and re‐flooding on the sediment and soil nutrient dynamics of lowland river–floodplain systems: a synthesis. Regul Rivers: Res Mgmt 16, 457-467.
| Crossref | Google Scholar |

Boon PI et al. (1997) Effects of wetting and drying on methane emissions from ephemeral floodplain wetlands in south-eastern Australia. Hydrobiologia 357, 73-87.
| Crossref | Google Scholar |

Argiroff WA et al. (2017) Microbial community functional potential and composition are shaped by hydrologic connectivity in riverine floodplain soils. Microb Ecol 73, 630-644.
| Crossref | Google Scholar | PubMed |

Kobayashi T et al. (2020) Influence of historical inundation frequency on soil microbes (Cyanobacteria, Proteobacteria, Actinobacteria) in semi-arid floodplain wetlands. Mar Freshwater Res 71, 617-625.
| Crossref | Google Scholar |

10  Hartman WH et al. (2008) Environmental and anthropogenic controls over bacterial communities in wetland soils. Proc Natl Acad Sci USA 105, 17842-17847.
| Crossref | Google Scholar | PubMed |

11  Mellado M, Vera J (2021) Microorganisms that participate in biochemical cycles in wetlands. Can J Microb 67, 771-788.
| Crossref | Google Scholar | PubMed |

12  Wilson JS et al. (2011) The effects of short-term inundation on carbon dynamics, microbial community structure and microbial activity in floodplain soil. River Res Appl 27, 213-225.
| Crossref | Google Scholar |

13  Rana A et al. (2021) Planktonic metabolism and microbial carbon substrate utilization in response to inundation in semiarid floodplain wetlands. J Geophys Res Biogeosci 126, e2019JG005571.
| Crossref | Google Scholar |

14  Garrett WS, Onderdonk AB (2015) Bacteroides, Prevotella, Porphyromonas, and Fusobacterium species (and other medically important anaerobic Gram-negative bacilli). In Mandell, Douglas, and Bennett’s Principles and Practice of Infectious Diseases (Bennett JE, et al., eds). pp. 2773–2780. Saunders, an imprint of Elsevier Inc., Philadelphia, PA, USA.

15  Kersters K et al. (2006) Introduction to the Proteobacteria. In The Prokaryotes: a Handbook on the Biology of Bacteria (Dworkin M, et al., eds) pp. 3–37. Springer, New York, NY, USA.

16  Marín I (2015) Proteobacteria. In Encyclopedia of Astrobiology (Gargaud M, et al., eds). pp. 2036–2037. Springer, Heidelberg, Germany.

17  Oren A (2023) Euryarchaeota. In Encyclopedia of Life Sciences (eLS). pp. 1–17. John Wiley & Sons, Ltd. 10.1002/9780470015902.a0004243.pub3

18  Gavande PV et al. (2021) Functional characterization of thermotolerant microbial consortium for lignocellulolytic enzymes with central role of Firmicutes in rice straw depolymerization. Sci Rep 11, 3032.
| Crossref | Google Scholar | PubMed |

19  Fuerst JA, Sagulenko E (2011) Beyond the bacterium: planctomycetes challenge our concepts of microbial structure and function. Nat Rev Microbiol 9, 403-413.
| Crossref | Google Scholar | PubMed |

20  Barka EA et al. (2016) Taxonomy, physiology, and natural products of Actinobacteria. Microbiol Mol Biol Rev 80, 1-43.
| Crossref | Google Scholar | PubMed |

21  Eichorst SA et al. (2018) Genomic insights into the Acidobacteria reveal strategies for their success in terrestrial environment. Environ Microbiol 20, 1041-1063.
| Crossref | Google Scholar | PubMed |

22  Shi L et al. (2010) Diversity and abundance of aerobic anoxygenic phototrophic bacteria in two cyanobacterial bloom-forming lakes in China. Int J Limnol 46, 233-239.
| Crossref | Google Scholar |

23  Fujita Y et al. (2015) Evolutionary aspects and regulation of tetrapyrrole biosynthesis in Cyanobacteria under aerobic and anaerobic environments. Life 5, 1172-1203.
| Crossref | Google Scholar | PubMed |

24  Agrawal SC, Singh V (2002) Viability of dried filaments, survivability and reproduction under water stress, and survivability following heat and UV exposure in Lyngbya martensiana, Oscillatoria agardhii, Nostoc calcicola, Hormidium fluitans, Spirogyra sp. and Vaucheria geminata. Folia Microbiol 47, 61-67.
| Crossref | Google Scholar | PubMed |

25  Kaplan-Levy RN et al. (2010) Akinetes: dormant cells of Cyanobacteria. In Dormancy and Resistance in Harsh Environments, Topics in Current Genetics 21 (Lubzens E, et al., eds). pp. 5–27. Springer-Verlag, Berlin, Germany.

26  Ralph TJ, Hesse PP (2010) Downstream hydrogeomorphic changes along the Macquarie River, southeastern Australia, leading to channel breakdown and floodplain wetlands. Geomorphology 118, 48-64.
| Crossref | Google Scholar |

27  Ralph TJ et al. (2016) Wandering wetlands: spatial patterns of historical channel and floodplain change in the Ramsar-listed Macquarie Marshes, Australia. Mar Freshwater Res 67, 782-802.
| Crossref | Google Scholar |

28  Peralta AL et al. (2014) Bacterial community response to changes in soil redox potential along a moisture gradient in restored wetlands. Ecol Eng 73, 246-253.
| Crossref | Google Scholar |

29  Connell JH (1978) Diversity in tropical rain forests and coral reefs: high diversity of trees and corals is maintained only in a nonequilibrium state. Science 199(4335), 1302-1310.
| Crossref | Google Scholar |

30  Colloff MJ, Baldwin DS (2010) Resilience of floodplain ecosystems in a semi-arid environment. Rangel J 32, 305-314.
| Crossref | Google Scholar |

31  Rayburg S et al. (2023) The impact of flood frequency on the heterogeneity of floodplain surface soil properties. Soil Syst 7, 63.
| Crossref | Google Scholar |

32  Hoagland B et al. (2019) Controls on nitrogen transformation rates on restored floodplains along the Cosumnes River, California. Sci Total Environ 649, 979-994.
| Crossref | Google Scholar | PubMed |

33  Zhang Z, Furman A (2021) Soil redox dynamics under dynamic hydrologic regimes – a review. Sci Total Environ 763, 143026.
| Crossref | Google Scholar | PubMed |

34  Boon PI, Mitchell A (1995) Methanogenesis in the sediments of an Australian freshwater wetland: comparison with aerobic decay, and factors controlling methanogenesis. FEMS Microbiol Ecol 18, 175-190.
| Crossref | Google Scholar |

35  Burgin AJ, Hamilton SK (2007) Have we overemphasized the role of denitrification in aquatic ecosystems? A review of nitrate removal pathways. Front Ecol Environ 5, 89-96.
| Crossref | Google Scholar |

36  Shea K et al. (2004) Moving from pattern to process: coexistence mechanisms under intermediate disturbance regimes. Ecol Lett 7, 491-508.
| Crossref | Google Scholar |

37  Thomas RF et al. (2011) Landsat mapping of annual inundation (1979–2006) of the Macquarie Marshes in semi-arid Australia. Int J Remote Sens 32(16), 4545-4569.
| Crossref | Google Scholar |